Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 306 of 349
Found at i:102301850 original size:12 final size:12
Alignment explanation
Indices: 102301833--102301862 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
102301823 TATGCAATGA
*
102301833 ATGAATTGATGC
1 ATGAATAGATGC
102301845 ATGAATAGATGC
1 ATGAATAGATGC
102301857 ATGAAT
1 ATGAAT
102301863 GTCAAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (12 bp):
ATGAATAGATGC
Found at i:102304003 original size:18 final size:19
Alignment explanation
Indices: 102303980--102304022 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
102303970 ACATATATGT
102303980 ATAATAAT-GATGAAAAT-A
1 ATAATAATAG-TGAAAATAA
102303998 ATAATAATAGTGAAAATAA
1 ATAATAATAGTGAAAATAA
102304017 ATAATA
1 ATAATA
102304023 TAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATAATAATAGTGAAAATAA
Found at i:102304030 original size:15 final size:17
Alignment explanation
Indices: 102303994--102304034 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
102303984 TAATGATGAA
102303994 AATAAT-AATAATAGTG
1 AATAATAAATAATAGTG
102304010 AA-AATAAATAATA-T-
1 AATAATAAATAATAGTG
102304024 AATAATAAATA
1 AATAATAAATA
102304035 TAATAGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAATAAATAATAGTG
Found at i:102304535 original size:20 final size:20
Alignment explanation
Indices: 102304495--102304545 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
102304485 ACAGGAGAAA
*
102304495 GAAAAAAAAGA-AGAGGAGG
1 GAAAGAAAAGAGAGAGGAGG
*
102304514 GAGAGAAAAGAGAGAGCG-GG
1 GAAAGAAAAGAGAGAG-GAGG
*
102304534 GAAAGAAGAGAG
1 GAAAGAAAAGAG
102304546 GGGAAGGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 9 0.35
20 16 0.62
21 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.43, T:0.00
Consensus pattern (20 bp):
GAAAGAAAAGAGAGAGGAGG
Found at i:102304542 original size:18 final size:17
Alignment explanation
Indices: 102304501--102304549 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
102304491 GAAAGAAAAA
102304501 AAAGAAGAG-GAGGGAG
1 AAAGAAGAGAGAGGGAG
*
102304517 AGAA-AAGAGAGAGCGGGG
1 A-AAGAAGAGAGAG-GGAG
102304535 AAAGAAGAGAG-GGGA
1 AAAGAAGAGAGAGGGA
102304550 AGGGGGGAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
16 8 0.30
17 8 0.30
18 11 0.41
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (17 bp):
AAAGAAGAGAGAGGGAG
Found at i:102304634 original size:22 final size:23
Alignment explanation
Indices: 102304607--102304654 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
102304597 ACTCTAATTT
* * *
102304607 TTTTTATTTTTTA-TTTCTTATA
1 TTTTTATATTATATTTTCGTATA
102304629 TTTTTATATTATATTTTCGTATA
1 TTTTTATATTATATTTTCGTATA
102304652 TTT
1 TTT
102304655 GTCGTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTATATTATATTTTCGTATA
Found at i:102305193 original size:16 final size:16
Alignment explanation
Indices: 102305172--102305203 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
102305162 TTTTGTGTAA
*
102305172 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
102305188 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
102305204 GTTATTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:102315816 original size:25 final size:25
Alignment explanation
Indices: 102315778--102315825 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
102315768 TCATATTCAT
102315778 GTATGCTCATACGAGCTATGAATTA
1 GTATGCTCATACGAGCTATGAATTA
*
102315803 GTATGCTC-TCACGAGCTGTGAAT
1 GTATGCTCAT-ACGAGCTATGAAT
102315826 CGGGAAGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATTA
Found at i:102326125 original size:24 final size:24
Alignment explanation
Indices: 102326074--102326125 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
102326064 TAATAATTGA
102326074 AATATTTTATAATTAATTATTTTT
1 AATATTTTATAATTAATTATTTTT
102326098 -ATATTTT-TAATTGTAATT-TTTTT
1 AATATTTTATAA-T-TAATTATTTTT
102326121 AATAT
1 AATAT
102326126 AAAGATTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 3 0.12
23 13 0.52
24 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
AATATTTTATAATTAATTATTTTT
Found at i:102326801 original size:114 final size:114
Alignment explanation
Indices: 102326662--102326877 Score: 353
Period size: 114 Copynumber: 1.9 Consensus size: 114
102326652 TTTAACAAGC
* *
102326662 CTTCAATTTTAGAAGTTTTTGTCTGCTCTTGTGATATGTTTTTTAGTCTTATTTATGCATGTAGT
1 CTTCAATTTTAGAAGTTTTTGTCTGCTCTTGTGACATGTTTTTTAGTCTTACTTATGCATGTAGT
*
102326727 CTTATTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTGTTGTCCATAAGA
66 CTTACTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTGTTGTCCATAAGA
* *
102326776 CTTCACTTTTAGAAG-TTTTGTTCTGCTCTTGTGACATGTTTTTTAGTCTTACTTCTGCATGTAG
1 CTTCAATTTTAGAAGTTTTTG-TCTGCTCTTGTGACATGTTTTTTAGTCTTACTTATGCATGTAG
* *
102326840 TCTTGCTTTTGCAAGTGGTTTTAGAGATGGTTTTGTTG
65 TCTTACTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTG
102326878 CTGCCATCTT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
113 5 0.05
114 89 0.95
ACGTcount: A:0.17, C:0.12, G:0.21, T:0.50
Consensus pattern (114 bp):
CTTCAATTTTAGAAGTTTTTGTCTGCTCTTGTGACATGTTTTTTAGTCTTACTTATGCATGTAGT
CTTACTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTGTTGTCCATAAGA
Found at i:102327412 original size:31 final size:31
Alignment explanation
Indices: 102327377--102327435 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
102327367 AATTTTGATC
102327377 ACTAAACTATTCAAA-AGTTTTCATTTAAATA
1 ACTAAACTATT-AAAGAGTTTTCATTTAAATA
*
102327408 ACTAAACTATTAAAGAGTTTTTATTTAA
1 ACTAAACTATTAAAGAGTTTTCATTTAA
102327436 GTCACTTGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ACTAAACTATTAAAGAGTTTTCATTTAAATA
Found at i:102329157 original size:28 final size:28
Alignment explanation
Indices: 102329125--102329190 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
102329115 AATTTTTAAT
** *
102329125 AATTTTAAATTCTTTTATATCTTTTATA
1 AATTTTAAATGATTTTATATATTTTATA
*
102329153 AATTTTAAATGATTTTGTATATTTTATA
1 AATTTTAAATGATTTTATATATTTTATA
*
102329181 ATTATTTAAA
1 AAT-TTTAAA
102329191 AAATTATTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 26 0.81
29 6 0.19
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
AATTTTAAATGATTTTATATATTTTATA
Found at i:102330272 original size:21 final size:21
Alignment explanation
Indices: 102330247--102330299 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
102330237 AACAGCGGTG
102330247 GCGGTGAGATTGGATACTATA
1 GCGGTGAGATTGGATACTATA
*
102330268 GCGGTGAGATTGGATACTATG
1 GCGGTGAGATTGGATACTATA
*
102330289 GCAGTGAGATT
1 GCGGTGAGATT
102330300 AGAAACAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.36, T:0.28
Consensus pattern (21 bp):
GCGGTGAGATTGGATACTATA
Found at i:102330444 original size:32 final size:30
Alignment explanation
Indices: 102330408--102330470 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 30
102330398 ATGTATTTAG
102330408 TTATATTATTTAATATAAAA-CATAAATTAAAA
1 TTATATT-TTT-ATATAAAATCAT-AATTAAAA
* *
102330440 TTATATTTTTTTATAAAATGATAATTAAAA
1 TTATATTTTTATATAAAATCATAATTAAAA
102330470 T
1 T
102330471 ATTAAAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 16 0.57
31 5 0.18
32 7 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (30 bp):
TTATATTTTTATATAAAATCATAATTAAAA
Found at i:102330562 original size:35 final size:35
Alignment explanation
Indices: 102330496--102330571 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
102330486 AATAAAATTT
*
102330496 AAATATTTTTAAATTATATCCATAATAAAAT-ATCA
1 AAATATTTTCAAATTATATCCATAATAAAATAAT-A
** *
102330531 AAATATTTTACAAATTATATTTA-AATCAAATAATA
1 AAATATTTT-CAAATTATATCCATAATAAAATAATA
102330566 AAATAT
1 AAATAT
102330572 AAATTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (35 bp):
AAATATTTTCAAATTATATCCATAATAAAATAATA
Found at i:102338197 original size:34 final size:34
Alignment explanation
Indices: 102338154--102338222 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
102338144 GGCTATTTTC
102338154 CTCTTTTGGCAACTTATTTTACCTTTGTGACTAA
1 CTCTTTTGGCAACTTATTTTACCTTTGTGACTAA
102338188 CTCTTTTGGCAACTTATTTTACCTTTGTGACTAA
1 CTCTTTTGGCAACTTATTTTACCTTTGTGACTAA
102338222 C
1 C
102338223 ATTTGGCCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.46
Consensus pattern (34 bp):
CTCTTTTGGCAACTTATTTTACCTTTGTGACTAA
Found at i:102346266 original size:20 final size:20
Alignment explanation
Indices: 102346241--102346291 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
102346231 GTATCGATCC
102346241 GGTATCAATACT-TTTCTTAA
1 GGTATCAATA-TATTTCTTAA
*
102346261 GGTATCGATATATTTCTTAA
1 GGTATCAATATATTTCTTAA
* *
102346281 TGTATCGATAT
1 GGTATCAATAT
102346292 TCCTACTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (20 bp):
GGTATCAATATATTTCTTAA
Found at i:102347696 original size:20 final size:19
Alignment explanation
Indices: 102347652--102347706 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
102347642 TCCCCGGCCC
* *
102347652 TTAAAATGTAAAATTATTT
1 TTAAAATTTTAAATTATTT
* *
102347671 TTAAAATTTTTAATTTTTT
1 TTAAAATTTTAAATTATTT
102347690 TTAAAAATTTTAAATTA
1 TT-AAAATTTTAAATTA
102347707 ATAAAAATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAAAATTTTAAATTATTT
Found at i:102353409 original size:40 final size:39
Alignment explanation
Indices: 102353325--102353509 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
102353315 TTGAATAATG
* * * *
102353325 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
102353365 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
102353405 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
102353444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
102353485 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
102353510 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:102353461 original size:79 final size:82
Alignment explanation
Indices: 102353320--102353507 Score: 226
Period size: 79 Copynumber: 2.4 Consensus size: 82
102353310 GTTAATTGAA
* * *
102353320 TAATGTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG
1 TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
102353384 GCATTTGTGCGAGATAC
66 GCATTTGTGCGAGATAC
* * * **
102353401 TAAT-TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAA
1 TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAA
*
102353462 GGCATTTGTGCGAGTTAC
65 GGCATTTGTGCGAGATAC
* *
102353480 T-ATAACCGGGCTATGTCCCGAAGGCATT
1 TAATATCCGGGCTAAGTCCCGAAGGCATT
102353508 TGAACGAGGA
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.61
80 29 0.31
81 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (82 bp):
TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
GCATTTGTGCGAGATAC
Found at i:102353531 original size:79 final size:79
Alignment explanation
Indices: 102353378--102353542 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
102353368 GGACTAAGAT
* ** *
102353378 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
*
102353443 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
102353457 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
* *
102353520 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
102353536 CCGAAGG
1 CCGAAGG
102353543 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:102358817 original size:20 final size:21
Alignment explanation
Indices: 102358770--102358817 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
102358760 CTAAAATTTG
*
102358770 AATTTGATTAAATTGAATGTGA
1 AATTT-ATTAAATTCAATGTGA
* *
102358792 ATTTTATTAAA-TCAATGTTA
1 AATTTATTAAATTCAATGTGA
102358812 AATTTA
1 AATTTA
102358818 CTCGTATAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.55
21 6 0.27
22 4 0.18
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (21 bp):
AATTTATTAAATTCAATGTGA
Found at i:102361178 original size:26 final size:26
Alignment explanation
Indices: 102361142--102361195 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
102361132 CATCACAAGA
102361142 GTAAGATTACTCTCCTTATAGTTTAT
1 GTAAGATTACTCTCCTTATAGTTTAT
102361168 GTAAGATTACTCTCCTTATAGTTTAT
1 GTAAGATTACTCTCCTTATAGTTTAT
102361194 GT
1 GT
102361196 TGATGACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (26 bp):
GTAAGATTACTCTCCTTATAGTTTAT
Found at i:102362209 original size:20 final size:20
Alignment explanation
Indices: 102362184--102362223 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
102362174 ACAACATTGA
*
102362184 ATAGTTAATCTTTAGGGATT
1 ATAGTTAATCTTTAGAGATT
* *
102362204 ATAGTTGATTTTTAGAGATT
1 ATAGTTAATCTTTAGAGATT
102362224 CTAATTAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (20 bp):
ATAGTTAATCTTTAGAGATT
Found at i:102367333 original size:47 final size:47
Alignment explanation
Indices: 102367279--102367372 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
102367269 AAAAAAAGAG
*
102367279 TAAGTATATATTATCCTTGAGAAATAAAATACTAATTACTAATTAAT
1 TAAGTATATATCATCCTTGAGAAATAAAATACTAATTACTAATTAAT
102367326 TAAGTATATATCATCCTTGAGAAATAAAATACTAATTACTAATTAAT
1 TAAGTATATATCATCCTTGAGAAATAAAATACTAATTACTAATTAAT
102367373 CGATTAATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (47 bp):
TAAGTATATATCATCCTTGAGAAATAAAATACTAATTACTAATTAAT
Found at i:102369969 original size:27 final size:27
Alignment explanation
Indices: 102369939--102369994 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
102369929 ATTATGATAG
102369939 TAAATAATAACATGTAATTACCCTTAT
1 TAAATAATAACATGTAATTACCCTTAT
102369966 TAAATAATAACATGTAATTACCCTTAT
1 TAAATAATAACATGTAATTACCCTTAT
102369993 TA
1 TA
102369995 TATATGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.38
Consensus pattern (27 bp):
TAAATAATAACATGTAATTACCCTTAT
Found at i:102380319 original size:22 final size:22
Alignment explanation
Indices: 102380294--102380371 Score: 83
Period size: 22 Copynumber: 3.6 Consensus size: 22
102380284 TTTATAACAC
102380294 TTTCAATTCTCATATCATACTA
1 TTTCAATTCTCATATCATACTA
* *
102380316 TTTCAA-TATCAT-TTATAAC-A
1 TTTCAATTCTCATATCAT-ACTA
*
102380336 CTTTCAATTCTCATATCATACTG
1 -TTTCAATTCTCATATCATACTA
102380359 TTTCAATT-TCATA
1 TTTCAATTCTCATA
102380372 ATTTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
20 4 0.09
21 18 0.39
22 21 0.46
23 3 0.07
ACGTcount: A:0.32, C:0.21, G:0.01, T:0.46
Consensus pattern (22 bp):
TTTCAATTCTCATATCATACTA
Found at i:102380328 original size:43 final size:43
Alignment explanation
Indices: 102380280--102380370 Score: 164
Period size: 43 Copynumber: 2.1 Consensus size: 43
102380270 TCATAAATGC
102380280 ATCATTTATAACACTTTCAATTCTCATATCATACTATTTCAAT
1 ATCATTTATAACACTTTCAATTCTCATATCATACTATTTCAAT
*
102380323 ATCATTTATAACACTTTCAATTCTCATATCATACTGTTTCAAT
1 ATCATTTATAACACTTTCAATTCTCATATCATACTATTTCAAT
*
102380366 TTCAT
1 ATCAT
102380371 AATTTCTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.45
Consensus pattern (43 bp):
ATCATTTATAACACTTTCAATTCTCATATCATACTATTTCAAT
Found at i:102380340 original size:21 final size:21
Alignment explanation
Indices: 102380280--102380343 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
102380270 TCATAAATGC
102380280 ATCATTTATAACACTTTCAATT
1 ATCATTTATAACACTTTCAA-T
* *
102380302 CTCATATCAT-ACTA-TTTCAAT
1 ATCAT-TTATAAC-ACTTTCAAT
102380323 ATCATTTATAACACTTTCAAT
1 ATCATTTATAACACTTTCAAT
102380344 TCTCATATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.12
21 14 0.41
22 12 0.35
23 4 0.12
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (21 bp):
ATCATTTATAACACTTTCAAT
Found at i:102381706 original size:17 final size:18
Alignment explanation
Indices: 102381670--102381708 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
102381660 TGGCTATTCA
*
102381670 GTTTCTTTTCATTCTTTT
1 GTTTCCTTTCATTCTTTT
*
102381688 GTTTCCTTT-ATTTTTTT
1 GTTTCCTTTCATTCTTTT
102381705 GTTT
1 GTTT
102381709 AATTCTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.05, C:0.13, G:0.08, T:0.74
Consensus pattern (18 bp):
GTTTCCTTTCATTCTTTT
Found at i:102381729 original size:8 final size:8
Alignment explanation
Indices: 102381716--102381758 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
102381706 TTTAATTCTA
102381716 ATAATAAT
1 ATAATAAT
102381724 ATAATAAT
1 ATAATAAT
102381732 ATAATAAT
1 ATAATAAT
*
102381740 ATAATATT
1 ATAATAAT
102381748 A-ATATAAT
1 ATA-ATAAT
102381756 ATA
1 ATA
102381759 TTTACTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 1 0.03
8 29 0.94
9 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATAAT
Found at i:102381932 original size:19 final size:21
Alignment explanation
Indices: 102381910--102381951 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
102381900 ATTAAGTATT
*
102381910 TACTTTTATA-ATTATTT-TA
1 TACTTATATACATTATTTGTA
102381929 TACTTATATACATTATTTGTA
1 TACTTATATACATTATTTGTA
102381950 TA
1 TA
102381952 AATATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (21 bp):
TACTTATATACATTATTTGTA
Found at i:102381957 original size:21 final size:19
Alignment explanation
Indices: 102381916--102381958 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
102381906 TATTTACTTT
**
102381916 TATAATTATTTTATACTTA
1 TATAATTATTTTATAAATA
102381935 TATACATTATTTGTATAAATA
1 TATA-ATTATTT-TATAAATA
102381956 TAT
1 TAT
102381959 TTCATTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (19 bp):
TATAATTATTTTATAAATA
Found at i:102389164 original size:6 final size:6
Alignment explanation
Indices: 102389101--102389176 Score: 73
Period size: 6 Copynumber: 12.5 Consensus size: 6
102389091 AATAAAGTTT
* * * *
102389101 AAAATA GAAAA-A CAAAATA AACATA AATATA CAAATA CAAATA AAAATA
1 AAAATA -AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
102389150 AAGATA AAAAGA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
102389177 CAAATTGACT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
6 53 0.91
7 5 0.09
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:102390153 original size:46 final size:46
Alignment explanation
Indices: 102390091--102390455 Score: 570
Period size: 46 Copynumber: 7.9 Consensus size: 46
102390081 TTTGACATGA
* * * * * *
102390091 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * *** *
102390137 TTCCATGGTATCTTTCAACCATAGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
102390183 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
102390229 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
102390275 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
102390321 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
102390367 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
102390413 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
102390456 AAGAGCACAC
Statistics
Matches: 296, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.01
46 292 0.99
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:102400135 original size:52 final size:49
Alignment explanation
Indices: 102399953--102400145 Score: 200
Period size: 47 Copynumber: 4.0 Consensus size: 49
102399943 TGCACATAGT
* ** * *
102399953 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTACACGG-AT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
102400001 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATATGGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
102400048 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
102400095 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACGGAA
102400146 ATTACATTTC
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
46 25 0.20
47 54 0.44
48 11 0.09
49 1 0.01
52 31 0.25
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:102403846 original size:16 final size:18
Alignment explanation
Indices: 102403809--102403848 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
102403799 AATTAGTAAT
102403809 TAAAAATAAAACTAAACA
1 TAAAAATAAAACTAAACA
*
102403827 -AAAAATACAA-TAAA-A
1 TAAAAATAAAACTAAACA
102403842 TAAAAAT
1 TAAAAAT
102403849 GGCTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 1 0.05
16 10 0.50
17 9 0.45
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAACTAAACA
Found at i:102410686 original size:15 final size:16
Alignment explanation
Indices: 102410656--102410688 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102410646 CATGCATATT
102410656 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
*
102410672 TTTTTTAATAT-TTTA
1 TTTTTTAAAATATTTA
102410687 TT
1 TT
102410689 ATGCCCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:102415532 original size:65 final size:67
Alignment explanation
Indices: 102415456--102415625 Score: 254
Period size: 65 Copynumber: 2.5 Consensus size: 67
102415446 AAATTATTAA
* *
102415456 GTAAATATTTATCAAAACAACGTAATTTTACTTTTAACTTTATAGTTTTGAGTTTTAACTTT-T-
1 GTAAATATTTATCAAAATAACGTAATTTTACTTTTAACTTTATAGTTTTGACTTTTAACTTTATA
102415519 AG
66 AG
102415521 GTAAATATTTATCAAAATAACGTAATTTTACTTTTAACTTTATAGTTTTGACTTTTAACTTTAAA
1 GTAAATATTTATCAAAATAACGTAATTTTACTTTTAACTTTATAGTTTTGACTTTTAACTTT--A
102415586 TAAG
64 TAAG
* * *
102415590 GTAAACATTTATTAAAATGACGTAATTTTATCTTTT
1 GTAAATATTTATCAAAATAACGTAATTTTA-CTTTT
102415626 CTTATTTAGA
Statistics
Matches: 95, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
65 60 0.63
68 1 0.01
69 29 0.31
70 5 0.05
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (67 bp):
GTAAATATTTATCAAAATAACGTAATTTTACTTTTAACTTTATAGTTTTGACTTTTAACTTTATA
AG
Found at i:102415782 original size:16 final size:17
Alignment explanation
Indices: 102415761--102415793 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
102415751 CTTGTTAGAG
102415761 CATATAAATTTG-AAAC
1 CATATAAATTTGTAAAC
*
102415777 CATATATATTTGTAAAC
1 CATATAAATTTGTAAAC
102415794 TGTTTAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
CATATAAATTTGTAAAC
Found at i:102419810 original size:3 final size:3
Alignment explanation
Indices: 102419802--102419827 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
102419792 GCTTCGGTTA
102419802 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
102419828 ATTATACTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:102421700 original size:21 final size:21
Alignment explanation
Indices: 102421676--102421725 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
102421666 TTGAATTATA
*
102421676 TATTAATATTTATTTTTATTT
1 TATTAATATTTATTTTAATTT
** *
102421697 TATTTTTAATTATTTTAATTT
1 TATTAATATTTATTTTAATTT
102421718 T-TTAATAT
1 TATTAATAT
102421726 AACTATTTTT
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTAATATTTATTTTAATTT
Found at i:102421747 original size:15 final size:15
Alignment explanation
Indices: 102421682--102421747 Score: 53
Period size: 16 Copynumber: 4.3 Consensus size: 15
102421672 TATATATTAA
*
102421682 TATTTATTT-TTATTT
1 TATTT-TTTATTATAT
* *
102421697 TATTTTTAATTATTT
1 TATTTTTTATTATAT
* *
102421712 TAATTTTTTAATATAAC
1 T-ATTTTTTATTAT-AT
102421729 TATTTTTTATTATAT
1 TATTTTTTATTATAT
102421744 TATT
1 TATT
102421748 AATTTGTGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 2 0.05
15 17 0.41
16 21 0.51
17 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTTATTATAT
Found at i:102421774 original size:35 final size:33
Alignment explanation
Indices: 102421735--102421799 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
102421725 TAACTATTTT
*
102421735 TTATTATATTATTAATTTGTGTA-TTGTTTTAAGAA
1 TTATTATAGTATT-ATTT-T-TATTTGTTTTAAGAA
*
102421770 TTATTTTAGTATTATTTTTATTTGTTTTAA
1 TTATTATAGTATTATTTTTATTTGTTTTAA
102421800 TATTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 2 0.07
33 10 0.37
34 4 0.15
35 11 0.41
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (33 bp):
TTATTATAGTATTATTTTTATTTGTTTTAAGAA
Found at i:102421803 original size:21 final size:20
Alignment explanation
Indices: 102421773--102421820 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
102421763 TTAAGAATTA
* *
102421773 TTTTAGTATTATTTTTATTT
1 TTTTAATATTATTTTTATGT
*
102421793 GTTTTAATATTTGTTTTTATGT
1 -TTTTAATA-TTATTTTTATGT
102421815 TTTTAA
1 TTTTAA
102421821 ATATATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (20 bp):
TTTTAATATTATTTTTATGT
Found at i:102421843 original size:26 final size:24
Alignment explanation
Indices: 102421799--102421847 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
102421789 ATTTGTTTTA
*
102421799 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
102421823 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
102421848 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:102424277 original size:39 final size:40
Alignment explanation
Indices: 102424230--102424363 Score: 148
Period size: 39 Copynumber: 3.4 Consensus size: 40
102424220 CGTTTGAATG
*
102424230 AAAAACGCCACTAAAGAATGAGTATTAGCGGCGC-TTTTC
1 AAAAACGCCACTAAAGAATGAGTATTAGCGGCGCTTTTTA
* *
102424269 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTTA
1 AAAAACGCCACTAAAGAATGAGTATTAGCGGCGC-TTTTTA
* * * * *
102424310 AGAAACGCCGCTATAAGTA-CACCT-TTAGCGGCGCTTTTTA
1 AAAAACGCCACTA-AAGAATGA-GTATTAGCGGCGCTTTTTA
102424350 AAAAACGCCACTAA
1 AAAAACGCCACTAA
102424364 TGCTTGATCT
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
39 33 0.41
40 17 0.21
41 27 0.33
42 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAATGAGTATTAGCGGCGCTTTTTA
Found at i:102424376 original size:40 final size:39
Alignment explanation
Indices: 102424254--102424405 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
102424244 AGAATGAGTA
* *
102424254 TTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGATTGAGT-A
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAG-TTGA-TCT
* ** *
102424293 TTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTACACCT
1 TTAGCGGCGC-TTTTTAAAAAACGCCGCTA-AAGTTGATCT
* *
102424334 TTAGCGGCGCTTTTTAAAAAACGCCACTAATGCTTGATCT
1 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAG-TTGATCT
* *
102424374 TTAGTGGCG-TTTTTCAAAAAACGCCGCAAAAG
1 TTAGCGGCGCTTTTT-AAAAAACGCCGCTAAAG
102424406 AATTTGCAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
39 17 0.19
40 43 0.47
41 28 0.31
42 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (39 bp):
TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGTTGATCT
Found at i:102424518 original size:154 final size:154
Alignment explanation
Indices: 102424335--102424672 Score: 534
Period size: 155 Copynumber: 2.2 Consensus size: 154
102424325 AGTACACCTT
*
102424335 TAGCGGCGCTTTTTAAAAAACGCCACTAATGCTTGATCTTTAGTGGCGTTTTTCAAAAAACGCCG
1 TAGCGGCGCTTTTTTAAAAACGCCACTAATGCTTGATCTTTAGTGGCGTTTTTCAAAAAACGCCG
* * * *
102424400 CAAAAGAA-TTTGCAAAATGACGTCGTTTTGTATTGAGCTTTTAGTGTCTTTAGCGGTGCTTTTC
66 CAAAAGAATTTTGCAAAACGACGTCGCTTTGTATTGAGCTTTTAGTGGCTTTAGCGGCGCTTTTC
102424464 AAAAACACCGCTAAAGATCGAGTA
131 AAAAACACCGCTAAAGATCGAGTA
* *
102424488 CTAGCGGTGCTTTTTTAAAAACGCCGCTAATGCTTGATCTTTAGTGGCGTTTTTCAAAAAACGCC
1 -TAGCGGCGCTTTTTTAAAAACGCCACTAATGCTTGATCTTTAGTGGCGTTTTTCAAAAAACGCC
* * *
102424553 GCAAAAGAATTTTTCAAAACGAGGTCGCTTTGTATTGAGCTTTTAGTGGCTTTAGCGGCGTTTTT
65 GCAAAAGAATTTTGCAAAACGACGTCGCTTTGTATTGAGCTTTTAGTGGCTTTAGCGGCGCTTTT
*
102424618 CAAAAACGCCGCTAAAGATCGAGTA
130 CAAAAACACCGCTAAAGATCGAGTA
*
102424643 TAAGCGGCGTTTTTTTAAGAAACGCCACTA
1 T-AGCGGCGCTTTTTTAA-AAACGCCACTA
102424673 TAAGTACACC
Statistics
Matches: 167, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
154 71 0.43
155 86 0.51
156 10 0.06
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (154 bp):
TAGCGGCGCTTTTTTAAAAACGCCACTAATGCTTGATCTTTAGTGGCGTTTTTCAAAAAACGCCG
CAAAAGAATTTTGCAAAACGACGTCGCTTTGTATTGAGCTTTTAGTGGCTTTAGCGGCGCTTTTC
AAAAACACCGCTAAAGATCGAGTA
Found at i:102424890 original size:21 final size:21
Alignment explanation
Indices: 102424866--102424907 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
102424856 AGAGATAGTA
102424866 TTAATTTTAAAATATTGAATT
1 TTAATTTTAAAATATTGAATT
102424887 TTAATTTTAAAATATTGAATT
1 TTAATTTTAAAATATTGAATT
102424908 AATTATCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAATTTTAAAATATTGAATT
Found at i:102424911 original size:19 final size:19
Alignment explanation
Indices: 102424865--102424911 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 19
102424855 AAGAGATAGT
102424865 ATTAATTTTAAAATATTGA
1 ATTAATTTTAAAATATTGA
102424884 ATTTTAATTTTAAAATATTGA
1 A--TTAATTTTAAAATATTGA
102424905 ATTAATT
1 ATTAATT
102424912 ATCACTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.27
21 19 0.73
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
ATTAATTTTAAAATATTGA
Found at i:102425027 original size:21 final size:21
Alignment explanation
Indices: 102425002--102425054 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
102424992 GTTTAAAGGT
102425002 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGG-TTAA
*
102425023 GGTTT-AGGTGTTAGGGGTTAG
1 GGTTTAAGG-GTTAGGGGTTAA
*
102425044 GGGTTAAGGGT
1 GGTTTAAGGGT
102425055 GATGGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
21 17 0.63
22 7 0.26
ACGTcount: A:0.17, C:0.00, G:0.47, T:0.36
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGGGTTAA
Found at i:102425232 original size:7 final size:7
Alignment explanation
Indices: 102425220--102425245 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
102425210 TATCATTGTA
102425220 GTTTAGG
1 GTTTAGG
102425227 GTTTAGG
1 GTTTAGG
102425234 GTTTAGG
1 GTTTAGG
102425241 GTTTA
1 GTTTA
102425246 AAGTGTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:102425287 original size:15 final size:15
Alignment explanation
Indices: 102425269--102425298 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102425259 ATTATTTTAA
*
102425269 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
102425284 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
102425299 ATTTATAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:102425584 original size:7 final size:7
Alignment explanation
Indices: 102425574--102425608 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
102425564 GTATTTATTT
102425574 TTTAAAA
1 TTTAAAA
102425581 TTTAAAA
1 TTTAAAA
102425588 TTTAAAA
1 TTTAAAA
102425595 TTTAAAA
1 TTTAAAA
102425602 TTTAAAA
1 TTTAAAA
102425609 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TTTAAAA
Found at i:102425615 original size:14 final size:14
Alignment explanation
Indices: 102425574--102425639 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
102425564 GTATTTATTT
* *
102425574 TTTAAAATTTAAAA
1 TTTAAAAATAAAAA
* *
102425588 TTTAAAATTTAAAA
1 TTTAAAAATAAAAA
102425602 TTTAAAAATAAAAA
1 TTTAAAAATAAAAA
*
102425616 -ATAAAACATAAAAAA
1 TTTAAAA-AT-AAAAA
*
102425631 CTTAAAAAT
1 TTTAAAAAT
102425640 TTAATATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
13 5 0.11
14 28 0.62
15 7 0.16
16 5 0.11
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
TTTAAAAATAAAAA
Found at i:102426950 original size:18 final size:18
Alignment explanation
Indices: 102426929--102426965 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
102426919 GAGTTAACAA
102426929 GTAGTAATTTCTTAATTT
1 GTAGTAATTTCTTAATTT
102426947 GTAGTAATTTCTTAATTT
1 GTAGTAATTTCTTAATTT
102426965 G
1 G
102426966 AACTCCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (18 bp):
GTAGTAATTTCTTAATTT
Found at i:102429236 original size:19 final size:19
Alignment explanation
Indices: 102429177--102429237 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
102429167 TGAAAAATTA
*
102429177 TTTCTGGAAAAATGAATTACT
1 TTTCTGG-AAAATGATTTA-T
* * *
102429198 TTTCTGGAATA-GCTAATAT
1 TTTCTGGAAAATGAT-TTAT
102429217 TTTCTGGAAAATGATTTAT
1 TTTCTGGAAAATGATTTAT
102429236 TT
1 TT
102429238 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
19 17 0.55
20 7 0.23
21 7 0.23
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (19 bp):
TTTCTGGAAAATGATTTAT
Found at i:102436516 original size:27 final size:24
Alignment explanation
Indices: 102436480--102436543 Score: 65
Period size: 27 Copynumber: 2.5 Consensus size: 24
102436470 AAGTGAAAAC
102436480 ATTTCATATAATCACTTCATATAACTA
1 ATTT-ATATAATCA-TTCATAT-ACTA
* *
102436507 ATTCTATATAACTTATTCATATACTC
1 ATT-TATATAA-TCATTCATATACTA
102436533 ATTTATATAAT
1 ATTTATATAAT
102436544 TCTTTCGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 1 0.03
25 7 0.21
26 6 0.18
27 16 0.48
28 3 0.09
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTTATATAATCATTCATATACTA
Found at i:102436517 original size:14 final size:14
Alignment explanation
Indices: 102436498--102436542 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
102436488 TAATCACTTC
102436498 ATATAACTAATTCT
1 ATATAACTAATTCT
*
102436512 ATATAACTTATTC-
1 ATATAACTAATTCT
*
102436525 ATAT-ACTCATT-T
1 ATATAACTAATTCT
102436537 ATATAA
1 ATATAA
102436543 TTCTTTCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 10 0.37
13 5 0.19
14 12 0.44
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATAACTAATTCT
Found at i:102436802 original size:6 final size:6
Alignment explanation
Indices: 102436791--102436815 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
102436781 ACAAAGTGTG
102436791 ACTGTA ACTGTA ACTGTA ACTGTA A
1 ACTGTA ACTGTA ACTGTA ACTGTA A
102436816 ATGCTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (6 bp):
ACTGTA
Found at i:102437645 original size:13 final size:13
Alignment explanation
Indices: 102437626--102437676 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
102437616 TAAACTAAAA
102437626 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
102437639 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
102437652 TTTTCAAAAGTAT
1 TTTTCAAAAGCAC
102437665 TTTTCAAAAGCA
1 TTTTCAAAAGCA
102437677 TTGCCAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:102447924 original size:370 final size:371
Alignment explanation
Indices: 102447189--102447982 Score: 1048
Period size: 370 Copynumber: 2.1 Consensus size: 371
102447179 GAAGTGAAAA
* * ** *
102447189 GAAATTGCTAAAATCCTTACTTGCCATAAGAGTAAACATCTCACGAACCACCCTTAGCAAAATCA
1 GAAATTGCTAAAATCCTTACTTGCTAGAAGAGTAAACGCCTCAAGAACCACCCTTAGCAAAATCA
*
102447254 CAACTAATGAAACCAAAAGACCCTACAAAGATATCAAAACAACCACCCTAAAATGAAACTAACGA
66 CAACTAATGAAACCAAAAGACCCTACAAAGATATCAAAACAACCACCCTAAAATGAAACTAAAGA
* * * *
102447319 ATTATATCTGAAGATTTTGAAAACACCAACGCATTCTAAATGGTGGCACAAATGAAGATAGGTTG
131 ATTATATCTGAAGATTTTGAAAACACCAACACAATCTAAATGGCGACACAAATGAAGATAGGTTG
* * * * * *
102447384 GCAACGAAGAAATAATAGCAAGAGATAACAACAAGGGAAAATGGTAACAAATTTAAAAGAAACAA
196 GCAACGAAGAAACAATAGCAAGAAACAACAACAAGGGAAAATGGCAAAAAATGTAAAAGAAACAA
* *
102447449 AATAAAAATGAAATAGAAAGAAAGAAGAAGAAAAAAATAACGTCAAAGGAACAGAAAATTGGAAA
261 AATAAAAATGAAACAGAAAGAAAGAAGAAGAAAAAAATAACGTCAAAGGAACACAAAATTGGAAA
* *
102447514 AAAGAAATGGAAGTAGTGGAAAGAGAGGAATACAAAAAAATTTGGG
326 AAAGAAATGAAAGTAATGGAAAGAGAGGAATACAAAAAAATTTGGG
* * *
102447560 GAAATTGTTAAAATCCTTACTTGCTAGAAGAGTAAACGCCTTATGAACCACCC-TAGCAAAATCA
1 GAAATTGCTAAAATCCTTACTTGCTAGAAGAGTAAACGCCTCAAGAACCACCCTTAGCAAAATCA
* * *
102447624 CAACTAATGAAACCAAAAGACCTTTCAAAGATATCAAGACAACCACCCTAAAATGAAACTAAAGA
66 CAACTAATGAAACCAAAAGACCCTACAAAGATATCAAAACAACCACCCTAAAATGAAACTAAAGA
102447689 ATTATACTTACCTGAAGATTTT-AATAACACCAACACAATCTAAATGGCGACACAACA-GAAGAT
131 ATTATA--T--CTGAAGATTTTGAA-AACACCAACACAATCTAAATGGCGACACAA-ATGAAGAT
* * * *
102447752 AGGTCT-GCAATGAAGAAACAATAGCAAGAAACGACAACAGGGGAATATGGCAAAAAATGTAAAA
190 AGGT-TGGCAACGAAGAAACAATAGCAAGAAACAACAACAAGGGAAAATGGCAAAAAATGTAAAA
* * * * * *
102447816 TAAACGAAA-GAAAATGAAACAGAAAGAAAGAAGAAGAAAAAAATAATGTTAGAGGAACACAAAA
254 GAAACAAAATAAAAATGAAACAGAAAGAAAGAAGAAGAAAAAAATAACGTCAAAGGAACACAAAA
* * *
102447880 TTGG-AAAAAGACATTAAAGTAATGGAAAGA-AGG-A-ACGTAAAAAATTTGGG
319 TTGGAAAAAAGAAATGAAAGTAATGGAAAGAGAGGAATAC-AAAAAAATTTGGG
* * ** * *
102447930 GAAATTGCTGAAATCCTCACTCACTAGAAGAGGAAAAGCCTCAAGAACCACCC
1 GAAATTGCTAAAATCCTTACTTGCTAGAAGAGTAAACGCCTCAAGAACCACCC
102447983 CTAGTAAACG
Statistics
Matches: 368, Mismatches: 47, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
369 2 0.01
370 135 0.37
371 49 0.13
372 23 0.06
373 55 0.15
374 102 0.28
375 2 0.01
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.17
Consensus pattern (371 bp):
GAAATTGCTAAAATCCTTACTTGCTAGAAGAGTAAACGCCTCAAGAACCACCCTTAGCAAAATCA
CAACTAATGAAACCAAAAGACCCTACAAAGATATCAAAACAACCACCCTAAAATGAAACTAAAGA
ATTATATCTGAAGATTTTGAAAACACCAACACAATCTAAATGGCGACACAAATGAAGATAGGTTG
GCAACGAAGAAACAATAGCAAGAAACAACAACAAGGGAAAATGGCAAAAAATGTAAAAGAAACAA
AATAAAAATGAAACAGAAAGAAAGAAGAAGAAAAAAATAACGTCAAAGGAACACAAAATTGGAAA
AAAGAAATGAAAGTAATGGAAAGAGAGGAATACAAAAAAATTTGGG
Found at i:102448173 original size:15 final size:15
Alignment explanation
Indices: 102448162--102448194 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
102448152 CAACAAATGT
102448162 AAAA-GAAACAAAAG
1 AAAATGAAACAAAAG
102448176 AAAATGAAACAGAAAG
1 AAAATGAAACA-AAAG
102448192 AAA
1 AAA
102448195 GAAGAAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAATGAAACAAAAG
Found at i:102448563 original size:25 final size:25
Alignment explanation
Indices: 102448535--102448583 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
102448525 AACAAATGTA
*
102448535 AAAGAAACAAAAGAA-AATAAAATAG
1 AAAGAAA-AAAAGAAGAAGAAAATAG
*
102448560 AAAGAAATAAAGAAGAAGAAAATA
1 AAAGAAAAAAAGAAGAAGAAAATA
102448584 ATGTTAGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (25 bp):
AAAGAAAAAAAGAAGAAGAAAATAG
Found at i:102448782 original size:372 final size:369
Alignment explanation
Indices: 102448086--102450167 Score: 2665
Period size: 372 Copynumber: 5.6 Consensus size: 369
102448076 AACTAAATTA
* * * * * * * * *
102448086 CAGCATAATAGAAGATAGGTTAGCAATGAAAAAACTATAGAAAAAGACGAAAACAGAGGAATATG
1 CAGCACAACAGAAGATAGGTCAACAATGAAGAAACAATAGCAAGAGACGACAACAG-GGAATATG
*
102448151 GCAACAAATGTAAAAGAAACAAAAGAAAATGAAACAGAAAGAAAGAAGAAGAAGAAAATAATGTT
65 GCAACAAATGTAAAAGAAACAAAAGAAAATGAAACAGAAAGAAAGAAGAAGAAGAAAATAACGTT
* *
102448216 AAAAGAACAAAAAATGGGAAAAAGAAATAGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGCG
130 AGAGGAACAAAAAATGGGAAAAAGAAATAGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTG-G
* * *
102448281 GAAGTTGCTAAAATTCTCACTCGCCAGAAGAGTAAACACATCAGGAACCACCCCTAGCAAAATCA
194 GAAATTGCTAAAATTCTCACTCGCCAGAAGAGTAAACACCTCACGAACCA-CCCTAGCAAAATCA
*
102448346 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACTCTAAAATGAAACTAACGA
258 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGA
* * * *
102448411 ATTATACTTACATAAAGATTTTAATAACACCGACATAGTCTAAATGG
323 ATTATACTTACCTGAAGATTTTAATAACACCAACGTAGTCTAAATGG
** *
102448458 CAGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAACAAGA-ACCGACAACAGGAGAATAT
1 CAGCACAACAGAAGATAGGTCAACAATGAAGAAACAATAGCAAGAGA-CGACAACAGG-GAATAT
* * * * * *
102448522 AGTAACAAATGTAAAAGAAACAAAAGAAAATAAAATAGAAAGAAATAAAGAAGAAGAAAATAATG
64 GGCAACAAATGTAAAAGAAACAAAAGAAAATGAAACAGAAAGAAA-GAAGAAGAAGAAAATAACG
* * * * *
102448587 TTAGAGGAATAGAAAATGGGAAAAAGAAATGGAAGTAGTGGTAAGAGAGAAACATAAAAAATTTG
128 TTAGAGGAACAAAAAATGGGAAAAAGAAATAGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTG
* * *
102448652 GTGAAATTGCTAAAATCCTTACTCGCCAGAAGAGTAAACACTTCACGAACCACCCTAGCAAAATC
193 G-GAAATTGCTAAAATTCTCACTCGCCAGAAGAGTAAACACCTCACGAACCACCCTAGCAAAATC
* * * * * *
102448717 ACAGCTAATGAAACTAAACGACCTTACAAAGATATCAAGACAACTACCCTAAAACGAAACTAACG
257 ACAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACG
* * *
102448782 AATTATACTTACCTAAAGATTTTAATAACACCAATGTAGGCTAAATGG
322 AATTATACTTACCTGAAGATTTTAATAACACCAACGTAGTCTAAATGG
* *
102448830 CCA-CACAACAGAAGATAGGTC-ACAATGAAAAAATAATAGCAAGAGACGACAACAGGGGAATAT
1 -CAGCACAACAGAAGATAGGTCAACAATGAAGAAACAATAGCAAGAGACGACAACA-GGGAATAT
* * ** *
102448893 AGCAAAAAATGTAAAAGAAATGAAAGAAAAATGAAACAAAAAGAAAGAAGAAGAAGAAGAAAATA
64 GGCAACAAATGTAAAAGAAACAAAAG-AAAATGAAACAGAAAG--A-AAGAAGAAGAAGAAAATA
* *
102448958 ACGTTAGAGGAACAAAAAATGGGAAAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAA
125 ACGTTAGAGGAACAAAAAATGGG-AAAAAGAAATAGAAGTAGTGGAAAGAGAGGAACATAAAAAA
* * * * * *
102449023 TTTAGGGAAATTGCTAATATCCTTACTC-ACTGAAGAGTAAACGCCTCACGAACCACCTCTAGCA
189 TTT-GGGAAATTGCTAAAATTCTCACTCGCCAGAAGAGTAAACACCTCACGAACCACC-CTAGCA
* * * *
102449087 AAATCACAACTAATGAAACCAAAATACTTTCTAAAGATATCAAGACAACCAACCTAAAA-GAAAA
252 AAATCACAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATG-AAA
* * * *
102449151 CTAACTAATTATACTTACTTGAAGATTTTAATAACACCAACGCAGTTTAAATGG
316 CTAACGAATTATACTTACCTGAAGATTTTAATAACACCAACGTAGTCTAAATGG
* * * * *
102449205 CGGTACAACAGAAGATAGGTCGACAATGAAGAAACAGTAGCAAGAGATGACAACAGGGGAATATG
1 CAGCACAACAGAAGATAGGTCAACAATGAAGAAACAATAGCAAGAGACGACAACA-GGGAATATG
* * *
102449270 GCAACAAATGTAAAAGAAACAAAAGAAAATGAAATAGAAAGAAAGAAGAAGAAGAAAATAGCGTC
65 GCAACAAATGTAAAAGAAACAAAAGAAAATGAAACAGAAAGAAAGAAGAAGAAGAAAATAACGTT
* * *
102449335 AGAGGAACAGAAAATGGGAAAAAGAAATAAAAGTAGTGGAAAGAGAGGAACATAAAAAATTAGGG
130 AGAGGAACAAAAAATGGGAAAAAGAAATAGAAGTAGTGGAAAGAGAGGAACATAAAAAATT-TGG
* * *
102449400 GAAA-TGACTAAAATTCTCACTCACCAGAAGAGTAAAC-CTCTCACGTACCATCCTAGC--AA--
194 GAAATTG-CTAAAATTCTCACTCGCCAGAAGAGTAAACAC-CTCACGAACCACCCTAGCAAAATC
* *
102449459 A-AACTAATGAAACCAAAAGACCTTCCAAAAATATCAAGACAACCACCCTAAAATGAAACTAACT
257 ACAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACG
* * *
102449523 AATTATACTTATCTGAAGATTTTAATAACAACAACGCAGTCTAAATGG
322 AATTATACTTACCTGAAGATTTTAATAACACCAACGTAGTCTAAATGG
* * * *
102449571 CAGCACAACATAAGATAGGTTAACAATGAAGAAACAATAACAAGAGACGATAACAAGGGAATATG
1 CAGCACAACAGAAGATAGGTCAACAATGAAGAAACAATAGCAAGAGACGACAAC-AGGGAATATG
* * *
102449636 GCAATAAATGTAAAAGAAACGAAAGAAAAATGAAACAGAAAGAAAGAAGTAGAA-AAAATAACGT
65 GCAACAAATGTAAAAGAAACAAAAG-AAAATGAAACAGAAAGAAAGAAGAAGAAGAAAATAACGT
* *
102449700 TAGAGGAACAAAAAATGGGAAAAAGAAATAGAAGTAGTGAAAAAAGAGGAACATAAAAAATTTGG
129 TAGAGGAACAAAAAATGGGAAAAAGAAATAGAAGTAGTGGAAAGAGAGGAACATAAAAAATTT-G
* * ** * *
102449765 GGAAATTGCTAAAATTCTCACTCGCTAGGAGAGTAAATGCCTCACAAACCACCCTTAGCAAAATT
193 GGAAATTGCTAAAATTCTCACTCGCCAGAAGAGTAAACACCTCACGAACCACCC-TAGCAAAATC
* *
102449830 ACAACTAATGAAACCAAAATAGCTTCCAAAGATATCAAGACAACCACCCTAAAATG--A--AACG
257 ACAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACG
* ** *
102449891 AATTATTCTTACCTGAAGATTTTAATAACACCAATATAGTTTAAATGG
322 AATTATACTTACCTGAAGATTTTAATAACACCAACGTAGTCTAAATGG
* * *
102449939 CAGCATAACAGAAGATAGGTCAACAAT-AACAAA-ATAGTAGTAAGAGACGAC-ACAAGGGAATA
1 CAGCACAACAGAAGATAGGTCAACAATGAAGAAACA-A-TAGCAAGAGACGACAAC-AGGGAATA
* * *
102450001 TGGCAACAAATGTAAAAGAAAGAAAAGAAAATGAAATAGAAAGAATGAAGAAGAAGAAAAATAAC
63 TGGCAACAAATGTAAAAGAAACAAAAGAAAATGAAACAGAAAGAAAGAAGAAGAAG-AAAATAAC
* * * * * *
102450066 ATTAGAGGAACAGAAAATGGAAAAAAGAAATGGAAATAGTGGAAAGAGAGGAATATAAAAAATTT
127 GTTAGAGGAACAAAAAATGGGAAAAAGAAATAGAAGTAGTGGAAAGAGAGGAACATAAAAAATTT
102450131 AGGGAAATTGCTAAAATTCTCACTCGCCAGAAGAGTA
192 -GGGAAATTGCTAAAATTCTCACTCGCCAGAAGAGTA
102450168 TGTAACACCC
Statistics
Matches: 1498, Mismatches: 175, Indels: 78
0.86 0.10 0.04
Matches are distributed among these distances:
366 312 0.21
367 77 0.05
368 178 0.12
369 4 0.00
370 3 0.00
371 122 0.08
372 352 0.23
373 124 0.08
374 63 0.04
375 201 0.13
376 62 0.04
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.17
Consensus pattern (369 bp):
CAGCACAACAGAAGATAGGTCAACAATGAAGAAACAATAGCAAGAGACGACAACAGGGAATATGG
CAACAAATGTAAAAGAAACAAAAGAAAATGAAACAGAAAGAAAGAAGAAGAAGAAAATAACGTTA
GAGGAACAAAAAATGGGAAAAAGAAATAGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGGGA
AATTGCTAAAATTCTCACTCGCCAGAAGAGTAAACACCTCACGAACCACCCTAGCAAAATCACAA
CTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATT
ATACTTACCTGAAGATTTTAATAACACCAACGTAGTCTAAATGG
Found at i:102448938 original size:21 final size:22
Alignment explanation
Indices: 102448897--102448941 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
102448887 GAATATAGCA
*
102448897 AAAAATGTAAAAGAAATGAAAG
1 AAAAATGTAAAAGAAAAGAAAG
102448919 AAAAATG-AAACA-AAAAGAAAG
1 AAAAATGTAAA-AGAAAAGAAAG
102448940 AA
1 AA
102448942 GAAGAAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAATGTAAAAGAAAAGAAAG
Found at i:102449678 original size:17 final size:15
Alignment explanation
Indices: 102449647--102449680 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
102449637 CAATAAATGT
102449647 AAAAGAAACGAAAGA
1 AAAAGAAACGAAAGA
102449662 AAAATGAAACAGAAAGA
1 AAAA-GAAAC-GAAAGA
102449679 AA
1 AA
102449681 GAAGTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.74, C:0.06, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAAGAAACGAAAGA
Found at i:102449683 original size:21 final size:22
Alignment explanation
Indices: 102449641--102449683 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
102449631 ATATGGCAAT
102449641 AAATGTAAAAGAAACGAAAGAA
1 AAATGTAAAAGAAACGAAAGAA
102449663 AAATG-AAACAGAAA-GAAAGAA
1 AAATGTAAA-AGAAACGAAAGAA
102449684 GTAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.70, C:0.05, G:0.19, T:0.07
Consensus pattern (22 bp):
AAATGTAAAAGAAACGAAAGAA
Found at i:102452084 original size:88 final size:88
Alignment explanation
Indices: 102451935--102452158 Score: 342
Period size: 88 Copynumber: 2.6 Consensus size: 88
102451925 AGCTGAAGAT
* *
102451935 ATCCAAGATGATTTGGCATTTCTGTATCAAGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
* * * *
102452000 TTCACGTGTTTATGTTGAAGTAG
66 TTCACGTGTGTACGTTGAAGCAA
*
102452023 ATCCAAGATAATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
102452088 TTCACGTGTGTACGTTGAAGCAA
66 TTCACGTGTGTACGTTGAAGCAA
* * * *
102452111 ATCCAAGATGATTTGGCGTCTCTGTAGC-GGCAGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGA
102452159 TAACATATTT
Statistics
Matches: 124, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
87 18 0.15
88 106 0.85
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
TTCACGTGTGTACGTTGAAGCAA
Found at i:102452174 original size:44 final size:44
Alignment explanation
Indices: 102452120--102452686 Score: 880
Period size: 44 Copynumber: 13.1 Consensus size: 44
102452110 AATCCAAGAT
*
102452120 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
102452164 TATTTGGCGTCTCTGTAGCGGCGGAGAGCAGGTCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
102452208 GATTTAGAGTCTTTGTAGCGGCGGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
102452252 GATTTGGCATCTCTATAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
102452292 GATTTAGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
102452336 AATTTGGCATCTCTGTAGCGGCGAAGAGCAAATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
102452380 GATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
102452424 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
102452468 GATTTGGCGACTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
102452512 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
102452556 GATTTGGCGTCTCTGTAGCTGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
102452596 GATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
102452640 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
102452684 GAT
1 GAT
102452687 AGCGGCGGAG
Statistics
Matches: 478, Mismatches: 37, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
40 77 0.16
44 401 0.84
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:102452258 original size:132 final size:132
Alignment explanation
Indices: 102452120--102452904 Score: 1171
Period size: 132 Copynumber: 6.1 Consensus size: 132
102452110 AATCCAAGAT
* *
102452120 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACATATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * * * *
102452185 CGGAGAGCAGGTCAAAGATAACAGATTTAGAGTCTTTGTAGCGGCGGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
*
102452250 TA
131 CA
* * * *
102452252 GATTTGGCATCTCTATAGCGGCGGAGAGCAGATCGAAGAT----GATTTAGCATCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * * *
102452313 CGGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTAGCGGCGAAGAGCAAATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
*
102452378 TA
131 CA
*
102452380 GATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
102452445 CGGAGAGCAGATCGAAGATAACAGATTTGGCGACTCTGTAGCGGCGGAGAGTAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
102452510 CA
131 CA
*
102452512 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCTG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
102452577 CGGAGAGCAGATCGAAGAT----GATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
102452638 CA
131 CA
102452640 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGA-------------TAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
102452692 CGGAGAGCAGATCGAAAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
102452757 CA
131 CA
* * * *
102452759 GATTTGGCGTCTCCGTAGCAGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
102452824 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
*
102452889 CG
131 CA
102452891 GATTTGGCGTCTCT
1 GATTTGGCGTCTCT
102452905 ATATTAGACG
Statistics
Matches: 592, Mismatches: 40, Indels: 42
0.88 0.06 0.06
Matches are distributed among these distances:
115 23 0.04
119 86 0.15
128 202 0.34
132 281 0.47
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (132 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
CA
Found at i:102452690 original size:31 final size:31
Alignment explanation
Indices: 102452655--102452717 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
102452645 GGCGTCTCTG
*
102452655 TAGCGGCGGAGAGCAGATCGAAGATAACAGA
1 TAGCGGCGGAGAGCAGATCGAAAATAACAGA
102452686 TAGCGGCGGAGAGCAGATCGAAAATAACAGA
1 TAGCGGCGGAGAGCAGATCGAAAATAACAGA
102452717 T
1 T
102452718 TTGGCGTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.33, T:0.11
Consensus pattern (31 bp):
TAGCGGCGGAGAGCAGATCGAAAATAACAGA
Found at i:102452736 original size:44 final size:44
Alignment explanation
Indices: 102452686--102452904 Score: 384
Period size: 44 Copynumber: 5.0 Consensus size: 44
102452676 AGATAACAGA
*
102452686 TAGCGGCGGAGAGCAGATCGAAAATAACAGATTTGGCGTCTCTG
1 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
*
102452730 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCCG
1 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
* *
102452774 TAGCAGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
1 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
*
102452818 TAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
1 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
*
102452862 TAGCGGCGGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCT
1 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCT
102452905 ATATTAGACG
Statistics
Matches: 167, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 167 1.00
ACGTcount: A:0.29, C:0.19, G:0.32, T:0.20
Consensus pattern (44 bp):
TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
Found at i:102452739 original size:75 final size:75
Alignment explanation
Indices: 102452611--102452849 Score: 316
Period size: 75 Copynumber: 3.0 Consensus size: 75
102452601 GGCGTCTCTG
*
102452611 TAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
102452676 AGATAACAGA
66 AGATAACAGA
*
102452686 TAGCGGCGGAGAGCAGATCGAAAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
102452751 AGATAACAGA
66 AGATAACAGA
* * *
102452761 TTTGGCGTCTCCGTAGCAGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCG
1 --T--AG----CG--GC-GGAG--AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCG
102452826 GAGAGCAGATCGAAGATAACAGA
53 GAGAGCAGATCGAAGATAACAGA
102452849 T
1 T
102452850 TTGGCGTCTC
Statistics
Matches: 145, Mismatches: 6, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
75 73 0.50
77 1 0.01
79 1 0.01
83 2 0.01
85 2 0.01
86 4 0.03
88 62 0.43
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (75 bp):
TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
AGATAACAGA
Found at i:102452805 original size:88 final size:88
Alignment explanation
Indices: 102452694--102452938 Score: 373
Period size: 88 Copynumber: 2.8 Consensus size: 88
102452684 GATAGCGGCG
* *
102452694 GAGAGCAGATCGAAAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACA
102452759 GATTTGGCGTCTCCGTAGCAGCA
66 GATTTGGCGTCTCCGTAGCAGCA
102452782 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACA
1 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACA
* * *
102452847 GATTTGGCGTCTCTGTAGCGGCG
66 GATTTGGCGTCTCCGTAGCAGCA
* * ** * * *
102452870 GAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTATATTAGACGGGGAGCAGATCAAAGATAGC
1 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAG-CGGAGAGCAGATCGAAGATAAC
102452935 AGAT
65 AGAT
102452939 ATCACTTTCC
Statistics
Matches: 144, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
88 121 0.84
89 23 0.16
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (88 bp):
GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACA
GATTTGGCGTCTCCGTAGCAGCA
Found at i:102452829 original size:163 final size:159
Alignment explanation
Indices: 102452527--102452849 Score: 565
Period size: 163 Copynumber: 2.0 Consensus size: 159
102452517 GGCGTCTCTG
* *
102452527 TAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCTGCGGAGAGCAGATCGA
1 TAGCGGCGGAGAGCAGATCGAAAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
102452592 AGATGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
66 AGATGATTTGGCGTCTCCGTAGCAGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
*
102452657 GCGGCGGAGAGCAGATCGAAGATAACAGA
131 GCAGCGGAGAGCAGATCGAAGATAACAGA
102452686 TAGCGGCGGAGAGCAGATCGAAAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 TAGCGGCGGAGAGCAGATCGAAAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
102452751 AGATAACAGATTTGGCGTCTCCGTAGCAGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
66 AGAT----GATTTGGCGTCTCCGTAGCAGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
102452816 TGTAGCAGCGGAGAGCAGATCGAAGATAACAGA
127 TGTAGCAGCGGAGAGCAGATCGAAGATAACAGA
102452849 T
1 T
102452850 TTGGCGTCTC
Statistics
Matches: 155, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
159 67 0.43
163 88 0.57
ACGTcount: A:0.30, C:0.18, G:0.33, T:0.19
Consensus pattern (159 bp):
TAGCGGCGGAGAGCAGATCGAAAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
AGATGATTTGGCGTCTCCGTAGCAGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
GCAGCGGAGAGCAGATCGAAGATAACAGA
Found at i:102453270 original size:12 final size:12
Alignment explanation
Indices: 102453249--102453278 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
102453239 AACCTCTTCA
*
102453249 CCCTATGTGCCG
1 CCCTAAGTGCCG
102453261 CCCTAAGTGCCG
1 CCCTAAGTGCCG
102453273 CCCTAA
1 CCCTAA
102453279 TCCTCTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.43, G:0.20, T:0.20
Consensus pattern (12 bp):
CCCTAAGTGCCG
Found at i:102459291 original size:46 final size:47
Alignment explanation
Indices: 102459126--102459389 Score: 211
Period size: 46 Copynumber: 5.6 Consensus size: 47
102459116 GGGTATAATA
* *
102459126 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATATCTG-TG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATAT-TGAGG
* * *
102459176 CCGATGCATGTCCCAGACATGTCTTACACTAG--C-ACATCTCGTA-G
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATTG-AGG
* * * * * *
102459220 TCGATGCGTGTCCCAAATATATCTTACACTGGCT-TACATTTTGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATTGAGG
* * * ** *
102459266 CCGATGCATGTTCCAGACATGTCTTACACTAGCTCT-CGTATCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATTGAGG
* * * *
102459312 CTGATGCCATGTCCCAGATATGGTCTTACACTGGCTCT-CATAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTACATATTGAGG
*
102459360 CCGATGAATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
102459390 AGCGTACACA
Statistics
Matches: 168, Mismatches: 37, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 32 0.19
45 1 0.01
46 55 0.33
47 25 0.15
48 35 0.21
49 13 0.08
50 6 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATTGAGG
Found at i:102459376 original size:94 final size:90
Alignment explanation
Indices: 102459127--102459392 Score: 306
Period size: 94 Copynumber: 2.9 Consensus size: 90
102459117 GGTATAATAC
* * *
102459127 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATATCTGTGCCGATGCATGTCCCAG
1 CGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCATA-ATGTG-GCCGATGCATGTCCCAG
*
102459192 ACATGTCTTACACTAGCACATCTCGTAGT
64 ACATGTCTTACACTAG--CATCTCGTAAT
* * ** * *
102459221 CGATG-CGTGTCCCAAATAT-ATCTTACACTGGCT-TACATTTTGAGGCCGATGCATGTTCCAGA
1 CGATGCCATGTCCCAAATATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCAGA
102459283 CATGTCTTACACTAGC-TCTCGTATCAAT
65 CATGTCTTACACTAGCATCTCG--T-AAT
* *
102459311 GCTGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATAATGTGGCCGATGAATGTCCCAG
1 -C-GATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
102459376 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
102459393 GTACACATAT
Statistics
Matches: 145, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
87 5 0.03
88 1 0.01
89 1 0.01
90 34 0.23
91 4 0.03
92 19 0.13
93 24 0.17
94 56 0.39
95 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (90 bp):
CGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCATCTCGTAAT
Found at i:102462726 original size:14 final size:14
Alignment explanation
Indices: 102462707--102462736 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
102462697 AGAAGGAAAG
102462707 AAGAAAAGAAAGAA
1 AAGAAAAGAAAGAA
*
102462721 AAGAAAAGTAAGAA
1 AAGAAAAGAAAGAA
102462735 AA
1 AA
102462737 ACAGAAACGT
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:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (14 bp):
AAGAAAAGAAAGAA
Found at i:102462751 original size:18 final size:19
Alignment explanation
Indices: 102462711--102462752 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
102462701 GGAAAGAAGA
102462711 AAAGAAAGAAAAGAAAAGT
1 AAAGAAAGAAAAGAAAAGT
* *
102462730 -AAGAAA-AACAGAAACGT
1 AAAGAAAGAAAAGAAAAGT
102462747 AAAGAA
1 AAAGAA
102462753 GAGTTTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.71, C:0.05, G:0.19, T:0.05
Consensus pattern (19 bp):
AAAGAAAGAAAAGAAAAGT
Found at i:102464791 original size:6 final size:6
Alignment explanation
Indices: 102464777--102464810 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
102464767 TGATGACATA
*
102464777 ATAAAC ATAACC ATAAAC ATAAAC ATAAAC ATAA
1 ATAAAC ATAAAC ATAAAC ATAAAC ATAAAC ATAA
102464811 GTTCATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAC
Found at i:102468848 original size:11 final size:11
Alignment explanation
Indices: 102468827--102468861 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
102468817 AATGGCCTCA
102468827 CAGGCCCGTGTG
1 CAGG-CCGTGTG
102468839 CAGGCCGTGTG
1 CAGGCCGTGTG
102468850 CTAGGCCGTGTG
1 C-AGGCCGTGTG
102468862 AAAATTGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.09, C:0.29, G:0.43, T:0.20
Consensus pattern (11 bp):
CAGGCCGTGTG
Found at i:102470571 original size:94 final size:94
Alignment explanation
Indices: 102470440--102470611 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 94
102470430 CCACAATATA
* * * ** *
102470440 AGAGCTAGTGTAAGACATGTCTGGGACATGCTACAGCCTTGAGATATTTAAGCCAGTGTTAGACA
1 AGAGCTAGTGTAAGACATGTCTGGAACAGGCTACAGCCTCGAGATATACAAGCCAGTGTAAGACA
102470505 TGTCTAGGACATGCATCGGCGTTGAGAAG
66 TGTCTAGGACATGCATCGGCGTTGAGAAG
* * *
102470534 AGAGCTAGTGTAAGACATGTTTGGAACAGGC-ATCAGCCTCGCGATATACAAGCTAGTGTAAGAC
1 AGAGCTAGTGTAAGACATGTCTGGAACAGGCTA-CAGCCTCGAGATATACAAGCCAGTGTAAGAC
* *
102470598 CTGTCTGGGACATG
65 ATGTCTAGGACATG
102470612 GCGTCAGCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
93 1 0.02
94 65 0.98
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (94 bp):
AGAGCTAGTGTAAGACATGTCTGGAACAGGCTACAGCCTCGAGATATACAAGCCAGTGTAAGACA
TGTCTAGGACATGCATCGGCGTTGAGAAG
Found at i:102471942 original size:20 final size:21
Alignment explanation
Indices: 102471901--102471942 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
102471891 CATGTACAAG
102471901 TTCCACACGGGCGTGTTGCCC
1 TTCCACACGGGCGTGTTGCCC
*
102471922 TTCCACACGGGTGTG-TGCCC
1 TTCCACACGGGCGTGTTGCCC
102471942 T
1 T
102471943 GTTTTAAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.10, C:0.36, G:0.29, T:0.26
Consensus pattern (21 bp):
TTCCACACGGGCGTGTTGCCC
Found at i:102480154 original size:19 final size:19
Alignment explanation
Indices: 102480126--102480164 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
102480116 TTTATAGTTT
102480126 TAAATCATTTTTGGGTAAAA
1 TAAATCA-TTTTGGGTAAAA
*
102480146 TAAAT-ATTTTGGGTCAAA
1 TAAATCATTTTGGGTAAAA
102480164 T
1 T
102480165 TAGAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 1 0.06
20 5 0.28
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
TAAATCATTTTGGGTAAAA
Found at i:102494097 original size:28 final size:28
Alignment explanation
Indices: 102494057--102494112 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
102494047 TGAACTGTAA
102494057 GGGTTATACTTGTATATGCCTTTTGGTT
1 GGGTTATACTTGTATATGCCTTTTGGTT
102494085 GGGTTATACTTGTATATGCCTTTTGGTT
1 GGGTTATACTTGTATATGCCTTTTGGTT
102494113 AAGTATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.11, G:0.25, T:0.50
Consensus pattern (28 bp):
GGGTTATACTTGTATATGCCTTTTGGTT
Found at i:102495695 original size:19 final size:20
Alignment explanation
Indices: 102495643--102495694 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
102495633 TTAAAATTTT
*
102495643 AAATATATTTTTTATAAAAA
1 AAATTTATTTTTTATAAAAA
102495663 AAATTTATTTTTTAT-AAAA
1 AAATTTATTTTTTATAAAAA
102495682 AAATTTCATTTTT
1 AAATTT-ATTTTT
102495695 AGTCCTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTTATTTTTTATAAAAA
Found at i:102497577 original size:22 final size:22
Alignment explanation
Indices: 102497549--102497595 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
102497539 GTTGTTAAAA
* *
102497549 AATAATAATTATATTTATTT-TT
1 AATAAT-ATTAAAATTATTTATT
102497571 AATAATATTAAAATTATTTATT
1 AATAATATTAAAATTATTTATT
102497593 AAT
1 AAT
102497596 GTTGAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATAATATTAAAATTATTTATT
Found at i:102502360 original size:21 final size:21
Alignment explanation
Indices: 102502334--102502374 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102502324 AGACGAGCAA
* *
102502334 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
102502355 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
102502375 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:102504908 original size:13 final size:12
Alignment explanation
Indices: 102504892--102504916 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102504882 TTTGTTTACC
102504892 TTTTTTTAGCTA
1 TTTTTTTAGCTA
102504904 TTTTTTTAGCTA
1 TTTTTTTAGCTA
102504916 T
1 T
102504917 AATTAATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTTTTTAGCTA
Found at i:102508129 original size:11 final size:11
Alignment explanation
Indices: 102508113--102508139 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
102508103 AGCCTAAAGT
102508113 TCTTGGAAATC
1 TCTTGGAAATC
102508124 TCTTGGAAATC
1 TCTTGGAAATC
102508135 TCTTG
1 TCTTG
102508140 CTTGGCTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (11 bp):
TCTTGGAAATC
Found at i:102512608 original size:87 final size:87
Alignment explanation
Indices: 102512490--102512655 Score: 323
Period size: 87 Copynumber: 1.9 Consensus size: 87
102512480 ATTAGCAACG
*
102512490 GTATCTAACGATACATTAGGCTTGCATAACTTGCAAGATTATTGTGATTAAACTGTTTCAAGGTA
1 GTATCTAACGATACATTAGACTTGCATAACTTGCAAGATTATTGTGATTAAACTGTTTCAAGGTA
102512555 GAAATACATTGTTAAATACATT
66 GAAATACATTGTTAAATACATT
102512577 GTATCTAACGATACATTAGACTTGCATAACTTGCAAGATTATTGTGATTAAACTGTTTCAAGGTA
1 GTATCTAACGATACATTAGACTTGCATAACTTGCAAGATTATTGTGATTAAACTGTTTCAAGGTA
102512642 GAAATACATTGTTA
66 GAAATACATTGTTA
102512656 CCTCACGTAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (87 bp):
GTATCTAACGATACATTAGACTTGCATAACTTGCAAGATTATTGTGATTAAACTGTTTCAAGGTA
GAAATACATTGTTAAATACATT
Found at i:102513282 original size:16 final size:15
Alignment explanation
Indices: 102513263--102513292 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
102513253 TTGTGACTTT
102513263 GTTAATTTTTATTTTG
1 GTTAATTTTT-TTTTG
102513279 GTTAATTTTTTTTT
1 GTTAATTTTTTTTT
102513293 CAATTTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (15 bp):
GTTAATTTTTTTTTG
Found at i:102520894 original size:30 final size:33
Alignment explanation
Indices: 102520831--102520902 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
102520821 CAAAATCTAC
*
102520831 ACGACCGTGTCCCTTAGACTGTGTGCCCATTAA
1 ACGACCGTGCCCCTTAGACTGTGTGCCCATTAA
* *
102520864 ATGACCGTGCCCCTTAGA-T-TGTG-TCATTAA
1 ACGACCGTGCCCCTTAGACTGTGTGCCCATTAA
102520894 ACGACCGTG
1 ACGACCGTG
102520903 TTCGCATCGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.40
31 4 0.11
32 1 0.03
33 16 0.46
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (33 bp):
ACGACCGTGCCCCTTAGACTGTGTGCCCATTAA
Found at i:102529623 original size:14 final size:14
Alignment explanation
Indices: 102529604--102529637 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
102529594 TGCCATGGCC
102529604 GTGTTGATAAGTCA
1 GTGTTGATAAGTCA
102529618 GTGTTGATAAGTCA
1 GTGTTGATAAGTCA
*
102529632 ATGTTG
1 GTGTTG
102529638 CCCACGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.38
Consensus pattern (14 bp):
GTGTTGATAAGTCA
Found at i:102531132 original size:6 final size:6
Alignment explanation
Indices: 102531113--102531150 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
102531103 AAAACCAAAG
102531113 AAAT-A AAATCAA AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAAT-AA AAATAA AAATAA AAATAA AAATAA AA
102531151 GAAATAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 4 0.13
6 22 0.71
7 5 0.16
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:102534699 original size:25 final size:25
Alignment explanation
Indices: 102534653--102534700 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
102534643 AATTAGAATG
*
102534653 TAAAAATTAAACTAAAACAAAAATA
1 TAAAAATTAAAATAAAACAAAAATA
*
102534678 TAAAAA-TAAAATAGAAATAAAAA
1 TAAAAATTAAAATA-AAACAAAAA
102534701 ATGGCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (25 bp):
TAAAAATTAAAATAAAACAAAAATA
Found at i:102537211 original size:51 final size:51
Alignment explanation
Indices: 102537155--102537254 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
102537145 CTACCTTATC
* * * * *
102537155 ACATGTAACACATCCATAATGAACTCGGACCTCCCAACGAGTTCGGATGTT
1 ACATGTAACACATCCATAACGAACTCAGACCACCCAACAAGATCGGATGTT
* * * *
102537206 ACATGTATCGCATCCATTACGAACTCAGACCACTCAACAAGATCGGATG
1 ACATGTAACACATCCATAACGAACTCAGACCACCCAACAAGATCGGATG
102537255 CCTCATATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (51 bp):
ACATGTAACACATCCATAACGAACTCAGACCACCCAACAAGATCGGATGTT
Found at i:102537321 original size:43 final size:41
Alignment explanation
Indices: 102537224--102537339 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 41
102537214 CGCATCCATT
* *
102537224 ACGAACTCAGACCACTCAACAAGATCGGATGCCTCATATATC
1 ACGAACTCGGACCACTCAACAAGATCGGAT-TCTCATATATC
* *
102537266 ACGAACTTGGACCACTCAACAAGTTCGGATTCTGACATATATC
1 ACGAACTCGGACCACTCAACAAGATCGGATTCT--CATATATC
* * * *
102537309 ACGAGCTCGGACCGCTCAACGAGCTCGGATT
1 ACGAACTCGGACCACTCAACAAGATCGGATT
102537340 TCTTAATTCC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 27 0.43
43 34 0.54
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (41 bp):
ACGAACTCGGACCACTCAACAAGATCGGATTCTCATATATC
Found at i:102557671 original size:23 final size:23
Alignment explanation
Indices: 102557641--102557687 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
102557631 TCAAATGAAA
102557641 TTTTGTGACCCGAGTTAGTATAC
1 TTTTGTGACCCGAGTTAGTATAC
102557664 TTTTGTGACCCGAGTTAGTATAC
1 TTTTGTGACCCGAGTTAGTATAC
102557687 T
1 T
102557688 GAAAGTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (23 bp):
TTTTGTGACCCGAGTTAGTATAC
Found at i:102558338 original size:27 final size:27
Alignment explanation
Indices: 102558287--102558338 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
102558277 TCAAAAAATT
* *
102558287 ATTAGAAATTATGAAAATATTATAAAA
1 ATTAGAAAATATGAAAATATAATAAAA
102558314 ATTAGAAAATATTGAAAAT-TAATAA
1 ATTAGAAAATA-TGAAAATATAATAA
102558339 TTTTATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.33
Consensus pattern (27 bp):
ATTAGAAAATATGAAAATATAATAAAA
Found at i:102558901 original size:16 final size:16
Alignment explanation
Indices: 102558880--102558947 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
102558870 TTTGGTTCGC
102558880 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
102558896 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
102558912 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
102558928 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
102558944 TGTA
1 TGTA
102558948 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:102558987 original size:45 final size:44
Alignment explanation
Indices: 102558928--102559018 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
102558918 GGATTAGAGG
* *
102558928 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
102558973 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
102559017 TG
1 TG
102559019 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:102559200 original size:16 final size:16
Alignment explanation
Indices: 102559163--102559204 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
102559153 TTAATCATAT
*
102559163 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
102559179 TT-AAATATATTATAA
1 TTAAAATATATTATAA
102559194 TTAAAATATAT
1 TTAAAATATAT
102559205 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:102559211 original size:14 final size:15
Alignment explanation
Indices: 102559172--102559213 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
102559162 TTTAAACATA
*
102559172 ATTATTATTAAATAT
1 ATTATAATTAAATAT
102559187 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
102559201 A-TATAATTTAATA
1 ATTATAATTAAATA
102559214 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:102559263 original size:61 final size:60
Alignment explanation
Indices: 102559198--102559384 Score: 195
Period size: 61 Copynumber: 3.1 Consensus size: 60
102559188 TTATAATTAA
102559198 AATATATAATTTAATAAAATTCTTAATAATCAGTATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCA-TATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
102559259 AATATATGATACT-ATAAAATT-TAAATTAA-CATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAT-ATTCTTATATGAATTTACTCA-AATCAT
*
102559318 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAA-TCATATTCTTATATGAATTTACTCAAATCAT
102559379 AATATA
1 AATATA
102559385 AAATCGTGTT
Statistics
Matches: 97, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
58 3 0.03
59 31 0.32
60 22 0.23
61 38 0.39
62 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATCATATTCTTATATGAATTTACTCAAATCAT
Found at i:102559331 original size:14 final size:15
Alignment explanation
Indices: 102559282--102559333 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
102559272 ATAAAATTTA
102559282 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
102559297 TATTAAATATATTAT
1 AATTAAATATATTAT
102559312 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
102559325 AATTTAATA
1 AATTAAATA
102559334 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:102559379 original size:120 final size:120
Alignment explanation
Indices: 102559166--102559384 Score: 420
Period size: 120 Copynumber: 1.8 Consensus size: 120
102559156 ATCATATTTA
*
102559166 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAG
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
102559231 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATTTAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATTTAAATT
*
102559286 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
102559351 TATTCTTATATGAATTTACTCAAATCATAATATA
66 TATTCTTATATGAATTTACTCAAATCATAATATA
102559385 AAATCGTGTT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATTTAAATT
Found at i:102559384 original size:59 final size:59
Alignment explanation
Indices: 102559201--102559385 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
102559191 TAATTAAAAT
* *
102559201 ATATAATTTAATAAAATTCTTAATAATCAGTATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
102559260 ATAT-ATGATACTATAAAATT-TAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGA-ATT-TACTCAAATCA
102559320 T-
58 TA
102559321 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
102559380 ATATAA
1 ATATAA
102559386 AATCGTGTTG
Statistics
Matches: 96, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
56 6 0.06
57 12 0.12
58 8 0.08
59 23 0.24
60 6 0.06
61 17 0.18
62 6 0.06
63 12 0.12
64 6 0.06
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
Found at i:102563680 original size:30 final size:31
Alignment explanation
Indices: 102563644--102563708 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
102563634 TATTTATATC
* *
102563644 TTTATAATTTTTAAAAGA-TTAAATCAAATT
1 TTTATAAATTTTAAAAGAGTTAAATAAAATT
102563674 TTTATAAATTTTAAAAGAGTTTAAATAAAATT
1 TTTATAAATTTTAAAAGAG-TTAAATAAAATT
102563706 TTT
1 TTT
102563709 TCTATTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 17 0.55
32 14 0.45
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (31 bp):
TTTATAAATTTTAAAAGAGTTAAATAAAATT
Found at i:102563917 original size:2 final size:2
Alignment explanation
Indices: 102563910--102563940 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
102563900 CTATCGGTGG
102563910 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102563941 TTTATTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102564379 original size:5 final size:5
Alignment explanation
Indices: 102564349--102564378 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
102564339 TATATCCCAA
*
102564349 TTTTC TTTTC TTTTC TTTTC TTTTC ATTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
102564379 AACATCAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:102581266 original size:17 final size:17
Alignment explanation
Indices: 102581241--102581291 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
102581231 AAAATTTTTT
102581241 AAATATAAAAATATAAGA
1 AAATATAAAAA-ATAAGA
*
102581259 AAAT-TAAAAAAATAATA
1 AAATAT-AAAAAATAAGA
102581276 AATATATAAAAAATAA
1 AA-ATATAAAAAATAA
102581292 AAATGTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 8 0.28
18 20 0.69
19 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAATATAAAAAATAAGA
Found at i:102581287 original size:26 final size:25
Alignment explanation
Indices: 102581245--102581294 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
102581235 TTTTTTAAAT
*
102581245 ATAAAAATATAAGAAAATTAAAAAA
1 ATAAAAATATAAGAAAAATAAAAAA
102581270 ATAATAAATATATA-AAAAATAAAAA
1 ATAA-AAATATA-AGAAAAATAAAAA
102581295 TGTATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 17 0.77
27 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (25 bp):
ATAAAAATATAAGAAAAATAAAAAA
Found at i:102581889 original size:21 final size:22
Alignment explanation
Indices: 102581855--102581916 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
102581845 TATTATTTTT
* * *
102581855 TATTTTTTTGAAATTTAT-TTAC
1 TATTTTTAT-AAATTTATAATAA
102581877 TATTTTTATAAATTT-TAATAA
1 TATTTTTATAAATTTATAATAA
102581898 TATTTTTATAAATTTATAA
1 TATTTTTATAAATTTATAA
102581917 ATTTTCTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.03
21 23 0.66
22 11 0.31
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTTTTATAAATTTATAATAA
Found at i:102581908 original size:11 final size:10
Alignment explanation
Indices: 102581878--102581921 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
102581868 TTTATTTACT
102581878 ATTTTTATAA
1 ATTTTTATAA
*
102581888 ATTTTAATAA
1 ATTTTTATAA
102581898 TATTTTTATAA
1 -ATTTTTATAA
102581909 A--TTTATAA
1 ATTTTTATAA
102581917 ATTTT
1 ATTTT
102581922 CTTTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
8 8 0.28
10 12 0.41
11 9 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:102583962 original size:40 final size:39
Alignment explanation
Indices: 102583909--102583992 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 39
102583899 AATTCATTAC
* *
102583909 TTCAGTAATTTCACAGTTCAATGCAGTA-CACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTATC-CA-AACAATA
*
102583949 TTCAGTAACTTCACAATTCAATTCAGTATTCCAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTA-TCCAAACAATA
102583989 TTCA
1 TTCA
102583993 ATATTCCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
40 36 0.92
41 2 0.05
42 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.32
Consensus pattern (39 bp):
TTCAGTAACTTCACAATTCAATGCAGTATCCAAACAATA
Found at i:102583974 original size:21 final size:21
Alignment explanation
Indices: 102583909--102583976 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
102583899 AATTCATTAC
* *
102583909 TTCAGTAATTTCACAGTTCAA
1 TTCAGTAACTTCACAATTCAA
* * *
102583930 TGCAGTACACATAACAA-T--A
1 TTCAGTA-ACTTCACAATTCAA
102583949 TTCAGTAACTTCACAATTCAA
1 TTCAGTAACTTCACAATTCAA
102583970 TTCAGTA
1 TTCAGTA
102583977 TTCCAAACAA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
21 15 0.43
22 5 0.14
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (21 bp):
TTCAGTAACTTCACAATTCAA
Done.