Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168071.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_32, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 761692
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 9 of 17
Found at i:326115 original size:29 final size:29
Alignment explanation
Indices: 326073--326203 Score: 76
Period size: 29 Copynumber: 4.5 Consensus size: 29
326063 ATTATATTAG
* *
326073 ATAATAATATTATATTATAATAATATATT
1 ATAATTATAATATATTATAATAATATATT
326102 ATAATTATAATATATT-TGAATTAATATA-T
1 ATAATTATAATATATTAT-AA-TAATATATT
* * *
326131 A-ATTTAATAATATAGTTAATATTATATATATA
1 ATAATT-ATAATATA-TT-ATAATA-ATATATT
* * *
326163 ACAATTTTAATATA--ATAATTATATTATT
1 ATAATTATAATATATTATAATAATA-TATT
*
326191 AT-ATTATTATATA
1 ATAATTATAATATA
326204 ATAAATATAA
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
27 12 0.15
28 12 0.15
29 26 0.33
30 11 0.14
31 6 0.08
32 9 0.11
33 3 0.04
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (29 bp):
ATAATTATAATATATTATAATAATATATT
Found at i:326160 original size:45 final size:45
Alignment explanation
Indices: 326056--326161 Score: 121
Period size: 45 Copynumber: 2.3 Consensus size: 45
326046 GTTTTAATCT
326056 TTATATTAT-TATATTAGATAATAATATTATATTATAATAATATA
1 TTATATTATATATATTAGATAATAATATTATATTATAATAATATA
* *
326100 TTATAATTATAATATATTTGA-ATTAATA-TATAATT-TAATAATATA
1 TTAT-ATTAT-ATATATTAGATAATAATATTAT-ATTATAATAATATA
326145 GTTAATATTATATATAT
1 -TT-ATATTATATATAT
326162 AACAATTTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
44 4 0.07
45 24 0.44
46 16 0.30
47 10 0.19
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (45 bp):
TTATATTATATATATTAGATAATAATATTATATTATAATAATATA
Found at i:327962 original size:11 final size:10
Alignment explanation
Indices: 327941--327993 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
327931 TATGTTTTTG
327941 TTAAT-TTAA
1 TTAATATTAA
327950 TTTAATATTAA
1 -TTAATATTAA
327961 TTAATATTTAA
1 TTAATA-TTAA
*
327972 TTAATAAATAA
1 TTAAT-ATTAA
327983 -TAATATTAA
1 TTAATATTAA
327992 TT
1 TT
327994 GCATATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 4 0.11
10 16 0.43
11 16 0.43
12 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TTAATATTAA
Found at i:328763 original size:9 final size:9
Alignment explanation
Indices: 328744--328791 Score: 60
Period size: 9 Copynumber: 5.0 Consensus size: 9
328734 AAATAATAAT
328744 TTATAAATTA
1 TTAT-AATTA
328754 TTATAATTA
1 TTATAATTA
*
328763 TTATAATTG
1 TTATAATTA
328772 TTATAATATA
1 TTATAAT-TA
328782 TTATTAATTA
1 TTA-TAATTA
328792 AATTAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 20 0.59
10 10 0.29
11 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
TTATAATTA
Found at i:329559 original size:181 final size:180
Alignment explanation
Indices: 329047--329577 Score: 536
Period size: 177 Copynumber: 2.9 Consensus size: 180
329037 CAAAAAATTT
* * * * * * * *
329047 TAATGATTTGAGATTGATAATTGTTCAAATAGTCATAATTATTTGAACTAGTTTTGTAAACAGAT
1 TAATGATTGGAAATAGATAATTGTTCAAATAATCATAATTATTTAAACTTGTTTAGTAAACAAAT
* * * * *
329112 TTATTGTTTAAATCTATTACCTATT-ATTTTTGAAATATTAATCAATTAGTATTATTTTATT-TC
66 TTATTTTTTAAATCT-TTTCTTATTAATTTTCGAAATATTAATAAATTAGTATTATTTTATTCT-
** * * *
329175 GAATAAGCTTGTATGATAAAAAAAACAATTGTATTATGACAAAATAAAAGGTCA
129 GAATAAGCTTGTATG--AAATGAAACAATTATTTTATGACAAAATAAAAGATCA
* * * *
329229 TAATGATTGGAAATAGATAATTATTCAAATGACCATAATTATTTTAAC-TGATTTAGTAAACAAA
1 TAATGATTGGAAATAGATAATTGTTCAAATAATCATAATTATTTAAACTTG-TTTAGTAAACAAA
** *
329293 TTTATTTTTTAAA---TTTCTTATTAATTTAGGAAATATTAATAAATTAGTATTATTTTATTC-C
65 TTTATTTTTTAAATCTTTTCTTATTAATTTTCGAAATATTAATAAATTAGTATTATTTTATTCTG
* * * * *
329354 ATCTAAGCTTGTATTAACTGAAACAATTATTTTATGACAAATTAAAAGATTA
130 A-ATAAGCTTGTATGAAATGAAACAATTATTTTATGACAAAATAAAAGATCA
* ** * * ** *
329406 TAATGTTTTTAAATAGATAATTGTTCAAATAATAATAACTATTTAAACTTGTTCGGCAAACAAAT
1 TAATGATTGGAAATAGATAATTGTTCAAATAATCATAATTATTTAAACTTGTTTAGTAAACAAAT
* * * * *
329471 TTATTTTTTAAATCTCTTTCTTATTAATTTTCCAATTGTTAATAAATTAATATTAATTTATTCTG
66 TTATTTTTTAAATCT-TTTCTTATTAATTTTCGAAATATTAATAAATTAGTATTATTTTATTCTG
* *
329536 AATAAGCTTGTATGAATTGAAACAATTCTTTTATGACTAAAA
130 AATAAGCTTGTATGAAATGAAACAATTATTTTATGAC-AAAA
329578 AGTGGTCAAA
Statistics
Matches: 285, Mismatches: 53, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
177 91 0.32
178 10 0.04
179 44 0.15
181 73 0.26
182 67 0.24
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (180 bp):
TAATGATTGGAAATAGATAATTGTTCAAATAATCATAATTATTTAAACTTGTTTAGTAAACAAAT
TTATTTTTTAAATCTTTTCTTATTAATTTTCGAAATATTAATAAATTAGTATTATTTTATTCTGA
ATAAGCTTGTATGAAATGAAACAATTATTTTATGACAAAATAAAAGATCA
Found at i:330207 original size:17 final size:16
Alignment explanation
Indices: 330184--330227 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
330174 TTAAATTTTT
330184 AATATTAATAATAG-AA
1 AATATTAATAAT-GTAA
330200 ATATATTAAT-ATGTAA
1 A-ATATTAATAATGTAA
330216 AATATTAATAAT
1 AATATTAATAAT
330228 TAAGATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
AATATTAATAATGTAA
Found at i:330225 original size:23 final size:22
Alignment explanation
Indices: 330182--330230 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
330172 TTTTAAATTT
330182 TTAATATTAATAATAGAAATATA
1 TTAATATTAATAATAGAAATA-A
**
330205 TTAATATGTAA-AATATTAATAA
1 TTAATAT-TAATAATAGAAATAA
330227 TTAA
1 TTAA
330231 GATTGTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 15 0.65
24 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
TTAATATTAATAATAGAAATAA
Found at i:330546 original size:18 final size:17
Alignment explanation
Indices: 330514--330552 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
330504 CATTATTAAT
**
330514 TATTAATAATGATATTTA
1 TATTAATAAAAATA-TTA
330532 TATTAATAAAAATATTA
1 TATTAATAAAAATATTA
330549 TATT
1 TATT
330553 CATTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TATTAATAAAAATATTA
Found at i:330710 original size:39 final size:38
Alignment explanation
Indices: 330631--330746 Score: 118
Period size: 37 Copynumber: 3.1 Consensus size: 38
330621 AATAAGGTAC
* * *
330631 ATTTATAATTAATATTTAAATTATAAA--TATTAATAATT
1 ATTT-TAA-TAATATTTTAATAATAAATTTATTAATTATT
330669 ATTTTAATGAATATTTTAATAATAAATTTATTAATTATT
1 ATTTTAAT-AATATTTTAATAATAAATTTATTAATTATT
330708 ATTTTAATAA-A--TTAATAAT-AATTATATTATATTATT
1 ATTTTAATAATATTTTAATAATAAATT-TATTA-ATTATT
330744 ATT
1 ATT
330747 ATTGATAACA
Statistics
Matches: 70, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
34 4 0.06
35 13 0.19
36 10 0.14
37 19 0.27
38 6 0.09
39 18 0.26
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.53
Consensus pattern (38 bp):
ATTTTAATAATATTTTAATAATAAATTTATTAATTATT
Found at i:330731 original size:23 final size:24
Alignment explanation
Indices: 330688--330732 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
330678 AATATTTTAA
* *
330688 TAATAAATTTATTAATTATTATTT
1 TAATAAATTTAATAATAATTATTT
330712 TAATAAA-TTAATAATAATTAT
1 TAATAAATTTAATAATAATTAT
330733 ATTATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATAAATTTAATAATAATTATTT
Found at i:331354 original size:11 final size:11
Alignment explanation
Indices: 331307--331377 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
331297 TATCTCAATT
331307 TATAATTATAA
1 TATAATTATAA
* *
331318 TATAGTTACAA
1 TATAATTATAA
*
331329 -CTAATTATAA
1 TATAATTATAA
331339 TATAATT-TAA
1 TATAATTATAA
*
331349 TAATAACTATAA
1 T-ATAATTATAA
*
331361 -ATTAATTATAT
1 TA-TAATTATAA
331372 TATAAT
1 TATAAT
331378 AATTAATAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
10 12 0.26
11 30 0.65
12 4 0.09
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (11 bp):
TATAATTATAA
Found at i:331365 original size:17 final size:16
Alignment explanation
Indices: 331330--331386 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
331320 TAGTTACAAC
* *
331330 TAATTATAATATAATT
1 TAATAATAATATAAAT
331346 TAATAATAACTATAAAT
1 TAATAATAA-TATAAAT
* *
331363 TAATTATATTATAATAAT
1 TAATAATAATAT-A-AAT
331381 TAATAA
1 TAATAA
331387 ACTATATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 11 0.33
17 14 0.42
18 8 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATAATAATATAAAT
Found at i:331390 original size:33 final size:34
Alignment explanation
Indices: 331330--331414 Score: 99
Period size: 33 Copynumber: 2.6 Consensus size: 34
331320 TAGTTACAAC
*
331330 TAATTATAATATAAT-TTAATAATAACTATA-AA
1 TAATTATATTATAATATTAATAATAACTATATAA
331362 TTAATTATATTATAATAATTAAT-A-AACTATATAA
1 -TAATTATATTATAAT-ATTAATAATAACTATATAA
*
331396 TAATT-TATTATCATATTAA
1 TAATTATATTATAATATTAA
331415 AAAATAATCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
31 5 0.11
32 8 0.17
33 26 0.55
34 3 0.06
35 5 0.11
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (34 bp):
TAATTATATTATAATATTAATAATAACTATATAA
Found at i:331803 original size:14 final size:15
Alignment explanation
Indices: 331775--331807 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
331765 CTAATTTTTT
*
331775 ATTATTTAATTAAAA
1 ATTATTTAATGAAAA
331790 ATTA-TTAATGAAAA
1 ATTATTTAATGAAAA
331804 ATTA
1 ATTA
331808 ATTATTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATTATTTAATGAAAA
Found at i:332015 original size:17 final size:17
Alignment explanation
Indices: 331990--332032 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
331980 TAATATTTAG
*
331990 AATATATTAATTAATTAA
1 AATA-ATTAATTAATGAA
* *
332008 ATTAATTAATTTATGAA
1 AATAATTAATTAATGAA
332025 AATAATTA
1 AATAATTA
332033 TAATTATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATAATTAATTAATGAA
Found at i:332044 original size:12 final size:12
Alignment explanation
Indices: 332029--332109 Score: 58
Period size: 12 Copynumber: 6.5 Consensus size: 12
332019 TATGAAAATA
332029 ATTATAATTATT
1 ATTATAATTATT
*
332041 ATTATATTTATT
1 ATTATAATTATT
* *
332053 GTTATTATATTATAAC
1 ATTA-TA-ATTAT--T
*
332069 AATATAA-TATT
1 ATTATAATTATT
332080 ATT-TATATTATT
1 ATTATA-ATTATT
*
332092 ATTATAATAATT
1 ATTATAATTATT
332104 ATTATA
1 ATTATA
332110 TTAATTTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
10 2 0.04
11 3 0.06
12 32 0.60
13 7 0.13
14 5 0.09
15 2 0.04
16 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (12 bp):
ATTATAATTATT
Found at i:332114 original size:12 final size:12
Alignment explanation
Indices: 332077--332115 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
332067 ACAATATAAT
332077 ATTATTTATATT-
1 ATTA-TTATATTA
*
332089 ATTATTATAATA
1 ATTATTATATTA
332101 ATTATTATATTA
1 ATTATTATATTA
332113 ATT
1 ATT
332116 TATTTAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTATATTA
Found at i:332261 original size:31 final size:30
Alignment explanation
Indices: 332192--332261 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 30
332182 TAATAATTTA
332192 TATATAATTATAAATAATTTTGAAATTTAAT
1 TATAT-ATTATAAATAATTTTGAAATTTAAT
* *
332223 TATTATATTAT-AATAATATTTGATATTATATT
1 TA-TATATTATAAATAAT-TTTGAAATT-TAAT
332255 TATATAT
1 TATATAT
332262 AGTTAAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 6 0.18
31 20 0.59
32 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
TATATATTATAAATAATTTTGAAATTTAAT
Found at i:333140 original size:180 final size:181
Alignment explanation
Indices: 332618--333327 Score: 623
Period size: 181 Copynumber: 3.9 Consensus size: 181
332608 TTTTGTTTAG
* * * * * *
332618 TCAAATAATTATA-ACTATT-TGAACAATTATCTATTTTAAATCGTTATTACTTTTTGTTTTGTC
1 TCAAATAGTTA-AGACTATTATGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGAC
* * * * * ** *
332681 ATAAAACAATTGTTTTTGTTAATATAAGTTTGTTT-GAAATAAAATAATATTGTTTTATTAATAT
65 ATAAAACAATTG-TTTTGTTCATACAAGCTTATTTAG-AATAAAATAATACTAATTTAATAATAT
* * ** * ** * *
332745 TTAGAAAATAAATCTGTAAGAGATTTAAAAAGA-AAATTTGCTTATCAAACCATT
128 TTTGAAAATTAATAAGTAAGAGATTTAAAAA-ATAAATCTAATTATCAAATCAGT
** * * * * *
332799 TCAAATAGTTTTGACTATT-TCAATAATTATTTATTTCAAATTGTTATAACCTTTTATTTT-ATC
1 TCAAATAGTTAAGACTATTATGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGA-C
* * * **
332862 ATCAAACAATTGGTTCTGTTCATACTATTTTATTTAGAATAAAATAATACTAATTTAATAATATT
65 ATAAAACAATT-GTTTTGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTAATAATATT
* * ** * *
332927 TCGAAACTTAATAACCAAGAAAATTAAAAAATAAATCTAATTATCAAATCAGT
129 TTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTAATTATCAAATCAGT
* *
332980 TCAAATAGTTAAGACT-TTATGAATGATTATCTATTTCAAATCGTTATGACCTTTTCTTTTGACA
1 TCAAATAGTTAAGACTATTATGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGACA
** * *
333044 TAAAACAATTGTTTTGTTTGTACAAGCTTATTTGGATTAAAATAATACTAATTTAATAATATTTT
66 TAAAACAATTGTTTTGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTAATAATATTTT
* ** * *
333109 GAAAATTAATAAGTTAGAGATTTAAAAAATAAAT-TTGTT-TGCTGAATTAGT
131 GAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTAATTAT-C-AAATCAGT
* * * * * * * * * *
333160 TCAAATGGTTAAAATTATTA-GAAAAATTATCTATTTCATATCATTTTGATCTTTTGTTTAGTCA
1 TCAAATAGTTAAGACTATTATGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGACA
* * * * *
333224 TAAAACAATCGTTTCAGTTCATACAAGCTTATTTAGAATAAATTAATACTAATTTATTAACA-TT
66 TAAAACAATTGTTT-TGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTAATAATATTT
* *
333288 TGAAAAATTAATATGAAAGAGATTTAAAAAAATAAATCTA
130 TG-AAAATTAATAAGTAAGAGATTT-AAAAAATAAATCTA
333328 TTTACTGAAC
Statistics
Matches: 425, Mismatches: 90, Indels: 26
0.79 0.17 0.05
Matches are distributed among these distances:
178 1 0.00
179 4 0.01
180 148 0.35
181 257 0.60
182 14 0.03
183 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (181 bp):
TCAAATAGTTAAGACTATTATGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGACA
TAAAACAATTGTTTTGTTCATACAAGCTTATTTAGAATAAAATAATACTAATTTAATAATATTTT
GAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTAATTATCAAATCAGT
Found at i:333987 original size:177 final size:175
Alignment explanation
Indices: 333359--334106 Score: 524
Period size: 177 Copynumber: 4.2 Consensus size: 175
333349 AGTAAGTGAT
* * * * * * * *
333359 TTAAAAAGTGAATATGTTTACCAAATCAGTTCAAATAATTATGGCCATTTCAATAATTATCTATT
1 TTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAATTATGACTATTTGAACAATTATCTATT
* * ** ** * **
333424 TCAAATTG-T-T-CCCTTTTGTTTGGAGATATGATAATTGTTTTTGA-TCATACAAGCTTATTTG
66 TCAAATTGTTATAACCTTTTGTTTTGTCATAAAACAA-TGTTTTCAATTCATACAAGCTTATTT-
* *
333485 GAATAAAATAATACTAATTTATTAATCTTTCAAAAATTAATAAGTAAGAGA
129 GAATAAAATAA-AATAATTTATTAATATTTCAAAAATTAATAAG--AGA-A
* * * * * * * * * * * *
333536 TTTAAAAAATAAATCTATTTACAAAACCAATTCTAATAGTTATGACTATTAGAGCAGTTGTATAC
1 -TTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAATTATGACTATTTGAACAATTATCTAT
* * ** *
333601 TTCAAGTTGTTATAACC-TTTGTTTTGTCATAAAATAAT-TATTTCTGTTCATACAAGCTGATTT
65 TTCAAATTGTTATAACCTTTTGTTTTGTCATAAAACAATGT-TTTCAATTCATACAAGCTTATTT
* * * * * *
333664 GAAATAAAATAAAACTAATCTAATAATGTTCTGAAAATTAATAACTAAGAGAT
129 G-AATAAAATAAAA-TAATTTATTAATATT-TCAAAA--ATTAA-TAAGAGAA
* * * ** * * ** * * *
333717 TTAAAAAATAAAATAGTTTGCTGAACTAGTTCAAATAGTTAAAAATATATGAATAATTATCTATT
1 TTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAATTATGACTATTTGAACAATTATCTATT
** * * *
333782 TCAAATCATTATAACCATTTGTTTTGTCATAAAACAATATTTTCAATTCATACTAGCTTATTTAG
66 TCAAATTGTTATAACCTTTTGTTTTGTCATAAAACAATGTTTTCAATTCATACAAGCTTATTT-G
*
333847 AATAAAATAAAATAAATTTATTAAAATTTCAAAAATTAATAAGAGAA
130 AATAAAATAAAAT-AATTTATTAATATTTCAAAAATTAATAAGAGAA
* * *
333894 TTAAAAAATAATTTTGTTTACCTAACCAGTTTAAATAATTATGACTATTTGAACAATTATCTATT
1 TTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAATTATGACTATTTGAACAATTATCTATT
* * ** * * * * *
333959 TCAAATTGTTATGACCTTTTGTTTTGTCAGAAAACTAATGTTTT-TGTTTATATATGTTTGTTTG
66 TCAAATTGTTATAACCTTTTGTTTTGTCATAAAAC-AATGTTTTCAATTCATACAAGCTTATTTG
* * *
334023 AAATTAAATAATACTAATCTATTAATATTTCAAAAATTAATAA-A-AA
130 -AATAAAATAA-AATAATTTATTAATATTTCAAAAATTAATAAGAGAA
* ** * *
334069 TTTTAAAAAATAAATCTACTTATCAAACTAGTTCAAAT
1 --TTAAAAAATAAATTTGTTTACCAAACCAGTTCAAAT
334107 TAAGACTATT
Statistics
Matches: 437, Mismatches: 113, Indels: 41
0.74 0.19 0.07
Matches are distributed among these distances:
175 2 0.00
176 2 0.00
177 162 0.37
178 67 0.15
179 7 0.02
180 116 0.27
181 68 0.16
182 5 0.01
183 4 0.01
184 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (175 bp):
TTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAATTATGACTATTTGAACAATTATCTATT
TCAAATTGTTATAACCTTTTGTTTTGTCATAAAACAATGTTTTCAATTCATACAAGCTTATTTGA
ATAAAATAAAATAATTTATTAATATTTCAAAAATTAATAAGAGAA
Found at i:335212 original size:179 final size:179
Alignment explanation
Indices: 334810--336813 Score: 1372
Period size: 181 Copynumber: 11.2 Consensus size: 179
334800 AATTTTCATT
* * *
334810 ACTATTTGAATAATTATCTATTTCAAATCA-TTATGACCTATTGTTTTGTCATAAAACAATTGTA
1 ACTATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
** * * * * * * *
334874 TCAATTCATATAGGTTTATTCAAAATAAAAT-ATTACTAATTTATCAATATTCTAAAAATTAATG
65 TCTGTTCATACAAGCTTATTCAGAATAAAATAATTA--AATTTATTAATATTC-CAAAATTAATA
* * * *
334938 AGTAAGAGATTTAAAAAAATAAATCTGTTTACTGAACACGTTTAAATAGTGATG
127 AATAAGAGATTT-AAAAAATAAATCTGTTTACTGAACATGTTCAAATAGTTATG
*
334992 ACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
** * *
335057 CTGTTCATACAAGCTTATTTTGAATAAAATAATTAAATTAATTAATATTCCAAATTTTAATAAAT
66 CTGTTCATACAAGCTTATTCAGAATAAAATAATTAAATTTATTAATATTCCAAA-ATTAATAAAT
* * ** * * *
335122 AA-AAATTTAAAAAATAAATTTGTTTTTTGAACATGTTCGAATTGTTTTG
130 AAGAGATTTAAAAAATAAATCTGTTTACTGAACATGTTCAAATAGTTATG
* * * *
335171 ACTATTTGAACAATTATTTATTTCAAATAGTTATTACCTTTTGTTTTGTAATAAACCAATTGTTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
* * * * *
335236 CT-ATCATACAAGCTAATTCTGAATAAAACAAATTAAATTTATTAATATTCCAAAATTTAATAAG
66 CTGTTCATACAAGCTTATTCAGAATAAAA-TAATTAAATTTATTAATATTCCAAAA-TTAATAAA
* * * ** * *
335300 TAACA-ATTTAAAAAATAAATTCAT-TTT-TTGAACATGTTTAAATAAATCTA
129 TAAGAGATTTAAAAAATAAA-TC-TGTTTACTGAACATGTTCAAATAGTTATG
* * *
335350 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTGATGAACCAATTGTTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
* * *
335415 CTG-TCTATATAAGCTTATTCAAAATAAAATAA-TACTAATTTAATAATATTCCAACAATTAATA
66 CTGTTC-ATACAAGCTTATTCAGAATAAAATAATTA--AATTTATTAATATTCCAA-AATTAATA
* * * * * * * *
335478 AGTAAAATATTTAAAAAATAAATCTGTTTACCGAGA-AAGCTCAAATAATTATA
127 AATAAGAGATTTAAAAAATAAATCTGTTTACTGA-ACATGTTCAAATAGTTATG
* * * * * * *
335531 ATTGTTTGAACAATTTTTTATTTCTAATAGTTATGATCTTTTGTTTTGTCATAAAAAAATTGTTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
* * * * *
335596 CTATTCATACAAGTTTATTCAAAATAAAATAA-TACTACTTTATTAATATTTTGC-AAATTAATA
66 CTGTTCATACAAGCTTATTCAGAATAAAATAATTA--AATTTATTAATA--TTCCAAAATTAATA
** * * * * * * *
335659 GGTAGGAGATTAAAAAAATAAATCTGTTTACCGAATAAGTTTAAATAGTCATG
127 AATAAGAGATTTAAAAAATAAATCTGTTTACTGAACATGTTCAAATAGTTATG
* * * * * *
335712 TCCATTAGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCATAAAACAATTATTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
* * * * ** *
335777 -TGGTTCATACATA-ATTATTCAAAATAAAATAATTTTAATTTAGTAATATT-TTAAA--AATTA
66 CT-GTTCATACA-AGCTTATTCAGAATAAAATAA-TTAAATTTATTAATATTCCAAAATTAATAA
* * * *
335837 ATAAGAGATTTAAAAACTAAATCTATTTACTAAATCA-ATTCAAATAGTTATG
128 ATAAGAGATTTAAAAAATAAATCTGTTTACTGAA-CATGTTCAAATAGTTATG
* * * * * *
335889 ACTATTTGAACAATTATTTATCTCAAATCA-TAATGATC-TTTATTTTGTCATACAACAATTGTT
1 ACTATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* * * * * *
335952 TCTTTTCATACAAGCTTATTCGGATTAAAATGA-TACTAATTTAATAATATT-C-AAA--AATTA
65 TCTGTTCATACAAGCTTATTCAGAATAAAATAATTA--AATTTATTAATATTCCAAAATTAATAA
* *
336012 ATAAGAGATTTAAAAAATAAATATG-TTAGCTGAAC-TAGTTCAAATAGTTAAG
128 ATAAGAGATTTAAAAAATAAATCTGTTTA-CTGAACAT-GTTCAAATAGTTATG
* * * * * *
336064 ACTATTAGAATAAGTATCTATTTCAAATCA-TTCT-ATCCTTTTGTTTAGTCATAAAACAATTAT
1 ACTATTTGAACAATTATCTATTTCAAAT-AGTTATGA-CCTTTTGTTTTGTCATAAAACAATTGT
** * * *
336127 TT-TAGTTCATACAAGCTTATTTGGAATAAAATAATAATAATTTATTAACATT--AAAA-AAATT
64 TTCT-GTTCATACAAGCTTATTCAGAATAAAATAATTA-AATTTATTAATATTCCAAAATTAA-T
* * * * *
336188 AAAGCAAGAGATTTAAAAAAATAAATTTGTTTATTAAACAAT-TTCAAATA-TATAGG
126 AAA-TAAGAGATTT-AAAAAATAAATCTGTTTACTGAAC-ATGTTCAAATAGT-TATG
* * * *
336244 ACTATTTAAACAATTATCTATTTAAAATTA-TTTTGACATTTTGTTTTGTCATAAAA-AATTGTT
1 ACTATTTGAACAATTATCTATTTCAAA-TAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
** * * * * *** * *
336307 TCAATTAATAAAAACTTATT-TGAAATAAAATAATATTGCTTTATTAATATTTCAAAAATTATTA
65 TCTGTTCATACAAGCTTATTCAG-AATAAAATAAT-TAAATTTATTAATA-TTCCAAAATTAATA
** * * * * * *
336371 AGCAAGAGATTTAAAAACTAAAGT-TGTTT-TTCAAAGCA-ATCCTAATAGTTATG
127 AATAAGAGATTTAAAAAATAAA-TCTGTTTACT-GAA-CATGTTCAAATAGTTATG
* * * * *
336424 ACTATTTGAACAAATAT-TAATCTCAAATCGTTATGATC-TTTGTTTTGTCATAAAACAATTATT
1 ACTATTTGAACAATTATCT-ATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* * * * * * * **
336487 TTTTTATCATATAAGCTGATTCTG-ATAAAAATAA-CACTAATTTAATAATATTTTGAAAATTAA
65 TCTGT-TCATACAAGCTTATTCAGAAT-AAAATAATTA--AATTTATTAATA-TTCCAAAATTAA
* * * * * *
336550 TAAATAAGAGATTTAAAAAATAAATGTGTTTGCCGATCA-GTTCAAATATTTAAG
125 TAAATAAGAGATTTAAAAAATAAATCTGTTTACTGAACATGTTCAAATAGTTATG
* * * * ** * *
336604 ATTATTAGAATAATTATCTATTTCAAATCA-TTCTGACCTTTTGTTTAATCATAAAATATTTGTT
1 ACTATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* * **
336668 TCAGTTCATACAAGCTTATTC-GAA-AGAAATAAATACTAATTTATTAACT-TTTGAAAGATTAA
65 TCTGTTCATACAAGCTTATTCAGAATA-AAATAATTA--AATTTATTAA-TATTCCAAA-ATTAA
** * * * * * * ** * *
336730 TAAGCAGGATATTTGAAAAACTAAATTTATTCACCAAATAAGTTCAAATAGTTATG
125 TAAATAAGAGATTT-AAAAAATAAATCTGTTTACTGAACATGTTCAAATAGTTATG
* * * *
336786 ACTATTTCAAAAATTATATATTTAAAAT
1 ACTATTTGAACAATTATCTATTTCAAAT
336814 TGTTGTGAAT
Statistics
Matches: 1461, Mismatches: 279, Indels: 164
0.77 0.15 0.09
Matches are distributed among these distances:
174 6 0.00
175 77 0.05
176 121 0.08
177 75 0.05
178 31 0.02
179 315 0.22
180 287 0.20
181 408 0.28
182 132 0.09
183 9 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (179 bp):
ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
CTGTTCATACAAGCTTATTCAGAATAAAATAATTAAATTTATTAATATTCCAAAATTAATAAATA
AGAGATTTAAAAAATAAATCTGTTTACTGAACATGTTCAAATAGTTATG
Found at i:336986 original size:22 final size:22
Alignment explanation
Indices: 336944--336988 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
336934 TTAATTATTA
*
336944 TTATCAATTAATATTAGTTAAT
1 TTATCAATTAACATTAGTTAAT
*
336966 TTATTAATTAACATTTA-TTAAT
1 TTATCAATTAACA-TTAGTTAAT
336988 T
1 T
336989 AGTAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATCAATTAACATTAGTTAAT
Found at i:337421 original size:27 final size:26
Alignment explanation
Indices: 337371--337433 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
337361 ATTGTATATT
* * *
337371 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
337398 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
337424 TATAATAATT
1 T-TAATAATT
337434 AAATGTATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:337429 original size:16 final size:15
Alignment explanation
Indices: 337408--337442 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
337398 TTAATAATTT
337408 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
337424 TATAATAATTAAATG
1 TATAATAATCAAATG
337439 TATA
1 TATA
337443 CGTGATAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:337564 original size:14 final size:14
Alignment explanation
Indices: 337547--337603 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
337537 TATTTATTAA
337547 TAAATATTGATAA-T
1 TAAATATT-ATAATT
*
337561 TAAATATTTTAATT
1 TAAATATTATAATT
*
337575 TAAATATTTAAAATT
1 TAAATA-TTATAATT
337590 TAAA-ATTATTAATT
1 TAAATATTA-TAATT
337604 ATTAACATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 6 0.17
14 20 0.56
15 10 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
TAAATATTATAATT
Found at i:337974 original size:19 final size:19
Alignment explanation
Indices: 337938--337976 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
337928 ATAGTAATAA
* *
337938 AAATTTGTCATAATTTTAT
1 AAATTTGTCACAAATTTAT
*
337957 AAATTTGTTACAAATTTAT
1 AAATTTGTCACAAATTTAT
337976 A
1 A
337977 CTAAAACATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
AAATTTGTCACAAATTTAT
Found at i:338171 original size:16 final size:16
Alignment explanation
Indices: 338147--338193 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
338137 CCTTAATAAT
*
338147 TTAAAAAATTATTTAG
1 TTAATAAATTATTTAG
*
338163 TTAATAAATAATTTAG
1 TTAATAAATTATTTAG
338179 -TAATTAAATTATTTA
1 TTAA-TAAATTATTTA
338194 AAATTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 3 0.11
16 24 0.89
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
TTAATAAATTATTTAG
Found at i:338205 original size:23 final size:23
Alignment explanation
Indices: 338179--338239 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 23
338169 AATAATTTAG
338179 TAATTA-AATTATTTAAAATTAT
1 TAATTATAATTATTTAAAATTAT
* *
338201 ATAATTATATAATTATTTATACTTAT
1 -TAA-T-TATAATTATTTAAAATTAT
338227 TAATTATAATTAT
1 TAATTATAATTAT
338240 AATTATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 12 0.36
24 2 0.06
25 5 0.15
26 14 0.42
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATTATAATTATTTAAAATTAT
Found at i:338245 original size:19 final size:17
Alignment explanation
Indices: 338200--338249 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
338190 TTTAAAATTA
338200 TATAATTATATAATTATT
1 TATAATTAT-TAATTATT
*
338218 TATACTTATTAATTATAAT
1 TATAATTATTAATTAT--T
338237 TATAATTATTAAT
1 TATAATTATTAAT
338250 AATTATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.25
18 8 0.29
19 13 0.46
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TATAATTATTAATTATT
Found at i:338256 original size:10 final size:10
Alignment explanation
Indices: 338185--338279 Score: 69
Period size: 10 Copynumber: 10.0 Consensus size: 10
338175 TTAGTAATTA
338185 AATTATTTAA-
1 AATTA-TTAAT
338195 AATTA-T-AT
1 AATTATTAAT
338203 AATTA-T-AT
1 AATTATTAAT
*
338211 AATTATTTAT
1 AATTATTAAT
*
338221 ACTTATTAAT
1 AATTATTAAT
* *
338231 TATAATT-AT
1 AATTATTAAT
338240 AATTATTAAT
1 AATTATTAAT
338250 AATTATTAAT
1 AATTATTAAT
*
338260 AACTAATTAA-
1 AA-TTATTAAT
*
338270 AATTAATAAT
1 AATTATTAAT
338280 TACAACTCTA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
7 1 0.01
8 14 0.20
9 13 0.19
10 35 0.51
11 6 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (10 bp):
AATTATTAAT
Found at i:338975 original size:14 final size:13
Alignment explanation
Indices: 338934--338983 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
338924 TTATATTTTA
*
338934 TTAATATTAAATAA
1 TTAATA-TAAATAT
*
338948 TTAATATTAATAT
1 TTAATATAAATAT
338961 TTAATATAAATTAT
1 TTAATATAAA-TAT
*
338975 TTACTATAA
1 TTAATATAA
338984 TTCATAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 14 0.45
14 17 0.55
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATATAAATAT
Found at i:338975 original size:20 final size:21
Alignment explanation
Indices: 338931--338975 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
338921 TAGTTATATT
*
338931 TTATTAATATTAAATAATTAA
1 TTATTAATATTAAATAATAAA
*
338952 -TATTAATATTTAAT-ATAAA
1 TTATTAATATTAAATAATAAA
338971 TTATT
1 TTATT
338976 TACTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTAATATTAAATAATAAA
Found at i:339146 original size:17 final size:16
Alignment explanation
Indices: 339113--339158 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
339103 ATAAATAATT
339113 TATTAATTACTTAATTAA
1 TATTAATTA--TAATTAA
*
339131 TATTAAGTTATAATTAT
1 TATTAA-TTATAATTAA
339148 TATTAATTATA
1 TATTAATTATA
339159 TGACTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 5 0.19
17 12 0.46
18 6 0.23
19 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
TATTAATTATAATTAA
Found at i:339403 original size:14 final size:14
Alignment explanation
Indices: 339384--339432 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
339374 AAATTATTAT
339384 AATTTATAATAATA
1 AATTTATAATAATA
*
339398 AATTTATATTATTAATT
1 AATTTATA--A-TAATA
*
339415 AATTTACAATAATA
1 AATTTATAATAATA
339429 AATT
1 AATT
339433 ATTATTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 16 0.55
15 1 0.03
16 1 0.03
17 11 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTATAATAATA
Found at i:339447 original size:78 final size:74
Alignment explanation
Indices: 339378--339520 Score: 173
Period size: 78 Copynumber: 1.9 Consensus size: 74
339368 ATCATGAAAT
* * *
339378 TATTATAATTTATAATAA-TAAATTTAT-ATTATTAATTAATTTACAATAATAAATTATTATTTA
1 TATTATAATTTAAAATAATTAAATTTATGA-TA-TAACTAATTT--AATAATAAATTATTA-ATA
339441 ATTTAATCAAAAGCA
61 ATTTAATCAAAA-CA
* *
339456 TATTATAATTTAAAATAATTATATTTATGATATAACTAATTTAATATTAAATTATTAATAATTTA
1 TATTATAATTTAAAATAATTAAATTTATGATATAACTAATTTAATAATAAATTATTAATAATTTA
339521 TAATTAAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
75 7 0.12
76 14 0.24
78 26 0.45
79 10 0.17
80 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (74 bp):
TATTATAATTTAAAATAATTAAATTTATGATATAACTAATTTAATAATAAATTATTAATAATTTA
ATCAAAACA
Found at i:339539 original size:23 final size:23
Alignment explanation
Indices: 339483--339540 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 23
339473 ATTATATTTA
339483 TGATATAACTAATTTAATATTAAAT
1 TGAT-TAA-TAATTTAATATTAAAT
339508 T-ATTAATAATTT-ATAATTAAAT
1 TGATTAATAATTTAAT-ATTAAAT
339530 TGATTAATAAT
1 TGATTAATAAT
339541 AAATTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.06
22 14 0.45
23 12 0.39
24 2 0.06
25 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (23 bp):
TGATTAATAATTTAATATTAAAT
Found at i:339699 original size:22 final size:19
Alignment explanation
Indices: 339674--339714 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 19
339664 TTATACTAAT
339674 TTAATATTTTTATTATTAAATA
1 TTAAT-TTTTTA--ATTAAATA
339696 TTAATTTTTTAATTAAATA
1 TTAATTTTTTAATTAAATA
339715 ATATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAATTTTTTAATTAAATA
Found at i:339727 original size:19 final size:18
Alignment explanation
Indices: 339675--339727 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
339665 TATACTAATT
*
339675 TAATATTTTTATTATTAAA
1 TAATA-TTTTATAATTAAA
* *
339694 TATTAATTTTTTAATTAAA
1 TAAT-ATTTTATAATTAAA
339713 TAATATTATTATAAT
1 TAATATT-TTATAAT
339728 AATTTATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 3 0.11
19 23 0.85
20 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATATTTTATAATTAAA
Found at i:339930 original size:26 final size:26
Alignment explanation
Indices: 339890--339962 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
339880 TATTTTAATA
*
339890 AATA-ATAATATTATTTATATATTGT
1 AATATATAATATTATTTATATATTAT
339915 AATATATAATATTATTT-TATATTAT
1 AATATATAATATTATTTATATATTAT
* *
339940 AATCATATTAGTATTGTTTATAT
1 AAT-ATA-TAATATTATTTATAT
339963 TGTTAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 14 0.34
26 15 0.37
27 9 0.22
28 3 0.07
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (26 bp):
AATATATAATATTATTTATATATTAT
Found at i:340556 original size:15 final size:14
Alignment explanation
Indices: 340536--340575 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
340526 TATTAATAAT
340536 TAATTATAATAACAA
1 TAATTATAATAA-AA
*
340551 TAATTATAATAATA
1 TAATTATAATAAAA
340565 T-ATTATAATAA
1 TAATTATAATAA
340576 TTATATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 12 0.50
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATTATAATAAAA
Found at i:341396 original size:23 final size:23
Alignment explanation
Indices: 341334--341407 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
341324 ATGAAGTATT
*
341334 ATATATTAATTAATA-TT-ATTTA
1 ATATATT-ATTAATATTTAATCTA
*
341356 ATATATTATTAGTATTTAATCTA
1 ATATATTATTAATATTTAATCTA
* *
341379 ATTTATTATTAATGTTTAA-CT-
1 ATATATTATTAATATTTAATCTA
341400 ATATATTA
1 ATATATTA
341408 GTTTACGATA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.30
22 11 0.25
23 20 0.45
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (23 bp):
ATATATTATTAATATTTAATCTA
Found at i:341652 original size:20 final size:19
Alignment explanation
Indices: 341615--341700 Score: 77
Period size: 20 Copynumber: 4.4 Consensus size: 19
341605 TATATAATTA
341615 AATT-AAATTAATTTATAT
1 AATTAAAATTAATTTATAT
*
341633 AATTAAAATTTATCTTATAT
1 AATTAAAATTAAT-TTATAT
* *
341653 AATTAATTATTAATTAAT-T
1 AATTAA-AATTAATTTATAT
*
341672 AAATTAATAATTATAGTTATAT
1 -AATTAA-AATTA-ATTTATAT
341694 AATTAAA
1 AATTAAA
341701 TACATATTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
18 4 0.07
19 8 0.15
20 27 0.49
21 15 0.27
22 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (19 bp):
AATTAAAATTAATTTATAT
Found at i:341725 original size:41 final size:41
Alignment explanation
Indices: 341604--341726 Score: 101
Period size: 41 Copynumber: 3.0 Consensus size: 41
341594 TTAGTATTAA
* *
341604 TTATATAATTAAATTA-AATTAATTTATATAATTAA-AATT-TATC
1 TTATATAATTAAATAATAATTAA--T-TA-AATTAACAATTATA-G
* * *
341647 TTATATAATTAATTATTAATTAATTAAATTAATAATTATAG
1 TTATATAATTAAATAATAATTAATTAAATTAACAATTATAG
* *
341688 TTATATAATTAAATACATATTTAATTTAA-TAACAATTAT
1 TTATATAATTAAATA-ATAATTAATTAAATTAACAATTAT
341727 TACTAATATT
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
40 6 0.09
41 29 0.43
42 13 0.19
43 13 0.19
44 6 0.09
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (41 bp):
TTATATAATTAAATAATAATTAATTAAATTAACAATTATAG
Found at i:342141 original size:18 final size:18
Alignment explanation
Indices: 342120--342157 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
342110 TTGTAAATAT
*
342120 TATTAAATTAATAAAAAA
1 TATTAAAATAATAAAAAA
*
342138 TATTAAAATATTAAAAAA
1 TATTAAAATAATAAAAAA
342156 TA
1 TA
342158 AATCTTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TATTAAAATAATAAAAAA
Found at i:342359 original size:20 final size:20
Alignment explanation
Indices: 342331--342380 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
342321 TAAGAAAATT
* *
342331 TAATGTTATAATATATAAAA
1 TAATTTTATAATAAATAAAA
* *
342351 TAATTTTATATTAAATAAAT
1 TAATTTTATAATAAATAAAA
*
342371 TTATTTTATA
1 TAATTTTATA
342381 TATTTTTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATTTTATAATAAATAAAA
Found at i:342366 original size:15 final size:15
Alignment explanation
Indices: 342342--342393 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
342332 AATGTTATAA
*
342342 TATATAAAATAATTT
1 TATATTAAATAATTT
*
342357 TATATTAAATAAATT
1 TATATTAAATAATTT
* * *
342372 TATTTTATATATTTT
1 TATATTAAATAATTT
342387 TA-ATTAA
1 TATATTAA
342394 TTATTATAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 3 0.10
15 26 0.90
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATATTAAATAATTT
Found at i:342410 original size:14 final size:14
Alignment explanation
Indices: 342387--342436 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
342377 TATATATTTT
342387 TAAT-TAATTATTA
1 TAATATAATTATTA
*
342400 TAA-ATATATTATAA
1 TAATATA-ATTATTA
*
342414 TAATATAATTATTT
1 TAATATAATTATTA
342428 TATATATAA
1 TA-ATATAA
342437 ATAATTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 5 0.17
14 16 0.53
15 9 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATAATTATTA
Found at i:342441 original size:19 final size:19
Alignment explanation
Indices: 342341--342442 Score: 62
Period size: 19 Copynumber: 5.7 Consensus size: 19
342331 TAATGTTATA
*
342341 ATATAT-AA-AATAATTTT
1 ATATATAAATAATTATTTT
342358 ATAT-TAAATAAATTTATTTT
1 ATATATAAAT-AA-TTATTTT
*** *
342378 ATATATTTTTAATTA-ATT
1 ATATATAAATAATTATTTT
342396 AT-TATAAAT-A-TA--TT
1 ATATATAAATAATTATTTT
342410 ATA-ATAATATAATTATTTT
1 ATATATAA-ATAATTATTTT
342429 ATATATAAATAATT
1 ATATATAAATAATT
342443 TATGTAATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
14 8 0.12
15 4 0.06
16 3 0.05
17 12 0.18
18 4 0.06
19 16 0.25
20 16 0.25
21 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATATAAATAATTATTTT
Found at i:342662 original size:17 final size:16
Alignment explanation
Indices: 342623--342662 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
342613 TAATTATTTG
342623 ATAATTTATATATATT
1 ATAATTTATATATATT
*
342639 ATAAATTTATATATGTAT
1 AT-AATTTATATATAT-T
342657 ATAATT
1 ATAATT
342663 ATAAATAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 16 0.76
18 3 0.14
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAATTTATATATATT
Found at i:343427 original size:19 final size:20
Alignment explanation
Indices: 343405--343443 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
343395 AAAAAGTAAC
* *
343405 AATTAATTAATTAT-ATTAT
1 AATTAAATAAATATAATTAT
343424 AATTAAATAAATATAATTAT
1 AATTAAATAAATATAATTAT
343444 TTATTAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTAAATAAATATAATTAT
Found at i:344142 original size:18 final size:18
Alignment explanation
Indices: 344119--344174 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
344109 ATTAAATAAA
344119 TATTTA-AATAATAACTAT
1 TATTTATAATAATAA-TAT
344137 TATTTATAA-ATATAATAT
1 TATTTATAATA-ATAATAT
344155 TAATTTATAATAATAA-AT
1 T-ATTTATAATAATAATAT
344173 TA
1 TA
344175 CTAATAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.03
18 14 0.41
19 18 0.53
20 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTTATAATAATAATAT
Found at i:344160 original size:19 final size:20
Alignment explanation
Indices: 344123--344170 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
344113 AATAAATATT
344123 TAAATAATAACTATTATTTA
1 TAAATAATAACTATTATTTA
344143 TAAAT-ATAA-TATTAATTTA
1 TAAATAATAACTATT-ATTTA
344162 T-AATAATAA
1 TAAATAATAA
344171 ATTACTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.27
19 14 0.54
20 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATAATAACTATTATTTA
Found at i:344187 original size:19 final size:19
Alignment explanation
Indices: 344165--344208 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
344155 TAATTTATAA
344165 TAATAAAT-TACTAATAAAT
1 TAATAAATATACT-ATAAAT
**
344184 TAATATTTATACTATAAAT
1 TAATAAATATACTATAAAT
344203 TAATAA
1 TAATAA
344209 CAATAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAAATATACTATAAAT
Found at i:344300 original size:16 final size:18
Alignment explanation
Indices: 344269--344301 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
344259 TATTAAAGAA
344269 ATTATATATAAGTTATTC
1 ATTATATATAAGTTATTC
344287 ATTATA-ATAA-TTATT
1 ATTATATATAAGTTATT
344302 AATAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (18 bp):
ATTATATATAAGTTATTC
Found at i:344311 original size:14 final size:14
Alignment explanation
Indices: 344290--344328 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
344280 GTTATTCATT
*
344290 ATAA-TAATTATTA
1 ATAATTAATTAATA
344303 ATAATTAATTAATA
1 ATAATTAATTAATA
*
344317 ATGATTAATTAA
1 ATAATTAATTAA
344329 CCATCAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
ATAATTAATTAATA
Found at i:345678 original size:11 final size:11
Alignment explanation
Indices: 345662--345692 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
345652 TCCCAAAATT
345662 TTTATTTTTAC
1 TTTATTTTTAC
345673 TTTA-TTTTAC
1 TTTATTTTTAC
345683 TTTATTTTTA
1 TTTATTTTTA
345693 ACTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTTTAC
Found at i:347047 original size:182 final size:181
Alignment explanation
Indices: 346630--347269 Score: 528
Period size: 181 Copynumber: 3.6 Consensus size: 181
346620 GGTTTTGGGG
* * * * * *
346630 AATTTTTTCTATTCATCTAAGCTTATTTCAAATAAAATAATACAAATTTATTAATATTAAGACAA
1 AATTATTTCTATTCATATAAGCTTATTTGAATTAAAATAATACTAATTTATTAATATTAAAACAA
* * * *
346695 TTAATAAGTAAAAGATTT-AAAAATAAATCTGTTTACCAAACAAGTTCTAATCA-TTATGGCTAT
66 TTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACAAAACAAGTTC-AAACAGTTATGACTAT
* * * * ** * * * * *
346758 TTGAGCAATTATTTATTTCAACAT-GTTATGATTTTTTGTTTTGTCATATAAT
130 TTAAACAATTATCTATTTCAA-ATCATTATGACCTTTTGTTTTCTAAAAAAAC
* ** * * * * ***
346810 AATTATTTCTGTTCATGCAAGTTTATTCGAATTAAAATAATATTAATTAATTAATATTTTTACAA
1 AATTATTTCTATTCATATAAGCTTATTTGAATTAAAATAATACTAATTTATTAATATTAAAACAA
* * * *
346875 TTAATAAGTAAAAGATTTTAAAAAATAAATATATTTACAAAACAAGTTCAAACAGTCATTAATAT
66 TTAATAAGTAAAAGA-TTTAAAAAATAAATATGTTTACAAAACAAGTTCAAACAGTTATGACTAT
* * *
346940 TTCAATAATTATCTATTTCAAATCATTATGACCTTTTCTTTTCTAAAAAAAC
130 TTAAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTAAAAAAAC
* * * * *
346992 ACTTGTTTCAATTCATATAAGCTTATTTGAATTAAGATAATACTAATTTATTAATATTCCAAA-A
1 AATTATTTCTATTCATATAAGCTTATTTGAATTAAAATAATACTAATTTATTAATATT-AAAACA
* * * * ** * *
347056 ATTAATGAGTGAGAGAATTAAAAAA-AGAATATGTTTACTGAATAAGTTCAAATAGTTATGACTA
65 ATTAATAAGTAAAAGATTTAAAAAATA-AATATGTTTACAAAACAAGTTCAAACAGTTATGACTA
* * * * * *
347120 TGTAAACAATTATCTATTTCAAAACATTACGACCTTTTGTTTTGTCATAAAAC
129 TTTAAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTAAAAAAAC
* * ** * * * *
347173 AATTAGCTT-TGTTCATGCAAGCTTATTTCAAATAAAATAAT-TTAAATTTATTAATATTCCAAA
1 AATTA-TTTCTATTCATATAAGCTTATTTGAATTAAAATAATACT-AATTTATTAATATT-AAAA
* *
347236 -AATTAATACGT-AAA-ATTT-TAAAATAAATATGTTT
63 CAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTT
347270 TTGAACATGT
Statistics
Matches: 365, Mismatches: 86, Indels: 20
0.77 0.18 0.04
Matches are distributed among these distances:
178 13 0.04
179 4 0.01
180 70 0.19
181 146 0.40
182 131 0.36
183 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (181 bp):
AATTATTTCTATTCATATAAGCTTATTTGAATTAAAATAATACTAATTTATTAATATTAAAACAA
TTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACAAAACAAGTTCAAACAGTTATGACTATT
TAAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTAAAAAAAC
Found at i:347784 original size:19 final size:19
Alignment explanation
Indices: 347760--347798 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
347750 TAAGAATCAT
*
347760 TAATTAATAAT-TGTATTAA
1 TAATTAACAATAT-TATTAA
347779 TAATTAACAATATTATTAA
1 TAATTAACAATATTATTAA
347798 T
1 T
347799 GGCTATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATTAACAATATTATTAA
Found at i:347866 original size:29 final size:30
Alignment explanation
Indices: 347815--347899 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 30
347805 TGAATAAATT
* *
347815 ATTAATATTATTA-ATATATTTAATAATCCA
1 ATTAAAATTATAACATATA-TTAATAATCCA
* * *
347845 ATTAAAATT-TAACATATATTAAT-TTTCT
1 ATTAAAATTATAACATATATTAATAATCCA
* *
347873 ATTATAATTATAACAAATATTAATAAT
1 ATTAAAATTATAACATATATTAATAAT
347900 TAATTATAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 10 0.23
29 20 0.45
30 14 0.32
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (30 bp):
ATTAAAATTATAACATATATTAATAATCCA
Found at i:347905 original size:29 final size:29
Alignment explanation
Indices: 347834--347911 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
347824 ATTAATATAT
* * *
347834 TTAATAATCCAATTAAAATT-TAACATATA
1 TTAATAAT-TAATTATAATTATAACAAATA
* *
347863 TTAAT-TTTCTATTATAATTATAACAAATA
1 TTAATAATT-AATTATAATTATAACAAATA
347892 TTAATAATTAATTATAATTA
1 TTAATAATTAATTATAATTA
347912 ATAAGGATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
28 9 0.23
29 28 0.72
30 2 0.05
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (29 bp):
TTAATAATTAATTATAATTATAACAAATA
Found at i:348140 original size:25 final size:25
Alignment explanation
Indices: 348112--348164 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
348102 AATTATAATT
348112 ATTAAATA-AATTATAATAGATTAAA
1 ATTAAATATAATTATAATA-ATTAAA
* *
348137 ATT-AGTATTATTATAATAATTAAA
1 ATTAAATATAATTATAATAATTAAA
348161 ATTA
1 ATTA
348165 TCCTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
ATTAAATATAATTATAATAATTAAA
Found at i:348270 original size:14 final size:14
Alignment explanation
Indices: 348251--348280 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
348241 AATAATTAAG
*
348251 ATAATAATATATTT
1 ATAATAATATAATT
348265 ATAATAATATAATT
1 ATAATAATATAATT
348279 AT
1 AT
348281 TTAGTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATAATATAATT
Found at i:348340 original size:23 final size:23
Alignment explanation
Indices: 348269--348348 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
348259 ATATTTATAA
*
348269 TAATATAATTATTTAGTTTTATATT
1 TAAT-TAATTATTTATTTTTA-ATT
* * *
348294 TAATTAATTAATGATTATCT-ATT
1 TAATTAATTATTTATT-TTTAATT
*
348317 TACTTAATTATTTATTTTTAATT
1 TAATTAATTATTTATTTTTAATT
*
348340 TAAATAATT
1 TAATTAATT
348349 GCAATAGTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
22 2 0.05
23 26 0.60
24 9 0.21
25 6 0.14
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (23 bp):
TAATTAATTATTTATTTTTAATT
Found at i:348491 original size:35 final size:33
Alignment explanation
Indices: 348452--348516 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 33
348442 CTAAAATTAA
348452 ATGAAATAATATTTAAAATAAATAATTTATTAGTC
1 ATGAAATAATATTT-AAATAAATAA-TTATTAGTC
* * *
348487 ATGAATTATTATTTAAATAAATTATTATTA
1 ATGAAATAATATTTAAATAAATAATTATTA
348517 TCTTTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 6 0.22
34 9 0.33
35 12 0.44
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.45
Consensus pattern (33 bp):
ATGAAATAATATTTAAATAAATAATTATTAGTC
Found at i:348590 original size:11 final size:10
Alignment explanation
Indices: 348560--348595 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
348550 TTGTTATTAT
348560 ATATTAAATA
1 ATATTAAATA
*
348570 ATATTTAATA
1 ATATTAAATA
348580 ATATTACAATA
1 ATATTA-AATA
348591 ATATT
1 ATATT
348596 GAATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATTAAATA
Found at i:348641 original size:21 final size:21
Alignment explanation
Indices: 348591--348645 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
348581 TATTACAATA
348591 ATATTGAATTATAATCATGATT
1 ATATT-AATTATAATCATGATT
*
348613 ATAATAATT-TAAT-ATGATT
1 ATATTAATTATAATCATGATT
348632 ATGTATTAATTATA
1 A--TATTAATTATA
348646 CATATTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 7 0.25
20 4 0.14
21 11 0.39
22 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (21 bp):
ATATTAATTATAATCATGATT
Found at i:348837 original size:24 final size:25
Alignment explanation
Indices: 348736--348845 Score: 67
Period size: 24 Copynumber: 4.6 Consensus size: 25
348726 AAATTTAGAT
*
348736 ATTAAATTAATAATTAATTT-AT--
1 ATTAAATTAATTATTAATTTAATAA
*
348758 -TTTAATTAA-TAGTTAATATTCAATAA
1 ATTAAATTAATTA-TTAAT-TT-AATAA
*
348784 AATAAATTAATTATTAATTTAAT--
1 ATTAAATTAATTATTAATTTAATAA
* *
348807 ATCTAAATTTATTA-TATTTTAATAA
1 AT-TAAATTAATTATTAATTTAATAA
*
348832 ATTAAAAT-ATTATT
1 ATTAAATTAATTATT
348846 TGAATAACTA
Statistics
Matches: 68, Mismatches: 8, Indels: 22
0.69 0.08 0.22
Matches are distributed among these distances:
20 1 0.01
21 13 0.19
22 2 0.03
23 13 0.19
24 18 0.26
25 5 0.07
26 2 0.03
27 12 0.18
28 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (25 bp):
ATTAAATTAATTATTAATTTAATAA
Found at i:349165 original size:15 final size:15
Alignment explanation
Indices: 349111--349165 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
349101 TTATTTGTTA
349111 ATTATATTTAA-ATT
1 ATTATATTTAATATT
*
349125 -TTACAATTTAATATT
1 ATTA-TATTTAATATT
*
349140 ACTTA-AATTAATATT
1 A-TTATATTTAATATT
349155 ATTATATTTAA
1 ATTATATTTAA
349166 AATATTGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
13 3 0.09
14 9 0.27
15 18 0.55
17 3 0.09
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATATTTAATATT
Found at i:350263 original size:36 final size:36
Alignment explanation
Indices: 350211--350284 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
350201 AATCTCCAAC
*
350211 TTCTTAATTTTTGAAATATTAATAAAGTAATATTAT
1 TTCTCAATTTTTGAAATATTAATAAAGTAATATTAT
*
350247 TTCTCAATTTTTGAAATATTGATAAAGTAATATTAT
1 TTCTCAATTTTTGAAATATTAATAAAGTAATATTAT
350283 TT
1 TT
350285 TTATTTTAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (36 bp):
TTCTCAATTTTTGAAATATTAATAAAGTAATATTAT
Found at i:350599 original size:18 final size:17
Alignment explanation
Indices: 350568--350601 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
350558 ATACATTTAT
*
350568 TTTTTAAATCTTATTAA
1 TTTTTAAATATTATTAA
350585 TTTTTAGAATATTATTA
1 TTTTTA-AATATTATTA
350602 GTTTAGCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTTAAATATTATTAA
Found at i:350976 original size:180 final size:180
Alignment explanation
Indices: 350376--351635 Score: 1159
Period size: 180 Copynumber: 7.1 Consensus size: 180
350366 AAATAATCAT
* * * * *
350376 TAAACAAATTTATTTTTTAAT-TCCTTATTTATTAATTTTCTG-AATGTTAATAAAATAGTATTA
1 TAAACAAATTTATTTTTAAATAT-TTTACTTATTAATTTT-TGAAATATTAATAAATTAGTATTA
* * *
350439 TTTTATTTCGAATAAGCATGTATGAACT-G-AACAATTATTTTATGACTAAACAAAAGGTCATAA
64 TTTTATTTCGAATAAGCTTGTATGAA-TAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA
* * * * **
350502 TGATTTGAAATAAATAATTATT-ATAATAGTCTTAACTATTTGAACTGGTTCAA
128 CGATTTGAAATAGATAATTATTCA-AATAGTCATAACTATTTGAACTTGTTCGG
* * * * * ** * *
350555 CAAATACATTTATTTTTTAA-A---T-CTTATTAATTTTT-AGAATATTATTAGTTTAGCAATAT
1 TAAACAAATTTATTTTTAAATATTTTACTTATTAATTTTTGA-AATATTAATAAATTAGTATTAT
* * * * * * * * * *
350614 TTTACTCCAAATAAGTTTGTATGGACATAAACAATTGTTTTATGACAAAAC-AAAGATCATACCA
65 TTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACG
*
350678 ATTTGAGATAGATAATTATTCAAATAGTCATAACTATTTGAA-TTGGTTCGG
130 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTT-GTTCGG
* * * * ** *
350729 TAAATAGATATAGTTTTT-AA-A-TCT-CTTATTAATTTTCAAAATATTATTAAATTAGTATTAT
1 TAAACAAATTTA-TTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTAT
* ** *
350790 TTTATTTTGAATAATTTTGTATGAATAGAAACAATTGTTTTATTACAAAAC-AAAGGATCATAAC
65 TTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGG-TCATAAC
* * * * * **
350854 GATTTAAAATAAATAATTATTTAAATAATCATAATTATTTGAACTTACTCGG
129 GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGG
* *
350906 TAAACAAATTTATTTTTAAATATTTTAGTTATTAATTTTTGAAATTTTAATAAATTAGTATTATT
1 TAAACAAATTTATTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
* * * * *
350971 TTATTTCAAATAAGCTTTTATGAATAGAAACAACTGGTTTATGACAAAACAAAAGGTCATAATGA
66 TTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGA
* * * **
351036 TTTG-AATAGATAATTATTCAAATGGTCATAATTATTTTGAACGTGTTCAA
131 TTTGAAATAGATAATTATTCAAATAGTCATAACTA-TTTGAACTTGTTCGG
* * * * *
351086 AAAACAAATTTA-TTTTATATATTTTTACTTATTAATCTTTGGAATATTAGTAAATTTA-TATTA
1 TAAACAAATTTATTTTTAAATA-TTTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTATTA
* *
351149 TTTTATTT-GAAATAAGCTTGTAAGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA
64 TTTTATTTCG-AATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA
* * *
351213 CAATTTGAAATAGATAATTGTCCAAATAGTCATAACTATTTGAACTTGTT-GG
128 CGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGG
* * * * * * * * *
351265 TAAATAGATTCATTTTTTAAATCTCTTACTCATTAATTTTTGGAATAGTAATAAGTTAGTATTAT
1 TAAACAAATTTA-TTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTAT
* * * * * * *
351330 TTTA-TTCGAATAAGCCTATATGAATTGATATAATTGTTTTATTG-CGAAACAAAAGGTCATAAT
65 TTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTA-TGACAAAACAAAAGGTCATAAC
* * * *
351393 GATTTGAAATAGATAATTATTCAGATAGTTATTACTATTTGAACTTGTTTGG
129 GATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGG
* * * * *
351445 TAAACATATTTATTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAACAAATTAATATTATT
1 TAAACAAATTTATTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
* * * ** * * * *
351510 TTAATCCAAATAAGCTAATATGAACA-AAAGTAATTGTTTTATGACAAAACAAAAGGTTATAATG
66 TTATTTCGAATAAGCTTGTATGAATAGAAA-CAATTGTTTTATGACAAAACAAAAGGTCATAACG
* * * ** * *
351574 ATTTGAAATAAATAATTGTTCCAATAGTCATAACTATTCAAAATTATTCGG
130 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGG
*
351625 TAAACAGATTT
1 TAAACAAATTT
351636 GAAATAAGCT
Statistics
Matches: 881, Mismatches: 168, Indels: 63
0.79 0.15 0.06
Matches are distributed among these distances:
173 2 0.00
174 107 0.12
175 27 0.03
176 82 0.09
177 58 0.07
178 3 0.00
179 204 0.23
180 357 0.41
181 41 0.05
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (180 bp):
TAAACAAATTTATTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
TTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGA
TTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCGG
Found at i:351255 original size:360 final size:354
Alignment explanation
Indices: 350376--351635 Score: 1194
Period size: 359 Copynumber: 3.5 Consensus size: 354
350366 AAATAATCAT
* * * *
350376 TAAACAAATTTATTTTTTAATTCCTTATTTATTAATTTTCTG-AATGTTAATAAAATAGTATTAT
1 TAAACAAATTTA-TTTTTAATT-TTTACTTATTAATTTTC-GAAATATTAATAAATTAGTATTAT
* * * * *
350440 TTTATTTCGAATAAGCATGTATGAACTG-AACAATTATTTTATGACTAAACAAAAGGTCATAATG
63 TTTATTT-GAATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACG
* * ** *** * *
350504 ATTTGAAATAAATAATTAT-TATAATAGTCTTAACTATTTGAACTGGTTCAACAAATACATTTAT
127 ATTTGAAATAAATAATTATCCA-AATAGTCATAACTATTTGAACTTATTCGGTAAACAGATTTAT
* * ** * * *
350568 TTTTTAA-A--T-CTTATTAATTTTT-AGAATATTATTAGTTTAGCAATATTTTACTCCAAATAA
191 TTTTAAATATTTACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTA-TTCAAATAA
* * * * ***
350628 G-TTTGTATGGACATAAACAATTGTTTTATGACAAAAC-AAAGATCATACCAATTTGAGATAGAT
254 GCTTT-TATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGA-ATAGAT
350691 AATTATTCAAATAGTCATAACTATTTGAA-TTGGTTCGG
317 AATTATTCAAATAGTCATAACTATTTGAACTT-GTTCGG
* * * * * * *
350729 TAAATAGATATAGTTTTTAA-ATCT-CTTATTAATTTTCAAAATATTATTAAATTAGTATTATTT
1 TAAACAAATTTA-TTTTTAATTTTTACTTATTAATTTTCGAAATATTAATAAATTAGTATTATTT
** * *
350792 TATTTTGAATAATTTTGTATGAATAGAAACAATTGTTTTATTACAAAAC-AAAGGATCATAACGA
65 TA-TTTGAATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGG-TCATAACGA
* ** * * * *
350856 TTTAAAATAAATAATTATTTAAATAATCATAATTATTTGAACTTACTCGGTAAACAAATTTATTT
128 TTTGAAATAAATAATTATCCAAATAGTCATAACTATTTGAACTTATTCGGTAAACAGATTTATTT
* *
350921 TTAAATATTTTAGTTATTAATTTTTGAAATTTTAATAAATTAGTATTATTTTATTTCAAATAAGC
193 TTAAATA-TTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTA-TTCAAATAAGC
* *
350986 TTTTATGAATAGAAACAACTGGTTTATGACAAAACAAAAGGTCATAATGATTTGAATAGATAATT
256 TTTTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAATAGATAATT
* * * **
351051 ATTCAAATGGTCATAATTATTTTGAACGTGTTCAA
321 ATTCAAATAGTCATAACTA-TTTGAACTTGTTCGG
* * *
351086 AAAACAAATTTATTTTATATATTTTTACTTATTAATCTTT-GGAATATTAGTAAATTTA-TATTA
1 TAAACAAATTTATTTT-TA-ATTTTTACTTATTAAT-TTTCGAAATATTAATAAA-TTAGTATTA
*
351149 TTTTATTTGAAATAAGCTTGTAAGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC
62 TTTTATTTG-AATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC
* * * * * *
351214 AATTTGAAATAGATAATTGTCCAAATAGTCATAACTATTTGAACTTGTT-GGTAAATAGATTCAT
126 GATTTGAAATAAATAATTATCCAAATAGTCATAACTATTTGAACTTATTCGGTAAACAGATTTA-
* * * * * *
351278 TTTTTAAATCTCTTACTCATTAATTTTTGGAATAGTAATAAGTTAGTATTATTTTATTCGAATAA
190 TTTTTAAATAT-TTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCAAATAA
* * * * * *
351343 GCCTATATGAATTGATATAATTGTTTTATTG-CGAAACAAAAGGTCATAATGATTTGAAATAGAT
254 GCTTTTATGAATAGAAACAATTGTTTTA-TGACAAAACAAAAGGTCATAATGATTTG-AATAGAT
* * * *
351407 AATTATTCAGATAGTTATTACTATTTGAACTTGTTTGG
317 AATTATTCAAATAGTCATAACTATTTGAACTTGTTCGG
* * *
351445 TAAACATATTTATTTTTAAATCTTTTACTTATTAATTGTT-GAAATATTAACAAATTAATATTAT
1 TAAACAAATTTATTTTT-AAT-TTTTACTTATTAATT-TTCGAAATATTAATAAATTAGTATTAT
*** ** * * *
351509 TTTAATCCAAATAAGCTAATATGAACA-AAAGTAATTGTTTTATGACAAAACAAAAGGTTATAAT
63 TTT-ATTTGAATAAGCTTGTATGAACAGAAA-CAATTGTTTTATGACAAAACAAAAGGTCATAAC
* ** *
351573 GATTTGAAATAAATAATTGTTCC-AATAGTCATAACTATTCAAAATTATTCGGTAAACAGATTT
126 GATTTGAAATAAATAATT-ATCCAAATAGTCATAACTATTTGAACTTATTCGGTAAACAGATTT
351636 GAAATAAGCT
Statistics
Matches: 740, Mismatches: 132, Indels: 63
0.79 0.14 0.07
Matches are distributed among these distances:
350 55 0.07
351 85 0.11
352 3 0.00
353 16 0.02
355 1 0.00
356 99 0.13
357 39 0.05
358 12 0.02
359 216 0.29
360 203 0.27
361 11 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (354 bp):
TAAACAAATTTATTTTTAATTTTTACTTATTAATTTTCGAAATATTAATAAATTAGTATTATTTT
ATTTGAATAAGCTTGTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTT
GAAATAAATAATTATCCAAATAGTCATAACTATTTGAACTTATTCGGTAAACAGATTTATTTTTA
AATATTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCAAATAAGCTTTTA
TGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAATAGATAATTATTCA
AATAGTCATAACTATTTGAACTTGTTCGG
Found at i:351964 original size:181 final size:180
Alignment explanation
Indices: 351638--352278 Score: 673
Period size: 181 Copynumber: 3.5 Consensus size: 180
351628 ACAGATTTGA
* * * * * * *
351638 AATAAGCTTGTATGAATAGAAAA-AATTATTTTATGACAATACAAAAGGTTATAGCAATTTGAAC
1 AATAAGCTTATATGAACA-AAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAA
** * * *
351702 TAGATAATTGTTCAAATAGCCATAATTATTTGAACTTGTTC-AGTAAACATATTTATTTTTTAAA
65 TAGATAATTGTTCAAATAATCATAATTATTTGAAC-TGGTCAAGCAAACAGATTTATTTTTTAAA
* * * *
351766 TCTCTCACTTATTAATTTTTGGAATATTAATAAATTAGAATTATGTTATTTTG
129 TC-CTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATTTTATTTCG
* * * *
351819 AATAAGCTTGTATGAACAAAAACAATTGTTCTGTGAGAAAACAAAAGGTCATAACAATTTGAAAT
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAAT
* * ** *
351884 AGATAATTGTTCAAATAATCATAATTGTTTGCACTGGTCAAGCCAAA-AGATACATTTTCTAAAT
66 AGATAATTGTTCAAATAATCATAATTATTTGAACTGGTCAAG-CAAACAGATTTATTTTTTAAAT
* ** *
351948 CCATTACTTCTTAATTTTCAAAATATTAATAAATTAGCATTACTTTTATTTCG
130 CC-TTACTTATTAATTTTTGAAATATTAATAAATTAGAATTA-TTTTATTTCG
* * * * *
352001 AATAAGATTATATGAACAGAAACAATTGTTTTATGATAAAACTAATGGTCATAACAATTTGAAAT
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAAT
* * * * ** * * * *
352066 AAAT-ATTGGTCAAATAGTTATAGCTAATTAAAATGGT-ATTGCAAACAGATTTATTTTTTAAAT
66 AGATAATTGTTCAAATAATCATAATTATTTGAACTGGTCA-AGCAAACAGATTTATTTTTTAAAT
* * * *
352129 CTTTTACATATTAATTTTTGAAATATTAATAAATTA-ATATTATTTTATTCCA
130 C-CTTACTTATTAATTTTTGAAATATTAATAAATTAGA-ATTATTTTATTTCG
* * * * *
352181 AACAAACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTAATAACAATTTTAAAT
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAAT
*
352246 AGATAATTATTCAAATAATCATAATTATTTGAA
66 AGATAATTGTTCAAATAATCATAATTATTTGAA
352279 ATAGTTTTGT
Statistics
Matches: 373, Mismatches: 77, Indels: 20
0.79 0.16 0.04
Matches are distributed among these distances:
180 80 0.21
181 222 0.60
182 71 0.19
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (180 bp):
AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAAT
AGATAATTGTTCAAATAATCATAATTATTTGAACTGGTCAAGCAAACAGATTTATTTTTTAAATC
CTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTATTTTATTTCG
Found at i:353182 original size:180 final size:180
Alignment explanation
Indices: 352300--355045 Score: 1876
Period size: 181 Copynumber: 15.2 Consensus size: 180
352290 AATAGAATTG
* * * * *
352300 TTATGACTTTTTGTTTTGTAATAAAACAATTGGTTCTGTTCATACAAGCTTA-TTCGAATTAAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGAA-TAAAA
* * * * *
352364 TAATATTAATTTATTAATATTTTGACAATTAACAAGTGAA-AGATTTAAAAAATAAATATGTTTA
65 TAATACTAATTTATTAATA-TTTAAAAATTAATAAGT-AAGAGATTTAAAAAATAAATCTGTTTA
* * * *
352428 CCAAACAAGTTCAAATAGTGAAT-ACTATTTGAATAATTATCTATTTCAAATAA
128 CCGAACAAGTTCAAATAGT-TATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * * * *
352481 TTGTGACCTTCTATTTTGTAATAAAATAATTGTTTC-AGTGA-ACATAAGCTTATTTGAAATAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAC--AAGCTTATTTGGAATAAA
* ** * * * *
352544 ATAGCT-CTAATTTATTAATATACCAAAAATTAATGAGTAAGAGAATTAAAAAAATGAATCTATT
64 ATA-ATACTAATTTATTAATAT-TTAAAAATTAATAAGTAAGAG-ATTTAAAAAATAAATCTGTT
* * * *
352608 TACCGAACAAGTTCAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAACA
126 TACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * *
352663 TTATGACCATTTGTTTTGTCATAAAATAATTAGTTT-TGTTCATGCAAGCTTATTTCGAATAAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATT-GTTTCTATTCATACAAGCTTATTTGGAATAAAA
* ** * * * *
352727 TAATA-TAAATTTATTAAAACTCCAAAAATTAATAAATAA-AAATTTAAAAAATAAATATGTTTT
65 TAATACT-AATTTATTAATA-TTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTA
** * **
352790 TTGAACACA-TTC-AATAGTCATGACTATTTGAACAATTATCTATTTCAAATTG
128 CCGAACA-AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
** * * * *
352842 TTATGACAATTTGTTTTGTCATAAACCAATTATTTCTATTCATACAAGCTTATTCGAAATAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAAT
* * * * * *
352907 AATATTAATTTATTAATATTTTTAAAATTAATAAGTAAAAGATTTAAATAAGAAATTTGTTTACC
66 AATACTAATTTATTAATA-TTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACC
* * *
352972 GAGCAAGTTCAAATAGTTATTACTATTTGAACAATTATATATTTCAAATC-
130 GAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * **
353022 TCTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAATTTATTTGGAA-AAAA
1 T-TATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAA
* * *
353086 TAATACTAATTTATTATTATTCTAAAAATTAATAAGTTAGAGATTGAAAAAATAAATCTGTTTAC
65 TAATACTAATTTATTAATATT-TAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTAC
* * * * ** *
353151 CGAACAAGTTTAAATAGTCATGTCCATTTGAACTGTTATTTATTTCAAATCA
129 CGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * ** * **
353203 TTATGACATTTTGTTTTATTATAACATAATTGTTTCTATTCATACAAAATTCTTCAGAATAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAAT
* * * * * ***
353268 AATACCAATTTATTACTATTTCAAAAA-T--TAA-TAAG-GATTT-AAAAATCAATGTATTTTTT
66 AATACTAATTTATTAATATTT-AAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACC
* * * * *
353327 GAAGC-AGTTTAAATAGTTAAGACTATTAGAACAATTATCTATTCCAAATTA
130 GAA-CAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * * * * ** *
353378 TTATGATCTTTTGTTTAGTCAAAAAATAATTGTTT-TAGTCCATACATGCTTATTCGAAATTTAG
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTTGGAATAAAA
* **** *** *
353442 TAATACTAATTTATTAAAATTTAGAAAATTAATAAG-AATTTTTTTTTTTAAA-AAATCTATTTA
65 TAATACTAATTTATTAATATTTA-AAAATTAATAAGTAA-GAGATTTAAAAAATAAATCTGTTTA
* * * * *
353505 CCGAATAAGTTCAAATAGTTATAACTATTTGAATAATTATCTATTTAAAATCG
128 CCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * * **
353558 TTATGACCTTTTATTTTATTATAAAACAACTGTTTC-AGTACATAAAAG-TT-TTTCCAAAATAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTT--GGAATAA
* ** ** ** * *
353620 AATAATATTGCTTTATTAATATTTCAAAAATTAGGAAGTTGGAGTTTTAAAAAATAAATCAGTTT
63 AATAATACTAATTTATTAATATTT-AAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTT
* * ** * * * *
353685 ATCAAATTA-TTCAAATAATTAT-AGTCATTTGAATAATTATCTATTTCAAATCG
127 ACCGAACAAGTTCAAATAGTTATGACT-ATTTGAACAATTATCTATTTCAAATCA
* * * *
353738 TTATGAACTTTTGTTTTGTCATAAAAAAATTGTTTTTCA-TCATACAAGCCTATTTGGAATAAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT-ATTCATACAAGCTTATTTGGAATAAAA
* * *
353802 TAATACTAATTTACTAATATTTCAAAAATTAAT-A--AA-AGATTTAAAAAGCT-AATCTATTTA
65 TAATACTAATTTATTAATATTT-AAAAATTAATAAGTAAGAGATTTAAAAA-ATAAATCTGTTTA
* * * **
353862 CTGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATTG
128 CCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * * * * *
353915 TTATAACCTTTT-TTTATCTCATAAAATAGTTATTTCTATTCACACAAGTTTATTCGAAATAAAA
1 TTATGACCTTTTGTTT-TGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAA
* * * * ** *
353979 TAATATTAATATAATAATATTATGAAAATTAATAACAAAGAGATTTAAAAAATAAATTTGTTTAC
65 TAATACTAATTTATTAATATT-TAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTAC
* * * * * * * * * *
354044 TGAACTAGTTTAAATATTTAAGGCTATATGAACAATTCTTTATTTCAAATCG
129 CGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * ***
354096 TTATGACCTTTTGTTTTGTCGTAAAACAATTTTTTC-ATTTCTTAGTAA-CTTATTCATAATAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATA-CAAGCTTATTTGGAATAAA
* * ** * * * *
354159 GTAAAAAAAATTTATTAATATTTGAAAACTTAATAAGCAAGAGATTTAAAAAA-CAATTTAGTTT
64 ATAATACTAATTTATTAATATTT-AAAAATTAATAAGTAAGAGATTTAAAAAATAAATCT-GTTT
* * * *
354223 GCCTAACCAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCA
127 ACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
** * * * * * * * * *
354277 TTATGTTCTTTTATTTTGTCATAAAACAAATGTTTTTGTACATATAAGTTTGTTTGGAATAAAAC
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAAT
* * * * * * *
354342 AATATTAATTTATTAATATTTTGAAAATTAAGAAGTAAGAAATTTAAAAAGTAAAACTGTTTACT
66 AATACTAATTTATTAATA-TTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACC
* * * * *
354407 AAACTAGTTCAATTAGTTATAACTATTTGAACAATTATTTATTTCAAATCA
130 GAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * * * *
354458 TTATGACCATTTGTATTGTCATACAATAATTATTTCTGTTCATAC-AGTCTTATTCGGAATAAAG
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAG-CTTATTTGGAATAAAA
* ** * * * * ** **
354522 TAATACTAATTTATCAATATTTTGAAATTAATAAGCAATAGATTTAAAAAATGAAGCAATTGGCC
65 TAATACTAATTTATTAATATTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACC
* * * * *
354587 TAACCAA-TGCAAATAGTTATGATTGTTTGAATAATTATCTATTTCAAATCA
130 GAA-CAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * * * *
354638 TTATAACCTTTTGTTTTATTACAAAACAATTGTTTC-ATCACAAAAAAATTGTTTCTGTCTTAAC
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTAT-TC-ATACAA--G---CT-TATT---
* * * * * *
354702 TAGCTTATTTGAAATAATA-TAATTCTATT-TTA-TTAATATTCTAAAAATTAA-TAAGAGATTT
55 T-G--GA-ATAAAATAATACTAATT-TATTAATATTTAAAAAT-T---AA-TAAGTAAGAGATTT
* ** * * * * *
354763 AAAAAATGAATCCATTTATCAAACAAGTACAAATAATTATGACTATTTGAATAATTTATCTATTT
110 AAAAAATAAATCTGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAA-TTATCTATTT
*
354828 CTAATCA
174 CAAATCA
* * * * **
354835 CTATAACCTTTTGTTTTGTCCTAAAACAAAAT-TTTCTATTCATACAAGCTTATTTCAAATAAAA
1 TTATGACCTTTTGTTTTGTCATAAAAC-AATTGTTTCTATTCATACAAGCTTATTTGGAATAAAA
* * ** * * * * *
354899 TTATACAAATTTATTAATATTCGACAACTAATAAGTAAAAGATTTAAAAAATAAATCTATTTATC
65 TAATACTAATTTATTAATATTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACC
** * * * **
354964 GATTAAGTTTAAATAATTATGACTATTTGAACAATTATTTATTTCAAATTG
130 GAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * *
355015 TTATGACTTTTTGTTTTCTCATGACACAATT
1 TTATGACCTTTTGTTTTGTCATAAAACAATT
355046 TAATATTTAT
Statistics
Matches: 1987, Mismatches: 480, Indels: 198
0.75 0.18 0.07
Matches are distributed among these distances:
174 3 0.00
175 119 0.06
176 31 0.02
177 113 0.06
178 17 0.01
179 129 0.06
180 591 0.30
181 651 0.33
182 155 0.08
183 19 0.01
184 10 0.01
185 3 0.00
186 3 0.00
187 4 0.00
190 3 0.00
191 3 0.00
192 4 0.00
193 9 0.00
194 12 0.01
195 3 0.00
196 54 0.03
197 46 0.02
198 5 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (180 bp):
TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAAT
AATACTAATTTATTAATATTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACCG
AACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
Found at i:353807 original size:535 final size:534
Alignment explanation
Indices: 352295--355030 Score: 1657
Period size: 542 Copynumber: 5.0 Consensus size: 534
352285 TTGTAAATAG
** * ** * * *
352295 AATTGTTATGACTTTTTGTTTTGT-AATAAAACAATTGGTTCTGTTCATACAAGCTTATTCGAAT
1 AATTGTTATGACAATTTGTTTAGTCAA-AAAACAATTATTTCTATCCATACAAGCTTATTCGAAA
* * * * * * *
352359 TAAAATAATATTAATTTATTAATATTTTGACAATTAACAAGTGAAAGATTTAAA-AAATAAATAT
65 TAAAATAATACTAATTTATTAAAATTTAGAAAATTAATAAGTAAAAGATTTAAATAAA-AAATCT
* * * * * * * *
352423 GTTTACCAAACAAGTTCAAATAGTGA-ATACTATTTGAATAATTATCTATTTCAAATAAT-TGTG
129 ATTTACCGAACAAGTTCAAATAGTTATA-ACTATTTGAACAATTATATATTTAAAAT-CTCTATG
* * * * * * * ** * * *
352486 ACCTTCTATTTTGTAATAAAATAATTGTTTC-AGTGAACATAAGCTTATTTGAAATAAAATAGCT
192 ACCTTTTATTTTATCATAAAACAACTGTTTCTAGT-CACAAAAATTTA-TTCAAAAAAAATA-AT
* * * * *
352550 -CTAATTTATTAATATACCAAAAATTAATG-AGTAAGAGAATTAAAAAAATGAATCTA-TTTACC
254 ACTAATTTATTAATATTCTAAAAATTAA-GAAGTTAGAG-ATTGAAAAAATAAATC-AGTTTACC
* * * * * * * * * *
352612 GAACAAGTTCAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAACATTATGACCATTTGT
316 AAACAAGTTCAAATAATCATGTCCATTTGAATAATTATCTATTTCAAATCATTATGAACTTTTGT
* * *
352677 TTTGTCATAAAATAATTAGTTTTGT-TCATGCAAGCTTATTTCGAATAAAATAATATAAATTTAT
381 TTTGTCATAAAATAATT-GTTTT-TATCATACAAGCTTATTTAGAATAAAATAATACAAATTTAT
* * * * * * ** *
352741 TAAAACTCCAAAAATTAATAAATAAAAATTTAAAAAATAAATATGTTTTTTGAACACATTCAATA
444 TAATATTTCAAAAA-T--T-AATAAAGATTT-AAAAATCAATATATTTTTTGAACAGTTTAAATA
*
352806 GTCATGACTATTTGAACAATTATCTATTTCA
504 GTTATGACTATTTGAACAATTATCTATTTCA
* * * *
352837 AATTGTTATGACAATTTGTTTTGTCATAAACCAATTATTTCTATTCATACAAGCTTATTCGAAAT
1 AATTGTTATGACAATTTGTTTAGTCAAAAAACAATTATTTCTATCCATACAAGCTTATTCGAAAT
* * ** * * *
352902 AAAATAATATTAATTTATTAATATTTTTAAAATTAATAAGTAAAAGATTTAAATAAGAAATTTGT
66 AAAATAATACTAATTTATTAAAATTTAGAAAATTAATAAGTAAAAGATTTAAATAAAAAATCTAT
* * * *
352967 TTACCGAGCAAGTTCAAATAGTTATTACTATTTGAACAATTATATATTTCAAATCTCTATGATCT
131 TTACCGAACAAGTTCAAATAGTTATAACTATTTGAACAATTATATATTTAAAATCTCTATGACCT
* * * * * ***
353032 TTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAATTTATTTGGAAAAAATAATACTAATT
196 TTTATTTTATCATAAAACAACTGTTTCTAGTCACAAAAATTTATTCAAAAAAAATAATACTAATT
* * * * *
353097 TATTATTATTCTAAAAATTAATAAGTTAGAGATTGAAAAAATAAATCTGTTTACCGAACAAGTTT
261 TATTAATATTCTAAAAATTAAGAAGTTAGAGATTGAAAAAATAAATCAGTTTACCAAACAAGTTC
* * * * *
353162 AAATAGTCATGTCCATTTGAACT-GTTATTTATTTCAAATCATTATG-ACATTTTGTTTTATTAT
326 AAATAATCATGTCCATTTGAA-TAATTATCTATTTCAAATCATTATGAAC-TTTTGTTTTGTCAT
* * ** * * * *
353225 AACATAATTGTTTCTATTCATACAAAATTCTTCAGAATAAAATAATACCAATTTATTACTATTTC
389 AAAATAATTGTTTTTA-TCATACAAGCTTATTTAGAATAAAATAATACAAATTTATTAATATTTC
* * * *
353290 AAAAATTAATAAGGATTTAAAAATCAATGTATTTTTTGAAGCAGTTTAAATAGTTAAGACTATTA
453 AAAAATTAATAAAGATTTAAAAATCAATATATTTTTTGAA-CAGTTTAAATAGTTATGACTATTT
*
353355 GAACAATTATCTATTCCA
517 GAACAATTATCTATTTCA
* * * * *
353373 AATTATTATGATC-TTTTGTTTAGTCAAAAAATAATTGTTT-TAGTCCATACATGCTTATTCGAA
1 AATTGTTATGA-CAATTTGTTTAGTCAAAAAACAATTATTTCTA-TCCATACAAGCTTATTCGAA
** * **** ***
353436 ATTTAGTAATACTAATTTATTAAAATTTAGAAAATTAATAAG-AATTTTTTTTTTTAAAAAATCT
64 ATAAAATAATACTAATTTATTAAAATTTAGAAAATTAATAAGTAAAAGATTTAAATAAAAAATCT
* * *
353500 ATTTACCGAATAAGTTCAAATAGTTATAACTATTTGAATAATTATCTATTTAAAATCGT-TATGA
129 ATTTACCGAACAAGTTCAAATAGTTATAACTATTTGAACAATTATATATTTAAAATC-TCTATGA
*
353564 CCTTTTATTTTATTATAAAACAACTGTTTC-AGT-ACATAAAAGTTT-TTCCAAAATAAAATAAT
193 CCTTTTATTTTATCATAAAACAACTGTTTCTAGTCACA-AAAA-TTTATT-CAAAA-AAAATAAT
* ** * * * * *
353626 ATTGCTTTATTAATATT-TCAAAAATTAGGAAGTTGGAGTTTTAAAAAATAAATCAGTTTATCAA
254 ACTAATTTATTAATATTCT-AAAAATTAAGAAGTTAGAGATTGAAAAAATAAATCAGTTTACCAA
** * *
353690 ATTA-TTCAAATAATTATAGT-CATTTGAATAATTATCTATTTCAAATCGTTATGAACTTTTGTT
318 ACAAGTTCAAATAATCAT-GTCCATTTGAATAATTATCTATTTCAAATCATTATGAACTTTTGTT
* * * * *
353753 TTGTCATAAAAAAATTGTTTTTCATCATACAAGCCTATTTGGAATAAAATAATACTAATTTACTA
382 TTGTCATAAAATAATTGTTTTT-ATCATACAAGCTTATTTAGAATAAAATAATACAAATTTATTA
* * ** *
353818 ATATTTCAAAAATTAATAAAAGATTTAAAAAGCTAATCTATTTACTGAACCAGTTCAAATAGTTA
446 ATATTTCAAAAATTAAT-AAAGATTTAAAAATC-AATATATTTTTTGAA-CAGTTTAAATAGTTA
*
353883 TGACTATTTGAACAATTATATATTTCA
508 TGACTATTTGAACAATTATCTATTTCA
* * * * * * * * * *
353910 AATTGTTATAAC-CTTTTTTTATCTCATAAAATAGTTATTTCTATTCACACAAGTTTATTCGAAA
1 AATTGTTATGACAATTTGTTTA-GTCAAAAAACAATTATTTCTATCCATACAAGCTTATTCGAAA
* * * * *
353974 TAAAATAATATTAATATAATAATA-TTATGAAAATTAATAA-CAAAGAGATTTAAA-AAATAAAT
65 TAAAATAATACTAATTTATTAAAATTTA-GAAAATTAATAAGTAAA-AGATTTAAATAAA-AAAT
* * * * * * * * *
354036 TTGTTTACTGAACTAGTTTAAATA-TT-TAAGGCTATATGAACAATTCTTTATTTCAAATCGT-T
127 CTATTTACCGAACAAGTTCAAATAGTTATAA--CTATTTGAACAATTATATATTTAAAATC-TCT
* * * * * * ** ** * * *
354098 ATGACCTTTTGTTTTGTCGTAAAACAATTTTTTC-ATTTCTTAGTAACTTATTCATAATAAAGTA
189 ATGACCTTTTATTTTATCATAAAACAACTGTTTCTA-GTCACAAAAATTTATTCA-AAAAAAATA
* ** * * ** * * * * *
354162 AAAAAAATTTATTAATATT-TGAAAACTTAATAAGCAAGAGATTTAAAAAACAATTTAGTTTGCC
252 ATACTAATTTATTAATATTCT-AAAAATTAAGAAGTTAGAGATTGAAAAAATAAATCAGTTTACC
* * * * * * ** *
354226 TAACCAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGTTCTTTTAT
316 AAACAAGTTCAAATAATCATGTCCATTTGAATAATTATCTATTTCAAATCATTATGAACTTTTGT
* * * * * * * * **
354291 TTTGTCATAAAACAAATGTTTTTGTACATATAAGTTTGTTTGGAATAAAACAATATTAATTTATT
381 TTTGTCATAAAATAATTGTTTTTAT-CATACAAGCTTATTTAGAATAAAATAATACAAATTTATT
** * * * ** * * *
354356 AATATTTTGAAAATTAAGAAGTAAGAAATTTAAAAAGT-AAAACTGTTTACTAAACTAGTTCAAT
445 AATATTTCAAAAATT---AA-TAA-AGATTTAAAAA-TCAATA-TATTTTTTGAAC-AGTTTAAA
* *
354420 TAGTTATAACTATTTGAACAATTATTTATTTCA
502 TAGTTATGACTATTTGAACAATTATCTATTTCA
** * * * * * * *
354453 AATCATTATGACCATTTGTATT-GTCATACAATAATTATTTCTGTTCATAC-AGTCTTATTCGGA
1 AATTGTTATGACAATTTGT-TTAGTCAAAAAACAATTATTTCTATCCATACAAG-CTTATTCGAA
* * * * * * * *
354516 ATAAAGTAATACTAATTTATCAATATTTTG-AAATTAATAAGCAATAGATTTAAA-AAATGAAGC
64 ATAAAATAATACTAATTTATTAAAATTTAGAAAATTAATAAGTAAAAGATTTAAATAAA-AAATC
* ** * * * * * * * *
354579 AATTGGCCTAACCAA-TGCAAATAGTTATGATTGTTTGAATAATTATCTATTTCAAATCAT-TAT
128 TATTTACCGAA-CAAGTTCAAATAGTTATAACTATTTGAACAATTATATATTTAAAATC-TCTAT
* * * * * *
354642 AACCTTTTGTTTTATTACAAAACAATTGTTTC-A-TCACAAAAAAATTGTTTCTGTCTTAACTAG
191 GACCTTTTATTTTATCATAAAACAACTGTTTCTAGTCAC--AAAAA-----T-T-TATT--C-A-
* * * *
354705 CTTATTTGAAATAATATAATTCTATTTTATTAATATTCTAAAAATT---AA-TAAGAGATTTAAA
243 ---A----AAA-AA-ATAATACTAATTTATTAATATTCTAAAAATTAAGAAGTTAGAGATTGAAA
* * * * * * *
354766 AAATGAATCCA-TTTATCAAACAAGTACAAATAATTATGACTATTTGAATAATTTATCTATTTCT
299 AAATAAAT-CAGTTTACCAAACAAGTTCAAATAATCATGTCCATTTGAATAA-TTATCTATTTCA
* * * * *
354830 AATCACTAT-AACCTTTTGTTTTGTCCTAAAACAAAAT-TTTCTATTCATACAAGCTTATTTCA-
362 AATCATTATGAA-CTTTTGTTTTGTCATAAAA-TAATTGTTTTTA-TCATACAAGCTTATTT-AG
* *
354892 AATAAAATTATACAAATTTATTAATA-TTCGACAACTAA-TAAGTAAAAGATTTAAAAAATAAAT
423 AATAAAATAATACAAATTTATTAATATTTC-A-AA--AATTAA-T-AAAGATTT-AAAAATCAAT
* * * * *
354955 CTATTTATCGATTA-AGTTTAAATAATTATGACTATTTGAACAATTATTTATTTCA
481 ATATTTTTTGA--ACAGTTTAAATAGTTATGACTATTTGAACAATTATCTATTTCA
**
355010 AATTGTTATGACTTTTTGTTT
1 AATTGTTATGACAATTTGTTT
355031 TCTCATGACA
Statistics
Matches: 1724, Mismatches: 375, Indels: 176
0.76 0.16 0.08
Matches are distributed among these distances:
533 3 0.00
534 8 0.00
535 231 0.13
536 221 0.13
537 127 0.07
538 143 0.08
539 128 0.07
540 129 0.07
541 42 0.02
542 296 0.17
543 131 0.08
544 8 0.00
545 2 0.00
548 1 0.00
549 3 0.00
551 1 0.00
552 1 0.00
555 2 0.00
556 2 0.00
557 121 0.07
558 86 0.05
559 10 0.01
560 3 0.00
561 24 0.01
562 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (534 bp):
AATTGTTATGACAATTTGTTTAGTCAAAAAACAATTATTTCTATCCATACAAGCTTATTCGAAAT
AAAATAATACTAATTTATTAAAATTTAGAAAATTAATAAGTAAAAGATTTAAATAAAAAATCTAT
TTACCGAACAAGTTCAAATAGTTATAACTATTTGAACAATTATATATTTAAAATCTCTATGACCT
TTTATTTTATCATAAAACAACTGTTTCTAGTCACAAAAATTTATTCAAAAAAAATAATACTAATT
TATTAATATTCTAAAAATTAAGAAGTTAGAGATTGAAAAAATAAATCAGTTTACCAAACAAGTTC
AAATAATCATGTCCATTTGAATAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGTCATAA
AATAATTGTTTTTATCATACAAGCTTATTTAGAATAAAATAATACAAATTTATTAATATTTCAAA
AATTAATAAAGATTTAAAAATCAATATATTTTTTGAACAGTTTAAATAGTTATGACTATTTGAAC
AATTATCTATTTCA
Found at i:354672 original size:19 final size:19
Alignment explanation
Indices: 354648--354692 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
354638 TTATAACCTT
* * *
354648 TTGTTTTATTACAAAACAA
1 TTGTTTCATCACAAAAAAA
354667 TTGTTTCATCACAAAAAAA
1 TTGTTTCATCACAAAAAAA
354686 TTGTTTC
1 TTGTTTC
354693 TGTCTTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (19 bp):
TTGTTTCATCACAAAAAAA
Found at i:355475 original size:17 final size:18
Alignment explanation
Indices: 355444--355485 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
355434 CACAAATATT
*
355444 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
355462 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
355479 AACTATT
1 AATTATT
355486 TGTTATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:355820 original size:17 final size:16
Alignment explanation
Indices: 355780--355829 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
355770 ATCTATACAG
355780 TTATAATTAA-TTTAA
1 TTATAATTAATTTTAA
355795 TTA-AA-TAATTTTAA
1 TTATAATTAATTTTAA
355809 TTATCAATTAATTTATAA
1 TTAT-AATTAATTT-TAA
355827 TTA
1 TTA
355830 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 3 0.10
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAATTAATTTTAA
Found at i:355985 original size:26 final size:26
Alignment explanation
Indices: 355956--356022 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
355946 AATACTTATA
355956 ATTTATTATTAATTA-TCTAAATATTG
1 ATTT-TTATTAATTATTCTAAATATTG
* * * *
355982 ATTTTAATTTAAATATTTTAATTATTG
1 ATTTTTA-TTAATTATTCTAAATATTG
356009 ATTTTTATTAATTA
1 ATTTTTATTAATTA
356023 ATAGATATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 2 0.06
26 16 0.48
27 15 0.45
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (26 bp):
ATTTTTATTAATTATTCTAAATATTG
Found at i:355987 original size:27 final size:29
Alignment explanation
Indices: 355957--356024 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 29
355947 ATACTTATAA
355957 TTTATTATTAATTA-TCTAAATATTGA-T
1 TTTATTATTAATTATTCTAAATATTGATT
* * * *
355984 TTTAAT-TTAAATATTTTAATTATTGATT
1 TTTATTATTAATTATTCTAAATATTGATT
356012 TTTATTAATTAAT
1 TTTATT-ATTAAT
356025 AGATATCTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 6 0.19
27 15 0.48
28 6 0.19
30 4 0.13
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTATTATTAATTATTCTAAATATTGATT
Found at i:356726 original size:16 final size:17
Alignment explanation
Indices: 356705--356737 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
356695 TATTGATTTC
356705 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
356721 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
356738 TGAACTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:357130 original size:181 final size:179
Alignment explanation
Indices: 356539--357167 Score: 701
Period size: 181 Copynumber: 3.5 Consensus size: 179
356529 CTGTACATTG
* ** * * *
356539 GTTCAAATAGTCATAACTATTTAAACAGGTTTGATAAATAAATTTATTTTTTAAATTTCTTACTT
1 GTTCAAATAGTCATAACTATTTGAACTTGTTCGATAAACAAATTTATTTTTTAAATCTCTTACTT
* * * *
356604 ATTAACTTTTGAAAGATTAATAAATTAATATTATTTTATTTT-G-AAGCTTGTCTGATAAAAAAC
66 ATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTTGGAAAGCTTGTATGA-ATAAAAC
* * * * *
356667 AATTGTTATATGACCAAACAAAAGGTAATATTGATTTCAAATAGATAATT
130 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATT
* * * * * * * * *
356717 ATTGAAATAGCCATAATTATTTGAACTAGTTCGGTAAACAAAATCATTTTTTAAATCACTTACTT
1 GTTCAAATAGTCATAACTATTTGAACTTGTTCGATAAACAAATTTATTTTTTAAATCTCTTACTT
* * * * *
356782 ATTAATTTTTGGAATATTAATAAATTACTATTATTTTATTTTGAAAAAGCTTGTATGAATTGAGA
66 ATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTTG-GAAAGCTTGTATGAA-TAAAA
*
356847 CAATTGTTTTATGACAAAACAAAAGATCATAATGATTTTAAATAGATAATT
129 CAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATT
* * * *
356898 GCTCAAATAGTCATAACTATTTGAATTTGTT-AAGTAAACAAATTAATTTTTTTAAA-CTCTTAC
1 GTTCAAATAGTCATAACTATTTGAACTTGTTCGA-TAAACAAATTTA-TTTTTTAAATCTCTTAC
* * *
356961 TTATTAATTTTTGAAATATTAAGAAATTAGTATTATTTTATTTTGGATAAGCTTCTATGAACTAA
64 TTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTTGGA-AAGCTTGTATGAA-TAA
* * * *
357026 AACAATTGTTTTTTGTCAAAACAAAAGGTCATAACGATTTTAAATAAATAATT
127 AACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATT
* * * ** * *
357079 GTTCAAATAGTCATAACTATTTGAATTTGATCGATAAACAGATTTATTTTTTCATTTCTTTTGCT
1 GTTCAAATAGTCATAACTATTTGAACTTGTTCGATAAACAAATTTATTTTTT-AAATCTCTTACT
*
357144 TATTAATTTTGTG-AATGTTAATAA
65 TATTAATTTT-TGAAATATTAATAA
357168 TAAAAAATTT
Statistics
Matches: 375, Mismatches: 65, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
178 89 0.24
180 8 0.02
181 241 0.64
182 35 0.09
183 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (179 bp):
GTTCAAATAGTCATAACTATTTGAACTTGTTCGATAAACAAATTTATTTTTTAAATCTCTTACTT
ATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTTGGAAAGCTTGTATGAATAAAACA
ATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATT
Found at i:357203 original size:14 final size:15
Alignment explanation
Indices: 357171--357209 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
357161 TTAATAATAA
357171 AAAAT-TTTAAATTT
1 AAAATATTTAAATTT
*
357185 TAAATATTTAAA-TT
1 AAAATATTTAAATTT
357199 AAAATATTTAA
1 AAAATATTTAA
357210 TTTTTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAAATATTTAAATTT
Found at i:358872 original size:11 final size:10
Alignment explanation
Indices: 358827--358876 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
358817 AGATTTAAAA
358827 AATTAAATA-
1 AATTAAATAT
358836 AATTAGAATAT
1 AATTA-AATAT
* *
358847 ATTTAATTAT
1 AATTAAATAT
358857 AATTAAATATT
1 AATTAAATA-T
358868 AATTAAATA
1 AATTAAATA
358877 AACTAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 5 0.15
10 15 0.44
11 14 0.41
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
AATTAAATAT
Found at i:359056 original size:24 final size:24
Alignment explanation
Indices: 359005--359068 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
358995 TATTTTTACT
*
359005 TAATTATTATTATA-T-ATTTATA
1 TAATTAATATTATATTAATTTATA
359027 TAATTAATATTATATTAATTTATA
1 TAATTAATATTATATTAATTTATA
359051 -ATATTAATAATTA-ATTAA
1 TA-ATTAAT-ATTATATTAA
359069 AAAACCAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 13 0.35
23 2 0.05
24 18 0.49
25 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATTAATATTATATTAATTTATA
Found at i:359181 original size:18 final size:18
Alignment explanation
Indices: 359150--359218 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
359140 ATAATCTTTA
**
359150 TAATAATTCTTATAATAT
1 TAATAATTAATATAATAT
359168 TAATAATTAATATAAT-T
1 TAATAATTAATATAATAT
* *
359185 TATTCAATTAAACAATAATAT
1 TAAT-AATT-AA-TATAATAT
*
359206 TAATAATTTATAT
1 TAATAATTAATAT
359219 TCTTATTGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
17 4 0.10
18 20 0.50
19 3 0.08
20 9 0.22
21 4 0.10
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATTAATATAATAT
Found at i:359182 original size:30 final size:30
Alignment explanation
Indices: 359116--359183 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
359106 TTAATTTTAA
359116 TATATAATAATTTTAAATTATTATATAATC
1 TATATAATAATTTTAAATTATTATATAATC
*
359146 TTTATAATAATTCTTATAA-TATTA-ATAAT-
1 TATATAATAATT-TTA-AATTATTATATAATC
359175 TAATATAAT
1 T-ATATAAT
359184 TTATTCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 1 0.03
30 22 0.67
31 8 0.24
32 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
TATATAATAATTTTAAATTATTATATAATC
Found at i:360570 original size:24 final size:26
Alignment explanation
Indices: 360543--360591 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
360533 ATATACATTT
360543 AGTTTTACTT-TTAG-TTTTCCACAC
1 AGTTTTACTTCTTAGTTTTTCCACAC
*
360567 AGTTTTATTTCTTAGTTTTTCCACA
1 AGTTTTACTTCTTAGTTTTTCCACA
360592 TGGTATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 4 0.18
26 9 0.41
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.53
Consensus pattern (26 bp):
AGTTTTACTTCTTAGTTTTTCCACAC
Found at i:360870 original size:24 final size:24
Alignment explanation
Indices: 360822--360870 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
360812 ATACACTTTT
*
360822 AGTTTTACTTTTAGTTTTTTGCAC
1 AGTTTTACTTTTAGTTTTTTCCAC
*
360846 AGTTTTATTTCTTAG-TTTTTCCAC
1 AGTTTTACTT-TTAGTTTTTTCCAC
360870 A
1 A
360871 TGGTATGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.18, C:0.14, G:0.10, T:0.57
Consensus pattern (24 bp):
AGTTTTACTTTTAGTTTTTTCCAC
Found at i:361009 original size:279 final size:279
Alignment explanation
Indices: 360509--361053 Score: 966
Period size: 279 Copynumber: 2.0 Consensus size: 279
360499 TTTTAATATT
*
360509 TAATTCTTTATGAGCAGTTTTTCAATATACATTTAGTTTTACTTTTAGTTTTCCACACAGTTTTA
1 TAATTCTTTATGAGCAGTTTTTCAATACACATTTAGTTTTACTTTTAGTTTTCCACACAGTTTTA
*
360574 TTTCTTAGTTTTTCCACATGGTATGAGAACCAGGACTTTCTTTCCATTGCCCTTTACTAATTTGT
66 TTTCTTAGTTTTTCCACATGGTATGAGAACCAGGACTTTCTCTCCATTGCCCTTTACTAATTTGT
360639 CACGTGGAAGGCTTCTTTCCTCTTCACCTACACGTAATGGGGGCCTGTTAAAAGTTTAAATAACT
131 CACGTGGAAGGCTTCTTTCCTCTTCACCTACACGTAATGGGGGCCTGTTAAAAGTTTAAATAACT
* *
360704 AATATTATATCTAAATATTATTTAATTTTTATTTTAATATTAATAATTTAATGAGTTTATTATAC
196 AATATTATATCTAAATATTATTTAATTTTTATTTTAATATTAATAATTTAATAAGTTTATTACAC
360769 AAGCACATAATTACTTGTA
261 AAGCACATAATTACTTGTA
* ***
360788 TAATTCTTTATGAGCAGTTTTTCAATACACTTTTAGTTTTACTTTTAGTTTTTTGCACAGTTTTA
1 TAATTCTTTATGAGCAGTTTTTCAATACACATTTAGTTTTACTTTTAGTTTTCCACACAGTTTTA
* *
360853 TTTCTTAGTTTTTCCACATGGTATGAGAGCCAGGACATTT-TCTCCATTGCCCTTTCCTAATTTG
66 TTTCTTAGTTTTTCCACATGGTATGAGAACCAGGAC-TTTCTCTCCATTGCCCTTTACTAATTTG
* *
360917 TCACGTGGAAGGCTTCTTTCCTCTTCACCTACATGTAATGGGGGCCTGTTAAAGGTTTAAATAAC
130 TCACGTGGAAGGCTTCTTTCCTCTTCACCTACACGTAATGGGGGCCTGTTAAAAGTTTAAATAAC
360982 TAATATTATATCTAAATATTATTTAATTTTTATTTTAATATTAATAATTTAATAAGTTTATTACA
195 TAATATTATATCTAAATATTATTTAATTTTTATTTTAATATTAATAATTTAATAAGTTTATTACA
361047 CAAGCAC
260 CAAGCAC
361054 CTTAGGTTTA
Statistics
Matches: 253, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
279 250 0.99
280 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (279 bp):
TAATTCTTTATGAGCAGTTTTTCAATACACATTTAGTTTTACTTTTAGTTTTCCACACAGTTTTA
TTTCTTAGTTTTTCCACATGGTATGAGAACCAGGACTTTCTCTCCATTGCCCTTTACTAATTTGT
CACGTGGAAGGCTTCTTTCCTCTTCACCTACACGTAATGGGGGCCTGTTAAAAGTTTAAATAACT
AATATTATATCTAAATATTATTTAATTTTTATTTTAATATTAATAATTTAATAAGTTTATTACAC
AAGCACATAATTACTTGTA
Found at i:361580 original size:31 final size:31
Alignment explanation
Indices: 361545--361609 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
361535 AATTCATATT
*
361545 TAATTATAATTAATTAA-ATTATAATAATTAA
1 TAATTATAATTAATTAATATTACAA-AATTAA
* *
361576 TAATTCTAATTAATTAATATTCCAAAATTAA
1 TAATTATAATTAATTAATATTACAAAATTAA
361607 TAA
1 TAA
361610 GTAAAAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (31 bp):
TAATTATAATTAATTAATATTACAAAATTAA
Found at i:362659 original size:22 final size:24
Alignment explanation
Indices: 362615--362673 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 24
362605 TAAAATATTG
362615 TTATAATTA-AATA-ATAATCTAA
1 TTATAATTATAATATATAATCTAA
362637 TT-TAATTATAATATATAAT-TAA
1 TTATAATTATAATATATAATCTAA
*
362659 TTAAAATT-TAATATA
1 TTATAATTATAATATA
362674 AATATTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.18
22 18 0.55
23 9 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TTATAATTATAATATATAATCTAA
Found at i:362674 original size:20 final size:20
Alignment explanation
Indices: 362649--362702 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
362639 TAATTATAAT
*
362649 ATATAATTAATTAAAATTTA
1 ATATAAATAATTAAAATTTA
* *
362669 ATATAAATATTTAAATTTTAA
1 ATATAAATAATTAAAATTT-A
*
362690 ATATTAA-AATTAA
1 ATATAAATAATTAA
362703 TATATATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATAAATAATTAAAATTTA
Found at i:362794 original size:13 final size:13
Alignment explanation
Indices: 362778--362802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
362768 AATACAAATA
362778 AATCTAATTATTT
1 AATCTAATTATTT
362791 AATCTAATTATT
1 AATCTAATTATT
362803 AATAAAGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
AATCTAATTATTT
Found at i:363349 original size:14 final size:14
Alignment explanation
Indices: 363330--363359 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
363320 TTAGGAGATT
363330 ATAAATTTAGTATA
1 ATAAATTTAGTATA
*
363344 ATAAATTTATTATA
1 ATAAATTTAGTATA
363358 AT
1 AT
363360 TTAAAGTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
ATAAATTTAGTATA
Found at i:363721 original size:19 final size:19
Alignment explanation
Indices: 363697--363735 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
363687 AAATATATAT
363697 ATAATTTATAAT-ATAATTA
1 ATAA-TTATAATAATAATTA
*
363716 ATAATTATATTAATAATTA
1 ATAATTATAATAATAATTA
363735 A
1 A
363736 AAATATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATTATAATAATAATTA
Found at i:363920 original size:19 final size:20
Alignment explanation
Indices: 363896--363933 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
363886 TTAATTATTA
363896 TTAATT-TA-ATATATAAATG
1 TTAATTATAGATAT-TAAATG
363915 TTAATTATAGATATTAAAT
1 TTAATTATAGATATTAAAT
363934 ATTATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTAATTATAGATATTAAATG
Found at i:364008 original size:17 final size:17
Alignment explanation
Indices: 363983--364015 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
363973 TTTTTACTTA
363983 ATTAGTATAATAATTAT
1 ATTAGTATAATAATTAT
*
364000 ATTATTATAATAATTA
1 ATTAGTATAATAATTA
364016 ATTGAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
ATTAGTATAATAATTAT
Found at i:364012 original size:20 final size:20
Alignment explanation
Indices: 363858--364018 Score: 55
Period size: 23 Copynumber: 7.6 Consensus size: 20
363848 ATCTAATAAA
* *
363858 ATAATAGTAATTATATTATA
1 ATAATAATAATTATATTATT
363878 ATAATAAATTAATTATTATTAATT
1 ATAAT-AA-TAATTA-TATT-ATT
*
363902 -TAATATATAA--ATGTTAATT
1 ATAATA-ATAATTATATT-ATT
* *
363921 ATAGATATTAAATATTATATATT
1 ATA-ATAATAATTA-TAT-TATT
** *
363944 AATCCTAATAATTA-ATAATT
1 -ATAATAATAATTATATTATT
* *
363964 AT-ATAACAATTTTTACTTAATT
1 ATAATAATAA-TTATA-TT-ATT
363986 AGT-ATAATAATTATATTATT
1 A-TAATAATAATTATATTATT
364006 ATAATAATTAATT
1 ATAATAA-TAATT
364019 GAAATGTTTA
Statistics
Matches: 106, Mismatches: 16, Indels: 37
0.67 0.10 0.23
Matches are distributed among these distances:
18 5 0.05
19 12 0.11
20 23 0.22
21 14 0.13
22 19 0.18
23 28 0.26
24 5 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
ATAATAATAATTATATTATT
Found at i:365000 original size:13 final size:12
Alignment explanation
Indices: 364981--365031 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
364971 AATCAATTAT
364981 AATTAATTAATA
1 AATTAATTAATA
*
364993 ATATTAATAAATA
1 A-ATTAATTAATA
*
365006 AATTATTTATATA
1 AATTAATTA-ATA
*
365019 AATTATTTAATA
1 AATTAATTAATA
365031 A
1 A
365032 TTTACAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.32
13 23 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTAATTAATA
Found at i:367597 original size:180 final size:175
Alignment explanation
Indices: 367068--367625 Score: 498
Period size: 180 Copynumber: 3.1 Consensus size: 175
367058 GTTTGTTCAA
* * * * *
367068 AATAAAATAATACTAATTTATTA-ATATTTAGAAAATAAATTAGTAAGAGATTTAAAAAGTAAAT
1 AATAAAATAATACTAATTTAATATAT-TTTA-AAAATTAATAAGTAAGAAATTTAAAAAATAAAT
* * * * * *
367132 TTTTTACCAACCATTTCAAATAGTTTTGACTATTTGAAAATTATCTATTTCAAATTGTTATAACC
64 TTTTTACAAATCATTT-AAATAGTTATGACTATTAGAAAATTATCTATTTAAAATTGTTATGACC
* * * * * **
367197 TTTTATTTTGTCATTAAACAATTGGTTCTGTTCATGCTATTTTATTTAG
128 TTTTATTTAGTTATAAAACAATT-GTTCTGTTCATACAAGCTTATTTAG
* * * ** *
367246 AATAAAATAATATTAATTTAATATTATTTCAAAACTTAATAACCAAGAAAATTAAAAAATAAATC
1 AATAAAATAATACTAATTTAATA-TATTTTAAAAATTAATAAGTAAGAAATTTAAAAAATAAAT-
* * * * *
367311 TAATTGTT-GAACTCGTTAAAATAGTTATGA-TGA-TATGAATAATTATCTATTTTAAATTGTTA
64 T--TT-TTACAAATCATTTAAATAGTTATGACT-ATTA-GAA-AATTATCTATTTAAAATTGTTA
* * * * *
367373 TGACATTTTCTTTTA-TTGTAAAACAATTGTTTTG-TCAGTACAAGCTTATTTTG
123 TGACCTTTT-ATTTAGTTATAAAACAATTGTTCTGTTCA-TACAAGCTTATTTAG
*
367426 ATTAAAATAATACTAATTTAATGATATTTTAAAAATTAATAAGTAAGAAATTTAAAAAATAAATT
1 AATAAAATAATACTAATTTAAT-ATATTTTAAAAATTAATAAGTAAGAAATTTAAAAAATAAATT
* * * * *
367491 TGTTTACAAATCAATTTAAATGGTTAAGACTATTAAAACAATTATCTATTTAAAATCGTTCTGAC
65 T-TTTACAAATC-ATTTAAATAGTTATGACTATTAGAA-AATTATCTATTTAAAATTGTTATGAC
* * *
367556 CTTTTGTTTAGTTATAAAACAATTGTTCTAGTTTATACAAGCTTATTCAG
127 CTTTTATTTAGTTATAAAACAATTGTTCT-GTTCATACAAGCTTATTTAG
* *
367606 AATAAATTAATAATAATTTA
1 AATAAAATAATACTAATTTA
367626 TTGGCATTCA
Statistics
Matches: 299, Mismatches: 61, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
177 3 0.01
178 55 0.18
179 68 0.23
180 121 0.40
181 47 0.16
182 5 0.02
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (175 bp):
AATAAAATAATACTAATTTAATATATTTTAAAAATTAATAAGTAAGAAATTTAAAAAATAAATTT
TTTACAAATCATTTAAATAGTTATGACTATTAGAAAATTATCTATTTAAAATTGTTATGACCTTT
TATTTAGTTATAAAACAATTGTTCTGTTCATACAAGCTTATTTAG
Found at i:368645 original size:181 final size:180
Alignment explanation
Indices: 368319--369442 Score: 945
Period size: 181 Copynumber: 6.3 Consensus size: 180
368309 ATTAAATCTT
* * * *
368319 TTATT-AATTTT-TGAAGTATTAATAAATTAATATTATTTTATTTTGAACACA-CTTATATGAAC
1 TTATTAAATTTTAT-AA-TATTAATAAATTAGTATTATTTTATTTCGAATA-AGCTTGTATGAAC
* * * * *
368381 AAAAACATTTGTTTTACGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCATATA
63 AAAAACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATA
* * * * * *
368446 GCCTTAACTATTTGAATTGGTTC-AGTAAACAAATTTATTTTTTAAATCTATCAG
128 GTCATAACTATTTGAACTGATTCGA-TAAACAGATTTATTTTTTAAATCT-TCAC
* * * *
368500 TAATTAAATTTTATAATATTACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGACA
1 TTATTAAATTTTATAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACAAA
* * * * *
368565 AATAATTATATTATGACAAAACAAAAGGTTATAATGATTAGAAATATATAATTGTTCAAATAGTC
66 AACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTC
* * *
368630 ATAACTATTTGAATTGATTCGATAAATAGATTTATTTTTTAAATCTCCTAC
131 ATAACTATTTGAACTGATTCGATAAACAGATTTATTTTTTAAATCTTC-AC
* * **
368681 TTATTAATTTTTCA-AATATTAATAAATTAGTATTCTTTTA-TTCTGAATAAGCTTGTATGATGA
1 TTATTAAATTTT-ATAATATTAATAAATTAGTATTATTTTATTTC-GAATAAGCTTGTATGAACA
* * *
368744 AAAACAATTATTTTATGAC--AACAAAAGTTCATAATGATTTGAAATAGATAATTGTTTAAATGG
64 AAAACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAG
* * * * *
368807 CCATAATTATTTGAACTGATTCGATAAACTGATTTATGTTTTAAATCTCTAAC
129 TCATAACTATTTGAACTGATTCGATAAACAGATTTATTTTTTAAATCT-TCAC
* * * * * * * **
368860 TTATCAATTTTTATAATATTAATAAAGTAATTTTATTTTATTT-TAGATAAGCTTTTATGAACTG
1 TTATTAAATTTTATAATATTAATAAATTAGTATTATTTTATTTCGA-ATAAGCTTGTATGAACAA
* * * * *
368924 AAACAATTGTTTTATGATAAAATATAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATAGT
65 AAACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGT
* * * * * *
368989 CAAAAATATTTGAACTTG-CTCGGTAAATAGA--T-TTTTTTAATTTCTT-AC
130 CATAACTATTTGAAC-TGATTCGATAAACAGATTTATTTTTTAA-ATCTTCAC
* * * * * **
369037 TTAAT-AATTTTCTAAATGTTAATAAATTAGTATTATTTTATTTTGAATAAGCATGTAT-AAGTT
1 TTATTAAATTTTAT-AATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAA-CA
* * * * * *
369100 GAAGCAATTATTTTATGACTAAACAAAAGGTCAAAACGATTTGAAATAGATAATTG-TCTGAATA
64 AAAACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTC-AAATA
* * *
369164 GTCTTAACTATTTGAACTGATTC-AGCAAACACATTTATTTTTTAAATCCTT-AC
128 GTCATAACTATTTGAACTGATTCGA-TAAACAGATTTATTTTTTAAAT-CTTCAC
* * * * * *
369217 TTATT-AATGTTTAGAATATTATTAATTTAGAAATATTTTA-CTCTGAATAAG-TT-TATTGAAC
1 TTATTAAAT-TTTATAATATTAATAAATTAGTATTATTTTATTTC-GAATAAGCTTGTA-TGAAC
** * * * * ** * * *
369278 ACAAATTAAATGTTTTAGGACAAAACAAAA-ATCATAACAATTGGAGATAGATAACTGTTCAAAT
63 A-AAAACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
* * * *
369342 AGTCATAACTATTTAAACTGGTTCGATAAAGAGATTTAGTTTTTAAATC-T--C
127 AGTCATAACTATTTGAACTGATTCGATAAACAGATTTATTTTTTAAATCTTCAC
* * * * *
369393 TTATT-AATTTTCAAAATAGTGATAAAATAGTATTATTTTATTTTGAATAA
1 TTATTAAATTTT-ATAATATTAATAAATTAGTATTATTTTATTTCGAATAA
369443 TTTTGCATGA
Statistics
Matches: 759, Mismatches: 150, Indels: 73
0.77 0.15 0.07
Matches are distributed among these distances:
175 3 0.00
176 47 0.06
177 115 0.15
178 14 0.02
179 216 0.28
180 81 0.11
181 270 0.36
182 12 0.02
183 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (180 bp):
TTATTAAATTTTATAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACAAA
AACAATTATTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTC
ATAACTATTTGAACTGATTCGATAAACAGATTTATTTTTTAAATCTTCAC
Found at i:368821 original size:360 final size:356
Alignment explanation
Indices: 368319--369442 Score: 1139
Period size: 360 Copynumber: 3.1 Consensus size: 356
368309 ATTAAATCTT
** * * * * **
368319 TTATTAATTTTTGAAGTATTAATAAATTAATATTATTTTATTTTGAACACA-CTTATATGAACAA
1 TTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATA-AGCTTGTATGATGAA
* * * * * *
368383 AAACATTTGTTTTACGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCATATAGC
65 AAACAATTATTTTATGAC-AAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTTAAATAGC
* * * *
368448 CTTAACTATTTGAATTGGTTCAGTAAACAAATTTATTTTTTAAATCTATCAGTAATTAAATTTTA
129 CTTAACTATTTGAACTGATTCAGTAAACAAATTTATTTTTTAAATCT-T-ACTTATTAAATTTTA
* * * *
368513 TAATATTACTAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGACAAATAATTATATTA
192 TAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTT-TATGAACACAAATAATTGTTTTA
* *
368578 TGACAAAACAAAAGGTTATAATGATTAGAAATATATAATTGTTCAAATAGTCATAACTATTTGAA
256 TGACAAAACAAAAGGTCATAATGATTAGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAA
368643 TTGATTCGATAAATAGATTTATTTTTTAAATCTCCTAC
321 TTG-TTCGATAAATAGATTTATTTTTTAAAT-TCCTAC
* *
368681 TTATTAATTTTTC-AAATATTAATAAATTAGTATTCTTTTATTCTGAATAAGCTTGTATGATGAA
1 TTATTAA-TTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGATGAA
* *
368745 AAACAATTATTTTATGAC-AACAAAAGTTCATAATGATTTGAAATAGATAATTGTTTAAATGGCC
65 AAACAATTATTTTATGACAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTTAAATAGCC
* * ** * * *
368809 ATAATTATTTGAACTGATTC-GATAAACTGATTTATGTTTTAAATCTCTAACTTATCAATTTTTA
130 TTAACTATTTGAACTGATTCAG-TAAACAAATTTATTTTTTAAATCT-T-ACTTATTAAATTTTA
* * * * ** *
368873 TAATATTAATAAAGTAATTTTATTTTATTT-TAGATAAGCTTTTATGAACTGAAACAATTGTTTT
192 TAATATTAATAAATTAGTATTATTTTATTTCGA-ATAAGC-TTTATGAACACAAATAATTGTTTT
* * * ** * *
368937 ATGATAAAATATAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATAGTCAAAAATATTTGA
255 ATGACAAAACAAAAGGTCATAATGATTAGAAATAGATAATTGTTCAAATAGTCATAACTATTTGA
* * * *
369002 ACTTGCTCGGTAAATAGA--T-TTTTTTAATTTCTTAC
320 A-TTGTTCGATAAATAGATTTATTTTTTAAATTCCTAC
* * * * *
369037 TTAATAATTTTCTAAATGTTAATAAATTAGTATTATTTTATTTTGAATAAGCATGTATAAGTTG-
1 TTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTAT--GATGA
* * * * *
369101 -AAGCAATTATTTTATGACTAAACAAAAGGTCAAAACGATTTGAAATAGATAATTGTCTGAATAG
64 AAAACAATTATTTTATGAC-AAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTTAAATAG
* * *
369165 TCTTAACTATTTGAACTGATTCAGCAAACACATTTATTTTTTAAATCCTTACTTATT-AATGTTT
128 CCTTAACTATTTGAACTGATTCAGTAAACAAATTTATTTTTTAAAT-CTTACTTATTAAAT-TTT
* * * * * * *
369229 AGAATATTATTAATTTAGAAATATTTTA-CTCTGAATAAG-TTTATTGAACACAAATTAAATGTT
191 ATAATATTAATAAATTAGTATTATTTTATTTC-GAATAAGCTTTA-TGAACACAAA-TAATTGTT
* * ** * * *
369292 TTAGGACAAAACAAAA-ATCATAACAATTGGAGATAGATAACTGTTCAAATAGTCATAACTATTT
253 TTATGACAAAACAAAAGGTCATAATGATTAGAAATAGATAATTGTTCAAATAGTCATAACTATTT
* * * *
369356 AAACTGGTTCGATAAAGAGATTTAGTTTTTAAA-T-CT-C
318 GAA-TTGTTCGATAAATAGATTTATTTTTTAAATTCCTAC
* * *
369393 TTATTAATTTTCAAAATAGTGATAAAATAGTATTATTTTATTTTGAATAA
1 TTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAA
369443 TTTTGCATGA
Statistics
Matches: 624, Mismatches: 117, Indels: 48
0.79 0.15 0.06
Matches are distributed among these distances:
355 9 0.01
356 179 0.29
357 62 0.10
358 83 0.13
359 12 0.02
360 206 0.33
361 6 0.01
362 63 0.10
363 4 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (356 bp):
TTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGATGAAA
AACAATTATTTTATGACAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTTAAATAGCCT
TAACTATTTGAACTGATTCAGTAAACAAATTTATTTTTTAAATCTTACTTATTAAATTTTATAAT
ATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTTATGAACACAAATAATTGTTTTATGACA
AAACAAAAGGTCATAATGATTAGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAATTGTT
CGATAAATAGATTTATTTTTTAAATTCCTAC
Found at i:370380 original size:8 final size:8
Alignment explanation
Indices: 370357--370397 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
370347 AATTAAACAA
370357 TATAATAT
1 TATAATAT
370365 T-T-ATAT
1 TATAATAT
370371 TATAATAT
1 TATAATAT
370379 TATAATAT
1 TATAATAT
*
370387 TATAATTT
1 TATAATAT
370395 TAT
1 TAT
370398 TACGATACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 5 0.17
7 2 0.07
8 23 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TATAATAT
Found at i:370573 original size:38 final size:40
Alignment explanation
Indices: 370499--370582 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 40
370489 AATATTTTAA
*
370499 ATAAATATTTGTATTTAATTAATTATTATTTATATT-ATT
1 ATAAATATTTGTAGTTAATTAATTATTATTTATATTAATT
*
370538 ATAAAT-TTTTTAGTTAATTAA-TATT-TATTATTATTAATT
1 ATAAATATTTGTAGTTAATTAATTATTAT-TTA-TATTAATT
370577 A-AAATA
1 ATAAATA
370583 ATATTTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
36 1 0.03
37 7 0.18
38 21 0.54
39 10 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (40 bp):
ATAAATATTTGTAGTTAATTAATTATTATTTATATTAATT
Found at i:370611 original size:25 final size:25
Alignment explanation
Indices: 370553--370600 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
370543 TTTTTTAGTT
* *
370553 AATTAATATTTATTATTATTAATTA
1 AATTAATATTTATAATTACTAATTA
*
370578 AAATAATATTTATAATTACTAAT
1 AATTAATATTTATAATTACTAAT
370601 ATTATTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
AATTAATATTTATAATTACTAATTA
Found at i:371621 original size:23 final size:22
Alignment explanation
Indices: 371544--371640 Score: 85
Period size: 23 Copynumber: 4.3 Consensus size: 22
371534 AATAAACAAA
371544 TATTACATAATTAATAATTAAT-T
1 TATTA-ATAA-TAATAATTAATAT
*
371567 TAATAATCAATCAATAATTAATAT
1 TATTAAT-AAT-AATAATTAATAT
*
371591 T-TTGAAT-A-AATTATTAATAT
1 TATT-AATAATAATAATTAATAT
*
371611 TATTAATAATATTATATTAATAT
1 TATTAATAATAATA-ATTAATAT
371634 TATTAAT
1 TATTAAT
371641 TTATTTAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
20 15 0.25
21 3 0.05
22 6 0.10
23 32 0.52
24 5 0.08
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.47
Consensus pattern (22 bp):
TATTAATAATAATAATTAATAT
Found at i:371623 original size:32 final size:32
Alignment explanation
Indices: 371585--371652 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
371575 AATCAATAAT
*
371585 TAATATTTTGAATAA-ATTATTAATATTA-TTAA
1 TAATATTAT-AATAATATTATTAAT-TTATTTAA
*
371617 TAATATTATATTAATATTATTAATTTATTTAA
1 TAATATTATAATAATATTATTAATTTATTTAA
371649 TAAT
1 TAAT
371653 CCAATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 7 0.22
32 25 0.78
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (32 bp):
TAATATTATAATAATATTATTAATTTATTTAA
Found at i:372701 original size:120 final size:120
Alignment explanation
Indices: 372480--372713 Score: 346
Period size: 120 Copynumber: 1.9 Consensus size: 120
372470 AAAATGAATT
* ** **
372480 TATTTACTGAACAAGTTCAAATAGTTATGGTTATTTGAACAATTATCTATTTCAAATTGCTATGA
1 TATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCACTATGA
372545 CCTTATGTTTTGTCATAAAACAATTTTTTCTATTCATACAAA-CTTATTTCAAATC
66 CCTTATGTTTTGTCATAAAACAATTTTTTCTATTCATA-AAAGCTTATTTCAAATC
* * *
372600 TATTTACCGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATTTATTTCAAATCATTATGA
1 TATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCACTATGA
* *
372665 CCTTTTGTTTTGTCATAAAACAATTATTTT-TGTTCATAAAAGCTTATTT
66 CCTTATGTTTTGTCATAAAACAATT-TTTTCTATTCATAAAAGCTTATTT
372714 GGATTAAAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
119 3 0.03
120 95 0.93
121 4 0.04
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (120 bp):
TATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCACTATGA
CCTTATGTTTTGTCATAAAACAATTTTTTCTATTCATAAAAGCTTATTTCAAATC
Found at i:372924 original size:181 final size:180
Alignment explanation
Indices: 372609--372959 Score: 488
Period size: 181 Copynumber: 1.9 Consensus size: 180
372599 CTATTTACCG
* * * * * ** *
372609 AATAAGTTCAAATAGTTATGACTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTT
1 AATAAATTCAAATAGTAATAACTATTTAAACAATTATCTATTTCAAATCATTAAAACCTTTTATT
*** * * *
372674 TTGTCATAAAACAATTATTTTTGTTCATAAAAGCTTATTTGGATTAAAATAATATTAATTTATTA
66 TTGTCATAAAACAATTATTTACATTCATAAAAGCTTATTTGGAATAAAATAATATAAATTTACTA
*
372739 ATATT-TCAATAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTATCA
131 ATATTCT-AAGAATTAATAAGTAAAA-ATTTAAAAAATAAATATGTTTATCA
*
372790 AATAAATTCAAATAGTAATAACTATTTAAATAATTATCTATTTCAAATCATTAAAACCTTTTATT
1 AATAAATTCAAATAGTAATAACTATTTAAACAATTATCTATTTCAAATCATTAAAACCTTTTATT
* * * *
372855 TTGTCATAAAATAATTGTTTACATTCATACAAGCTTATTTTGAATAAAATAATATAAATTTACTA
66 TTGTCATAAAACAATTATTTACATTCATAAAAGCTTATTTGGAATAAAATAATATAAATTTACTA
*
372920 ATATTCTAAGAATTAATAAGTAAAAATTTTAAAAATAAAT
131 ATATTCTAAGAATTAATAAGTAAAAATTTAAAAAATAAAT
372960 CTATGTTAGT
Statistics
Matches: 148, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
180 14 0.09
181 133 0.90
182 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (180 bp):
AATAAATTCAAATAGTAATAACTATTTAAACAATTATCTATTTCAAATCATTAAAACCTTTTATT
TTGTCATAAAACAATTATTTACATTCATAAAAGCTTATTTGGAATAAAATAATATAAATTTACTA
ATATTCTAAGAATTAATAAGTAAAAATTTAAAAAATAAATATGTTTATCA
Found at i:373225 original size:11 final size:11
Alignment explanation
Indices: 373190--373266 Score: 54
Period size: 11 Copynumber: 7.2 Consensus size: 11
373180 TTAGTTAATC
373190 TAATTATTATA
1 TAATTATTATA
**
373201 TGTTTATTAGTA
1 TAATTATTA-TA
373213 TAATTATTATA
1 TAATTATTATA
*
373224 TAAATATTA-A
1 TAATTATTATA
*
373234 TCAA--ATTATT
1 T-AATTATTATA
*
373244 TAA-TAATATA
1 TAATTATTATA
*
373254 TAGTTATTATA
1 TAATTATTATA
373265 TA
1 TA
373267 TTTTAATTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
9 6 0.12
10 9 0.18
11 27 0.53
12 9 0.18
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (11 bp):
TAATTATTATA
Found at i:373923 original size:32 final size:33
Alignment explanation
Indices: 373882--373956 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 33
373872 TAAAAGGTTT
*
373882 AATAGTATTTATA-TA-TTATATTATAATAATTTA
1 AATA-TATTTATACTAGTTATATT-TAATAATATA
* *
373915 AATATATTTTTACTAGTTATATTTAATACTATA
1 AATATATTTATACTAGTTATATTTAATAATATA
373948 ATATATATT
1 A-ATATATT
373957 AATTTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 7 0.19
33 15 0.42
34 14 0.39
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (33 bp):
AATATATTTATACTAGTTATATTTAATAATATA
Found at i:374165 original size:22 final size:22
Alignment explanation
Indices: 374122--374167 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
374112 TTTTGAATAA
*
374122 ATTTATACAAACAAAAATAATT
1 ATTTATACAAACAAAAACAATT
*
374144 ATTTATGACAAA-ACAAACAATT
1 ATTTAT-ACAAACAAAAACAATT
374166 AT
1 AT
374168 AACAATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (22 bp):
ATTTATACAAACAAAAACAATT
Found at i:375100 original size:359 final size:361
Alignment explanation
Indices: 374553--375886 Score: 823
Period size: 359 Copynumber: 3.7 Consensus size: 361
374543 TTTGTGAAGT
* * * * *
374553 AAAACAATTGTTTTATGACAAAACAAAAATTTACAATGATTTTAAATAGATAATTGTTTAAATAG
1 AAAACAATTGTTTTATGACAAAACAAAAATTCACAATAATTTGAAATAGATAATTATTCAAATAG
* * *
374618 TTATAACTATTTAAACTTGTTCAGTAAACAAATTTAGTTTTTCAAATATCTTGCTTATTAATCTT
66 TCATAACTATTTAAACTTGTTCAGAAAACAAATTTAGTTTTTCAAATATCTTGCTTAATAATCTT
* * *
374683 TCAAAAGTTAATAAATTAATATTATTTTCTTTCGAATAAGCTTGTATGAACTGAAACAATTATTT
131 TCAAAAGTTAATAAAGTAATACTATTTTCTTTAGAATAAGCTTGTATGAACTGAAACAATTATTT
* * * * *
374748 TATGATTAAACAAAAGGTCAGAACAATTTGAAATAGATAATTATTCT-AATAATCTTAACTATTT
196 TATAATAAAACAAAAGGTCAAAACAATTTGAAACAGATAATTATT-TAAATAATCATAACTATTT
*
374812 G-AACTGATT-GGCAAACACATTTA-TTTTTTAAATATCTTACTTATTAA-TTTTTAAAT-TATT
260 GAAACTGATTAGG-AAACACATTTATTTTTTTAAATATCTTAC-T-TTAATTTTTTAAATGT-TG
* *
374872 ATTAAATTAGTATTAT-TTTTATCTGAATAAGCTTATATGATA
321 A-TAAATTAGTATTATGTTAT-TCTAAATAAGCTTATATGATA
* * * *
374914 AAAACAATTGTTTTATGACAAAACAAAGA-TCATAATAATTTGAGATTA-ATATTTATTCAAATA
1 AAAACAATTGTTTTATGACAAAACAAAAATTCACAATAATTTGA-AATAGATAATTATTCAAATA
** * *
374977 GTCATAACTA-TTAGAAC-TGTTTTGAAAAACAACTTTAGTTTTT-AAATCTCTTGCTTAATAAT
65 GTCATAACTATTTA-AACTTGTTCAG-AAAACAAATTTAGTTTTTCAAATATCTTGCTTAATAAT
* * * * * * *
375039 TTTTGAAATA-TTAATAAAGTAGTACTATTTTATTTTAG-ATAAGTTTTTATTAACTGAAACAAT
128 CTTTCAAA-AGTTAATAAAGTAATACTATTTT-CTTTAGAATAAGCTTGTATGAACTGAAACAAT
* * * * * * *
375102 TGTTTTATAATAAAACAAAATGTCAAAATAATTTTAAACAGATAATTGTTTAAATAGTCATATCT
191 TATTTTATAATAAAACAAAAGGTCAAAACAATTTGAAACAGATAATTATTTAAATAATCATAACT
* * * * * *
375167 ATTTGAAATTGTTTAGGAAACATATTTATTTTTTTAAATCTCTTGCTTTAATTTTTTGAATGTTG
256 ATTTGAAACTGATTAGGAAACACATTTATTTTTTTAAATATCTTACTTTAATTTTTTAAATGTTG
*
375232 ATAAATTAGTATTATGTTATTCTAAATAAGCTTGTATGA-A
321 ATAAATTAGTATTATGTTATTCTAAATAAGCTTATATGATA
* ** * * * * **
375272 CTGAATTAATTGTTTTATGACTAAACCAAAGGA-T-AGAATGATTTGAAATAGATAATTATTCTG
1 --AAAACAATTGTTTTATGAC-AAAACAAA-AATTCACAATAATTTGAAATAGATAATTATTCAA
* * * * ** * * *
375335 ATAGTCTTAACTATTTGAACTAGTTCGGCTAACATATTTA-TTTTT-TAA-ATC-T-CTTATTAA
62 ATAGTCATAACTATTTAAACTTGTTCAGAAAACAAATTTAGTTTTTCAAATATCTTGCTTAATAA
* * * * * ** ** * **
375395 TTTTTGAAATA-TTATTAAATTAGTA-TCATTTTAATCCGAATACGCTTGTATGAAAAGAAACAA
127 TCTTTCAAA-AGTTAATAAAGTAATACT-ATTTTCTTTAGAATAAGCTTGTATGAACTGAAACAA
* * * * * * * ** ** * * * * *
375458 TTGTTGTATGACAAAA-TAAAGATTATTATGATTTGAGATAAATAATTGTTTAAATAGTCATAAC
190 TTATTTTATAATAAAACAAAAGGTCAAAACAATTTGAAACAGATAATTATTTAAATAATCATAAC
* * * * * * * * *
375522 TATTTG-AATTGGTTTAGTAAATAGATTTA-GTTTTTAAATCTCTTA--TTAATTTTTAAAATAT
255 TATTTGAAACT-GATTAGGAAACACATTTATTTTTTTAAATATCTTACTTTAATTTTTTAAATGT
* * ** * * * * *
375583 TAATAAATCAAAATTATTTTATTTTGAATAA-TTCTGTATGA-A
319 TGATAAATTAGTATTATGTTATTCTAAATAAGCT-TATATGATA
* * * * *
375625 CAGAAACAATTGTTTTATGATAAAAC-AAAATGTCATAAAAATTTGAAATAGCTAATTATTCTAA
1 -A-AAACAATTGTTTTATGACAAAACAAAAAT-TCACAATAATTTGAAATAGATAATTATTCAAA
* * * * * * * * * * * *
375689 TAGACATGACTATTTGAACTTATTC-GATAAATAGATTTA-TTTTTTAAATCTCCTACCTATTAA
63 TAGTCATAACTATTTAAACTTGTTCAGA-AAACAAATTTAGTTTTTCAAATATCTTGCTTAATAA
* * * * * * * * *
375752 T-TTGCAAAATATTAATAAAGTAGTATTATTTTATTTTGAATAAACTTGTCT-AAATAGAAACAA
127 TCTTTCAAAA-GTTAATAAAGTAATACTATTTTCTTTAGAATAAGCTTGTATGAACT-GAAACAA
* * * * * * * * * * * * *
375815 TTGTTTTATAACAAAACAAAAGATCATAACTATTAGAAATAAAAAATTGTTCAAACAATTATAAC
190 TTATTTTATAATAAAACAAAAGGTCAAAACAATTTGAAACAGATAATTATTTAAATAATCATAAC
375880 TATTTGA
255 TATTTGA
375887 GCTTAATAAT
Statistics
Matches: 773, Mismatches: 162, Indels: 78
0.76 0.16 0.08
Matches are distributed among these distances:
350 1 0.00
351 2 0.00
352 7 0.01
353 118 0.15
354 2 0.00
355 21 0.03
356 69 0.09
357 125 0.16
358 46 0.06
359 164 0.21
360 111 0.14
361 98 0.13
362 9 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (361 bp):
AAAACAATTGTTTTATGACAAAACAAAAATTCACAATAATTTGAAATAGATAATTATTCAAATAG
TCATAACTATTTAAACTTGTTCAGAAAACAAATTTAGTTTTTCAAATATCTTGCTTAATAATCTT
TCAAAAGTTAATAAAGTAATACTATTTTCTTTAGAATAAGCTTGTATGAACTGAAACAATTATTT
TATAATAAAACAAAAGGTCAAAACAATTTGAAACAGATAATTATTTAAATAATCATAACTATTTG
AAACTGATTAGGAAACACATTTATTTTTTTAAATATCTTACTTTAATTTTTTAAATGTTGATAAA
TTAGTATTATGTTATTCTAAATAAGCTTATATGATA
Found at i:375884 original size:181 final size:179
Alignment explanation
Indices: 374379--375891 Score: 1023
Period size: 180 Copynumber: 8.5 Consensus size: 179
374369 GTATGTTGAA
** * * * * ** * *
374379 AAACAATTGTTTTATGACAAAATGAAAGGTAATAACGACTCAAAATAGATAATTGTTCAAATGGT
1 AAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATAGT
* * * * * * *
374444 CATAATTATTTAAACTAAGTCAGTAAACTTATTTATTTTTTAAA--T-CTC---TTAATTTTCAA
66 CATAACTATTTGAACTTATTGA-TAAAC-AATTTATTTTTTAAATCTCCTCTTATTAATTTTTAA
* * ** * * * *
374503 AATATTAAGAAAAGTAGTATTATTTTATTTTGGTTAAACTTTTGTGAAGTA-
129 AATATTAA-TAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAATAG
* * * * *
374554 AAACAATTGTTTTATGACAAAACAAAA-ATTTACAATGATTTTAAATAGATAATTGTTTAAATAG
1 AAACAATTGTTTTATGACAAAACAAAAGA-TCATAATGATTTGAAATAGATAATTATTCAAATAG
* * * * * * *
374618 TTATAACTATTTAAACTTGTTCAGTAAACAAATTTAGTTTTTCAAATATCTTGCTTATTAATCTT
65 TCATAACTATTTGAACTTATTGA-TAAAC-AATTTA-TTTTTTAAATCTCCT-CTTATTAAT-TT
* * * * * *
374683 TCAAAA-GTTAATAAATTAATATTATTTTCTTTCGAATAAGCTTGTATGAACT-G
125 TTAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAATAG
* ** * * ** * *
374736 AAACAATTATTTTATGATTAAACAAAAGGTCAGAACAATTTGAAATAGATAATTATTCTAATAAT
1 AAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATAGT
* * ** * *
374801 CTTAACTATTTGAACTGATTGGCAAACACATTTATTTTTTAAATATCTTACTTATTAATTTTTAA
66 CATAACTATTTGAACTTATTGATAAACA-ATTTATTTTTTAAATCTCCT-CTTATTAATTTTTAA
* * * * *
374866 ATTATTATTAAATTAGTATTATTTT-TATCTGAATAAGCTTATATG--ATAA
129 AATATTAATAAATTAGTATTATTTTAT-TTTGAATAAGCTTGTATGAAATAG
* * *
374915 AAACAATTGTTTTATGACAAAAC-AAAGATCATAATAATTTGAGATTA-ATATTTATTCAAATAG
1 AAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGA-AATAGATAATTATTCAAATAG
* * * * * *
374978 TCATAACTATTAGAACTGTTTTGAAAAACAACTTTAGTTTTTAAATCTCTTGCTTAATAATTTTT
65 TCATAACTATTTGAACT-TATTGATAAACAA-TTTATTTTTTAAATCTCCT-CTTATTAATTTTT
* * * * * * *
375043 GAAATATTAATAAAGTAGTACTATTTTATTTT-AGATAAGTTTTTATTAACT-G
127 AAAATATTAATAAATTAGTATTATTTTATTTTGA-ATAAGCTTGTATGAAATAG
* * * * * * * *
375095 AAACAATTGTTTTATAATAAAACAAAATG-TCAAAATAATTTTAAACAGATAATTGTTTAAATAG
1 AAACAATTGTTTTATGACAAAACAAAA-GATCATAATGATTTGAAATAGATAATTATTCAAATAG
* * * * * *
375159 TCATATCTATTTGAAATTGTTTAGGAAACATATTTATTTTTTTAAATCTCTTGC-T-TTAATTTT
65 TCATAACTATTTGAACTTATTGA-TAAACA-ATTTA-TTTTTTAAATCTCCT-CTTATTAATTTT
** * * * * * *
375222 TTGAATGTTGATAAATTAGTATTATGTTATTCTAAATAAGCTTGTATGAACT-G
126 TAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAATAG
** * * * **
375275 AATTAATTGTTTTATGACTAAACCAAAGGAT-AGAATGATTTGAAATAGATAATTATTCTGATAG
1 AAACAATTGTTTTATGAC-AAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATAG
* *
375339 TCTTAACTATTTGAAC-TAGTTCGGCT-AACATATTTATTTTTTAAA--T-CTCTTATTAATTTT
65 TCATAACTATTTGAACTTA-TT--GATAAACA-ATTTATTTTTTAAATCTCCTCTTATTAATTTT
* * * * ** *
375399 TGAAATATTATTAAATTAGTATCATTTTAATCCGAATACGCTTGTATGAAA-AG
126 TAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAATAG
* * * * * * * *
375452 AAACAATTGTTGTATGACAAAA-TAAAGATTATTATGATTTGAGATAAATAATTGTTTAAATAGT
1 AAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATAGT
* * * *
375516 CATAACTATTTGAA-TTGGTTTAGTAAATAGATTTAGTTTTTAAA--T-CTCTTATTAATTTTTA
66 CATAACTATTTGAACTT-ATTGA-TAAACA-ATTTATTTTTTAAATCTCCTCTTATTAATTTTTA
* ** * *
375577 AAATATTAATAAATCAAAATTATTTTATTTTGAATAA-TTCTGTATG-AACAG
128 AAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCT-TGTATGAAATAG
* ** * *
375628 AAACAATTGTTTTATGATAAAACAAAATG-TCATAAAAATTTGAAATAGCTAATTATTCTAATAG
1 AAACAATTGTTTTATGACAAAACAAAA-GATCATAATGATTTGAAATAGATAATTATTCAAATAG
* * * * **
375692 ACATGACTATTTGAACTTATTCGATAAATAGATTTATTTTTTAAATCTCCTACCTATTAATTTGC
65 TCATAACTATTTGAACTTATT-GATAAACA-ATTTATTTTTTAAATCTCCT-CTTATTAATTTTT
* * *
375757 AAAATATTAATAAAGTAGTATTATTTTATTTTGAATAAACTTGTCT-AAATAG
127 AAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAATAG
* * * * * * *
375809 AAACAATTGTTTTATAACAAAACAAAAGATCATAACT-ATTAGAAATAAAAAATTGTTCAAACAA
1 AAACAATTGTTTTATGACAAAACAAAAGATCATAA-TGATTTGAAATAGATAATTATTCAAATAG
* *
375873 TTATAACTATTTGAGCTTA
65 TCATAACTATTTGAACTTA
375892 ATAATAATTA
Statistics
Matches: 1048, Mismatches: 233, Indels: 108
0.75 0.17 0.08
Matches are distributed among these distances:
175 91 0.09
176 143 0.14
177 127 0.12
178 52 0.05
179 113 0.11
180 202 0.19
181 188 0.18
182 115 0.11
183 9 0.01
184 8 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (179 bp):
AAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCAAATAGT
CATAACTATTTGAACTTATTGATAAACAATTTATTTTTTAAATCTCCTCTTATTAATTTTTAAAA
TATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAATAG
Found at i:375928 original size:13 final size:13
Alignment explanation
Indices: 375889--375945 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 13
375879 CTATTTGAGC
375889 TTAATAATAATTA
1 TTAATAATAATTA
*
375902 --AATAATCA--A
1 TTAATAATAATTA
*
375911 TTAATAATGATTA
1 TTAATAATAATTA
*
375924 TTAATATTAATTA
1 TTAATAATAATTA
375937 TCTAATAAT
1 T-TAATAAT
375946 CAATATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
9 1 0.03
11 14 0.41
13 13 0.38
14 6 0.18
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (13 bp):
TTAATAATAATTA
Found at i:375952 original size:21 final size:21
Alignment explanation
Indices: 375926--375965 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
375916 AATGATTATT
*
375926 AATATTAATTATCTAATAATC
1 AATATTAATTATATAATAATC
*
375947 AATATTTATTATATAATAA
1 AATATTAATTATATAATAA
375966 AACAATAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTAATTATATAATAATC
Found at i:376395 original size:27 final size:28
Alignment explanation
Indices: 376346--376398 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
376336 CTTTAAATAA
**
376346 AAAATTGTTCAAATAGTCAAATTTATTT
1 AAAATTGTTCAAATAAACAAATTTATTT
376374 AAAATTGTTC-AATAAACAAATTTAT
1 AAAATTGTTCAAATAAACAAATTTAT
376399 ATTTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.40
Consensus pattern (28 bp):
AAAATTGTTCAAATAAACAAATTTATTT
Found at i:376455 original size:181 final size:177
Alignment explanation
Indices: 376120--377254 Score: 733
Period size: 181 Copynumber: 6.3 Consensus size: 177
376110 TTAAATTATT
* * * * * * *
376120 AATAATTGTTTTATGA-GAAAACAAAGATCATAAACT-ATTTAAGATTGATATTTGTTTAAATGG
1 AATAATTG-TTTATGACAAAAAAAAAG-TCAT-AA-TGATTTAAAATAGATAATTGTTCAAATAG
* * * * * *
376183 TCATAACTATTT-GAATTGGTTTGA-AAACA-ACTTTAGTTTTTAAATATCTTGCTTATTAATTT
62 TCATAATTATTTAAAATT-GTTCGATAAACATA-TTTATTTTTTAAATCTCTTACTTATTAATTT
* * * * *
376245 TTGAAATATTAGTAAAATAGTATTATTTTATTTCGTATAAGTTTTTATGAACTGA
125 TTCAAATATTAATAAATTAGTATTATTTTATTTCG-ATAAGCTTGTATGAA-TGA
* * *
376300 AATAATTGTTTATTACAAAATAAAAAGTCATAATGACTTT-AAATAAAAAATTGTTCAAATAGTC
1 AATAATTGTTTATGACAAAA-AAAAAGTCATAATGA-TTTAAAATAGATAATTGTTCAAATAGTC
* * * *
376364 A-AATTTATTTAAAATTGTTCAATAAACAAATTTATATTTTTAAATCTCGTACTCATTAATTTTT
64 ATAA-TTATTTAAAATTGTTCGATAAACATATTTAT-TTTTTAAATCTCTTACTTATTAATTTTT
* ** *
376428 CAAATGTTAATAAATTAGTATTATTTTATTTTAAATAAGCTTATATGAACTGA
127 CAAATATTAATAAATTAGTATTATTTTA-TTTCGATAAGCTTGTATGAA-TGA
* * * * * * * *
376481 AATAATTATTTTATGACTAAACAAAGGTTAGAATGATTTAAAATAGATAATTGTTCTAATAGTCT
1 AATAATT-GTTTATGACAAAAAAAAAGTCATAATGATTTAAAATAGATAATTGTTCAAATAGTCA
* * * * * * *
376546 TAATTGTTTGAACTGGTTTGACAAACATATTTATTTTTTTAAATCTCTTACTTATTAATTTTTGA
65 TAATTATTTAAAATTGTTCGATAAACATATTTA-TTTTTTAAATCTCTTACTTATTAATTTTTCA
* * * * *
376611 AATATTATTAAATTAGTATTATTTTAATCCAGATAAGCATGTATGGAAAGA
129 AATATTAATAAATTAGTATTATTTTATTTC-GATAAGCTTGTAT-GAATGA
* * * *
376662 AACAATTGTTTTATGAC-AAAATAAAGATCAAAATGATTTAAGATAGATAATTGTTCAAATAGTC
1 AATAATTG-TTTATGACAAAAAAAAAG-TCATAATGATTTAAAATAGATAATTGTTCAAATAGTC
* * * * *
376726 ATAACTATTTGAACTATT-TTCG-TAAATAGATTTAGTTTTTAAA--TCTT--TTATTAA-TTTT
64 ATAATTATTT-AA-AATTGTTCGATAAACATATTTATTTTTTAAATCTCTTACTTATTAATTTTT
* * * ** *
376784 CAAAATATTAATAGATCAGTATTATTTTATTTTGCCAA--TT-T-TGCATGA
127 C-AAATATTAATAAATTAGTATTATTTTATTTCGATAAGCTTGTATGAATGA
* * * * * * * *
376832 ACA-GATTGTTTTCTAACTAAACAAAAGATCATAATGATTTCAAATAGATAATTGTTCAAATGGA
1 A-ATAATTG-TTTATGACAAAAAAAAAG-TCATAATGATTTAAAATAGATAATTGTTCAAATAGT
* * * *
376896 CATGATTATTTGAACTTGTTCGATAAACATATTTATTTTTTAAATCTCCTACCTT-TTAA-TTTT
63 CATAATTATTTAAAATTGTTCGATAAACATATTTATTTTTTAAATCTCTTA-CTTATTAATTTTT
* * *
376959 CAAAATATTAATAAATTAGTATTATTTTATTCCAAATAAACTTGTATGAATTGA
127 C-AAATATTAATAAATTAGTATTATTTTATTTC-GATAAGCTTGTATGAA-TGA
* * * * * *
377013 AATAATTGTTTTATGATAAAACAAAATA-TCATAACT-ATTTGAAATAAATAATTATTCAAACAA
1 AATAATTG-TTTATGACAAAA-AAAA-AGTCATAA-TGATTTAAAATAGATAATTGTTCAAATAG
* * * * * * * * *
377076 TCATAACTATTTGAACTTGCAT-GGTAAACAAATTTATTTTTTTAACTCTTTTACTTATCAATTT
62 TCATAATTATTTAAAATTG-TTCGATAAACATATTTA-TTTTTTAAATCTCTTACTTATTAATTT
* * * * *
377140 TT-AGAATATTAATAAACTAGTACTATTTTATTTCAAATATGATTGTATGAATAGA
125 TTCA-AATATTAATAAATTAGTATTATTTTATTTC-GATAAGCTTGTATGAAT-GA
* * * * * * *
377195 AACATTTGGTTTATAATGAAACAAAAGGTCATAACT-ATTCGAAAA-AGATAATTGTTCAAA
1 AATAATT-GTTTATGA-CAAAAAAAAAGTCATAA-TGATT-TAAAATAGATAATTGTTCAAA
377255 AAACAAATTT
Statistics
Matches: 749, Mismatches: 156, Indels: 98
0.75 0.16 0.10
Matches are distributed among these distances:
169 2 0.00
170 21 0.03
171 68 0.09
172 1 0.00
173 4 0.01
175 44 0.06
176 36 0.05
178 9 0.01
179 37 0.05
180 53 0.07
181 335 0.45
182 126 0.17
183 13 0.02
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (177 bp):
AATAATTGTTTATGACAAAAAAAAAGTCATAATGATTTAAAATAGATAATTGTTCAAATAGTCAT
AATTATTTAAAATTGTTCGATAAACATATTTATTTTTTAAATCTCTTACTTATTAATTTTTCAAA
TATTAATAAATTAGTATTATTTTATTTCGATAAGCTTGTATGAATGA
Found at i:376630 original size:362 final size:351
Alignment explanation
Indices: 376156--377178 Score: 955
Period size: 352 Copynumber: 2.9 Consensus size: 351
376146 ATCATAAACT
* * * * * * * * *
376156 ATTTAAGATTGATATTTGTTTAAATGGTCATAACTATTTGAATTGGTTTGAAAACA-ACTTTAGT
1 ATTTAAAATAGATAATTGTTCAAATAGACATAATTATTTGAACTGGTTTGAAAACATA-TTTATT
* * * * *
376220 TTTTAAATATCTTGCTTATTAATTTTTGAAATATTAGTAAAATAGTATTATTTTATTTCGTATAA
65 TTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCG-ATAA
* * * *
376285 GTTTTTATGAACTGAAATAATTG-TTTATTACAAAATAAAAAGTCATAATGACTTTAAATAAAAA
129 GCTTGTATGAA-TGAAATAATTGTTTTATGACAAAATAAAAA-TCATAATGA-TTTAAATAAATA
* *
376349 ATTGTTCAAATAGTCA-AATTTATTTAAAATTGTTCAATAAACAAATTTATATTTTTAAATCTCG
191 ATTGTTCAAATAGTCATAA-CTATTTAAAATTGTTCAGTAAACAAATTTATATTTTTAAATCT--
* *
376413 TACTCATTAATTTTTCAAATGTTAATAAATTAGTATTATTTTATTTTAAATAAGCTTATATGAAC
253 TACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTTAAATAA--TT-T-TGAA-
* * *
376478 TGAA-ATAATTATTTTATGACTAAAC-AAAGGTTAGAATG
313 TGAACA-AATTATTTTATAACTAAACAAAAGATCAGAATG
* * * *
376516 ATTTAAAATAGATAATTGTTCTAATAGTCTTAATTGTTTGAACTGGTTTGACAAACATATTTATT
1 ATTTAAAATAGATAATTGTTCAAATAGACATAATTATTTGAACTGGTTTGA-AAACATATTTA-T
* *
376581 TTTTTAAATCTCTTACTTATTAATTTTTGAAATATTATTAAATTAGTATTATTTTAATCCAGATA
64 TTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCC-GATA
* * * * * *
376646 AGCATGTATGGAAAGAAACAATTGTTTTATGACAAAATAAAGATCAAAATGATTTAAGATAGATA
128 AGCTTGTAT-GAATGAAATAATTGTTTTATGACAAAATAAAAATCATAATGATTTAA-ATAAATA
* * * *
376711 ATTGTTCAAATAGTCATAACTATTTGAACTATT-TTC-GTAAATAGATTTA-GTTTTTAAATCTT
191 ATTGTTCAAATAGTCATAACTATTT-AA-AATTGTTCAGTAAACAAATTTATATTTTTAAATCTT
* * *** *
376773 --TTATTAA-TTTTCAAAATATTAATAGATCAGTATTATTTTATTTT-GCCAATTTTGCATGAAC
254 ACTTATTAATTTTTC-AAATATTAATAAATTAGTATTATTTTATTTTAAATAATTTTGAATGAAC
* * * *
376834 AGATTGTTTTCTAACTAAACAAAAGATCATAATG
318 AAATTATTTTATAACTAAACAAAAGATCAGAATG
* * * * *
376868 ATTTCAAATAGATAATTGTTCAAATGGACATGATTATTTGAACTTGTTCGATAAACATATTTATT
1 ATTTAAAATAGATAATTGTTCAAATAGACATAATTATTTGAACTGGTTTGA-AAACATATTTATT
* ** *
376933 TTTTAAATCTCCTACCTT-TTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTCCAAATA
65 TTTTAAATCTCTTA-CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCC-GATA
* * *
376997 AACTTGTATGAATTGAAATAATTGTTTTATGATAAAACAAAATATCATAACT-ATTTGAAATAAA
128 AGCTTGTATGAA-TGAAATAATTGTTTTATGACAAAATAAAA-ATCATAA-TGATTT-AAATAAA
* * * * * * *
377061 TAATTATTCAAACAATCATAACTATTTGAACTTG--CATGGTAAACAAATTTATTTTTTTAACTC
189 TAATTGTTCAAATAGTCATAACTATTTAAAATTGTTCA--GTAAACAAATTTATATTTTTAAATC
* * * *
377124 TTTTACTTATCAATTTTT-AGAATATTAATAAACTAGTACTATTTTATTTCAAATA
252 --TTACTTATTAATTTTTCA-AATATTAATAAATTAGTATTATTTTATTTTAAATA
377179 TGATTGTATG
Statistics
Matches: 541, Mismatches: 92, Indels: 62
0.78 0.13 0.09
Matches are distributed among these distances:
349 1 0.00
350 5 0.01
351 107 0.20
352 119 0.22
353 13 0.02
354 2 0.00
355 2 0.00
356 8 0.01
357 65 0.12
358 5 0.01
359 1 0.00
360 41 0.08
361 25 0.05
362 117 0.22
363 27 0.05
364 3 0.01
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (351 bp):
ATTTAAAATAGATAATTGTTCAAATAGACATAATTATTTGAACTGGTTTGAAAACATATTTATTT
TTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCGATAAGC
TTGTATGAATGAAATAATTGTTTTATGACAAAATAAAAATCATAATGATTTAAATAAATAATTGT
TCAAATAGTCATAACTATTTAAAATTGTTCAGTAAACAAATTTATATTTTTAAATCTTACTTATT
AATTTTTCAAATATTAATAAATTAGTATTATTTTATTTTAAATAATTTTGAATGAACAAATTATT
TTATAACTAAACAAAAGATCAGAATG
Done.