Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 180 of 253
Found at i:58811515 original size:299 final size:299
Alignment explanation
Indices: 58810965--58811552 Score: 1077
Period size: 299 Copynumber: 2.0 Consensus size: 299
58810955 GTAGCTCTAG
*
58810965 CCATCGTCTCTGTCTTAAGTTCAGCTCTTTCTGCGACATTAAATACTTCAAACTTTTATGGTCTG
1 CCATCGTCTCTGTCTCAAGTTCAGCTCTTTCTGCGACATTAAATACTTCAAACTTTTATGGTCTG
*
58811030 TATACACATAACATTTCTCACCATAGAGGTAGTGTCTCCAAATTTTTAAAGCAAAAACGATAGCA
66 TATACACATAACATTTCTCACCATAGAGGTAGTGCCTCCAAATTTTTAAAGCAAAAACGATAGCA
* *
58811095 GCTAACTCAAGATCATGTGTAGGGCAGTTCCTCTCATGTGATTTCAACTGCCGAGAAGCATATGC
131 ACTAACTCAAGATCATGTGGAGGGCAGTTCCTCTCATGTGATTTCAACTGCCGAGAAGCATATGC
* *
58811160 TACAACTTTTCCTGACTGCATCAGTACATAACCTAAACCATTCAGAGACGTATCACTATATAGCA
196 TACAACTTTTCCTGACTGCATCAGTACACAACCTAAACCATTCAGAGACATATCACTATATAGCA
58811225 CATATGACACACCTGACTCAGGTTGAGTCAACAAGCTAT
261 CATATGACACACCTGACTCAGGTTGAGTCAACAAGCTAT
*
58811264 CCATCTTCTCTGTCTCAAGTTCAGCTCTTTCTGCGACATTAAATACTTCAAACTTTTATGGTCTG
1 CCATCGTCTCTGTCTCAAGTTCAGCTCTTTCTGCGACATTAAATACTTCAAACTTTTATGGTCTG
*
58811329 TATACACATAACATTTCTCACCATAGAGGTAGTGCCTCCAAATTTTTAAAGTAAAAACGATAGCA
66 TATACACATAACATTTCTCACCATAGAGGTAGTGCCTCCAAATTTTTAAAGCAAAAACGATAGCA
* *
58811394 ACTAACTCAAGATCATGTGGAGGGTAGTTCCTCTCATGTGATTTCAACTGCTGAGAAGCATATGC
131 ACTAACTCAAGATCATGTGGAGGGCAGTTCCTCTCATGTGATTTCAACTGCCGAGAAGCATATGC
*
58811459 TACAACTTTTCCTGACTGCATCAGTACACAGCCTAAACCATTCAGAGACATATCACTATATAGCA
196 TACAACTTTTCCTGACTGCATCAGTACACAACCTAAACCATTCAGAGACATATCACTATATAGCA
58811524 CATATGACACACCTGACTCAGGTTGAGTC
261 CATATGACACACCTGACTCAGGTTGAGTC
58811553 GACACTGGGG
Statistics
Matches: 278, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
299 278 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (299 bp):
CCATCGTCTCTGTCTCAAGTTCAGCTCTTTCTGCGACATTAAATACTTCAAACTTTTATGGTCTG
TATACACATAACATTTCTCACCATAGAGGTAGTGCCTCCAAATTTTTAAAGCAAAAACGATAGCA
ACTAACTCAAGATCATGTGGAGGGCAGTTCCTCTCATGTGATTTCAACTGCCGAGAAGCATATGC
TACAACTTTTCCTGACTGCATCAGTACACAACCTAAACCATTCAGAGACATATCACTATATAGCA
CATATGACACACCTGACTCAGGTTGAGTCAACAAGCTAT
Found at i:58814508 original size:12 final size:11
Alignment explanation
Indices: 58814483--58814507 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58814473 ATTTCCACTT
58814483 AAATTTTAAAA
1 AAATTTTAAAA
58814494 AAATTTTAAAA
1 AAATTTTAAAA
58814505 AAA
1 AAA
58814508 ACATACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTTTAAAA
Found at i:58815673 original size:47 final size:48
Alignment explanation
Indices: 58815574--58815777 Score: 155
Period size: 47 Copynumber: 4.2 Consensus size: 48
58815564 TGCACATAGT
* * * * * **
58815574 CACACATCA-CACTGATGCCATATCCCAGAAATGGTCTAACATAAAAG
1 CACATATCATCACTGATGCCATATCCTAGATATGGTCTTATACGAAAG
* *
58815621 TACATAT-ATCACTGATGCCATATACTAGATATGGTCTTATACGAAAG
1 CACATATCATCACTGATGCCATATCCTAGATATGGTCTTATACGAAAG
** * * * *
58815668 CACATAATCTCATCACACCAATGCCATAGCCTAGCTAAGGTCTTATACGAGAG
1 CACAT-A--TCAT--CACTGATGCCATATCCTAGATATGGTCTTATACGAAAG
* * *
58815721 CACCTATCA-CACCT-ATACCATATCCTAGATATGGTCTTATACGAAAAT
1 CACATATCATCA-CTGATGCCATATCCTAGATATGGTCTTATACG-AAAG
58815769 CACATATCA
1 CACATATCA
58815778 CATGTTGCCA
Statistics
Matches: 122, Mismatches: 26, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
46 1 0.01
47 67 0.55
48 12 0.10
50 4 0.03
51 2 0.02
52 1 0.01
53 35 0.29
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (48 bp):
CACATATCATCACTGATGCCATATCCTAGATATGGTCTTATACGAAAG
Found at i:58816905 original size:14 final size:15
Alignment explanation
Indices: 58816888--58816918 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58816878 ATTTCCTAAC
58816888 AAAAA-TTTAATACT
1 AAAAACTTTAATACT
58816902 AAAAACTTTAATACT
1 AAAAACTTTAATACT
58816917 AA
1 AA
58816919 CTTATTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAACTTTAATACT
Found at i:58818464 original size:20 final size:21
Alignment explanation
Indices: 58818412--58818465 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
58818402 AATCGTAGTG
*
58818412 TATTATAA-TTTAAATATTTTA
1 TATTATAATTTTAAATA-TATA
*
58818433 TATT-T-ATCTTAAATA-ATA
1 TATTATAATTTTAAATATATA
58818451 TATTATAATTTTAAA
1 TATTATAATTTTAAA
58818466 ATTGTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
18 6 0.22
19 2 0.07
20 15 0.56
21 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTATAATTTTAAATATATA
Found at i:58825557 original size:20 final size:18
Alignment explanation
Indices: 58825516--58825551 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
58825506 TAGACCTTAT
58825516 AATATAATATATATGATA
1 AATATAATATATATGATA
58825534 AATAT-ATATCATATGATA
1 AATATAATAT-ATATGATA
58825552 TGAATACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (18 bp):
AATATAATATATATGATA
Found at i:58826359 original size:29 final size:30
Alignment explanation
Indices: 58826326--58826398 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
58826316 TATTTTTTAT
58826326 TTTATAAATTATTAAT-ATATTTATGAATC
1 TTTATAAATTATTAATGATATTTATGAATC
* * *
58826355 TTTATAATATT-TTAATGATGTTTATTAATT
1 TTTATAA-ATTATTAATGATATTTATGAATC
58826385 TTTAT-AATTATTAA
1 TTTATAAATTATTAA
58826399 ATTTTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 3 0.08
29 17 0.45
30 18 0.47
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (30 bp):
TTTATAAATTATTAATGATATTTATGAATC
Found at i:58826372 original size:21 final size:21
Alignment explanation
Indices: 58826334--58826388 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
58826324 ATTTTATAAA
58826334 TTATTAATATATTT-ATGAATCT
1 TTATTAATAT-TTTAATG-ATCT
*
58826356 TTA-TAATATTTTAATGATGT
1 TTATTAATATTTTAATGATCT
58826376 TTATTAAT-TTTTA
1 TTATTAATATTTTA
58826389 TAATTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 14 0.47
21 13 0.43
22 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
TTATTAATATTTTAATGATCT
Found at i:58826397 original size:16 final size:17
Alignment explanation
Indices: 58826376--58826409 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58826366 TTAATGATGT
58826376 TTATT-AATTTTTATAA
1 TTATTAAATTTTTATAA
*
58826392 TTATTAAATTTTTTTAA
1 TTATTAAATTTTTATAA
58826409 T
1 T
58826410 AGTTTTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTAAATTTTTATAA
Found at i:58829048 original size:25 final size:23
Alignment explanation
Indices: 58829008--58829054 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
58828998 CTAAAATTTT
*
58829008 ATTTTAAAAATTATTTATTTAAA
1 ATTTTAAAAATAATTTATTTAAA
*
58829031 ATTTTATAAATATAATTTTTTTAA
1 ATTTTA-AAA-ATAATTTATTTAA
58829055 TTTTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTAAAAATAATTTATTTAAA
Found at i:58829071 original size:10 final size:9
Alignment explanation
Indices: 58829043--58829070 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
58829033 TTTATAAATA
58829043 TAATTTTTT
1 TAATTTTTT
58829052 TAATTTTTT
1 TAATTTTTT
58829061 TAATTTTTT
1 TAATTTTTT
58829070 T
1 T
58829071 TTTTGTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TAATTTTTT
Found at i:58830658 original size:28 final size:27
Alignment explanation
Indices: 58830612--58830679 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
58830602 TAAAATCAAC
* * *
58830612 AATATATAAAACAAT-TTAAAATATAT
1 AATATATATAATAATATTAAAATAGAT
* *
58830638 TATATATATATATAATATTAAAATAGGT
1 AATATATATA-ATAATATTAAAATAGAT
58830666 AATATATATAATAA
1 AATATATATAATAA
58830680 ATACTATATG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 8 0.24
27 8 0.24
28 18 0.53
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (27 bp):
AATATATATAATAATATTAAAATAGAT
Found at i:58830827 original size:26 final size:26
Alignment explanation
Indices: 58830798--58830933 Score: 81
Period size: 25 Copynumber: 5.4 Consensus size: 26
58830788 GGCAAGTTTA
58830798 AAATAATATATAAAGAAATTTAAAAT
1 AAATAATATATAAAGAAATTTAAAAT
*** *
58830824 --A-AATAT-T-AAGAGGCTCAAAAT
1 AAATAATATATAAAGAAATTTAAAAT
*
58830845 -AATAATATGTAAAAGAGAAATTTAAAAT
1 AAATAATA--TATAA-AGAAATTTAAAAT
*
58830873 AAATAATATATAAA-AAATTTAAAGT
1 AAATAATATATAAAGAAATTTAAAAT
* * * *
58830898 GAATAACATATAAA-ACAGTTTAAATT
1 AAATAATATATAAAGA-AATTTAAAAT
*
58830924 AAATATTATA
1 AAATAATATA
58830934 CATGAAAATT
Statistics
Matches: 83, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
21 10 0.12
22 2 0.02
23 9 0.11
24 1 0.01
25 24 0.29
26 16 0.19
27 5 0.06
28 9 0.11
29 7 0.08
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (26 bp):
AAATAATATATAAAGAAATTTAAAAT
Found at i:58830834 original size:21 final size:22
Alignment explanation
Indices: 58830794--58830834 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
58830784 TAAAGGCAAG
58830794 TTTAAAATAATATATAAAGAAA
1 TTTAAAATAATATATAAAGAAA
*
58830816 TTTAAAATAA-ATATTAAGA
1 TTTAAAATAATATATAAAGA
58830835 GGCTCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (22 bp):
TTTAAAATAATATATAAAGAAA
Found at i:58830890 original size:25 final size:25
Alignment explanation
Indices: 58830862--58830964 Score: 82
Period size: 26 Copynumber: 4.0 Consensus size: 25
58830852 TGTAAAAGAG
58830862 AAATTTAAAATAAATAATATATAAA
1 AAATTTAAAATAAATAATATATAAA
* * *
58830887 AAATTTAAAGTGAATAACATATAAA
1 AAATTTAAAATAAATAATATATAAA
* * * * *
58830912 ACAGTTTAAATTAAATATTATACATGA
1 A-AATTTAAAATAAATAATATATA-AA
* *
58830939 AAATTTAGAATAGAA-CATATATAAA
1 AAATTTAAAATA-AATAATATATAAA
58830964 A
1 A
58830965 TAAATTTTAA
Statistics
Matches: 58, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
25 25 0.43
26 29 0.50
27 4 0.07
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (25 bp):
AAATTTAAAATAAATAATATATAAA
Found at i:58836423 original size:40 final size:40
Alignment explanation
Indices: 58836339--58836563 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
58836329 TTGAATGAAG
* * * *
58836339 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
58836379 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58836419 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58836458 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58836498 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
58836539 -CCGGGCTATA-TCCCGAAGGCATTTG
1 TCCGGGCTA-AGTCCCGAAGGCATTTG
58836564 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58836581 original size:80 final size:80
Alignment explanation
Indices: 58836339--58836596 Score: 226
Period size: 80 Copynumber: 3.2 Consensus size: 80
58836329 TTGAATGAAG
* * * * * * * *
58836339 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
58836402 TTGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* *
58836419 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
58836483 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
*
58836498 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATA-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTA-AGTCCCGAAGGCAT
*
58836561 TTGAACGAG-GAGCTATA
64 TTGAACGAGTGA-CTAAA
* *
58836578 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
58836597 TACGTGATTT
Statistics
Matches: 153, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.01
79 73 0.48
80 75 0.49
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:58836585 original size:119 final size:119
Alignment explanation
Indices: 58836339--58836596 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
58836329 TTGAATGAAG
* * *
58836339 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
58836404 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
58836458 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
58836521 TTGTGCGAGTTACT-ATAACCGGGCTATATCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTA-AGCCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
58836578 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
58836597 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 81 0.70
120 32 0.28
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:58838248 original size:20 final size:22
Alignment explanation
Indices: 58838219--58838258 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
58838209 ATTGATTTAT
*
58838219 GGAAATTATA-AT-TATTATTA
1 GGAAAATATATATATATTATTA
58838239 GGAAAATATATATATATTAT
1 GGAAAATATATATATATTAT
58838259 CGTATTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (22 bp):
GGAAAATATATATATATTATTA
Found at i:58840284 original size:20 final size:20
Alignment explanation
Indices: 58840254--58840298 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
58840244 CTGTTTTATT
58840254 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
58840273 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
58840293 ATGGGC
1 ATGGGC
58840299 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:58840461 original size:62 final size:61
Alignment explanation
Indices: 58840322--58840463 Score: 155
Period size: 61 Copynumber: 2.3 Consensus size: 61
58840312 TCTCGACTTG
* * * * *
58840322 TAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAATATGCTCTGATATTG
1 TAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAATATACACTGAAATTC
* * *
58840383 TAATAGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACACT-AAATTC
1 TAATAGGGCTACGGCCCAGACTAATACTGATATGGGCT-AGGCCCAATAT-ACACTGAAATTC
58840444 TGAATAGGGCTTA-GGCCCAG
1 T-AATAGGGC-TACGGCCCAG
58840464 TAAAGCTTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
61 41 0.59
62 26 0.38
63 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (61 bp):
TAATAGGGCTACGGCCCAGACTAATACTGATATGGGCTAGGCCCAATATACACTGAAATTC
Found at i:58842093 original size:3 final size:3
Alignment explanation
Indices: 58842056--58842271 Score: 128
Period size: 3 Copynumber: 74.0 Consensus size: 3
58842046 TGTCTAACAC
* * * *
58842056 TAT TAT TTT TAT TTT TAT TTT TAT T-T TTT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
58842102 TAT TCA- TAT GTA- TAT TAT TAT TA- TAT TAT TGT TAT TAT TAC TAT
1 TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * ** **
58842146 TAT CCT TAT TAT TAC TAT TAT TTT TAT TTT TAT TGC TAT TGC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
58842194 TA- TAT TAT TAT T-T T-T TAT TTT CTAT CAC CAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* *
58842237 CAT TAT TAT TAT TAT TAG TAT ATAT T-T T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
58842272 ATATGTATAT
Statistics
Matches: 160, Mismatches: 41, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
2 19 0.12
3 133 0.83
4 8 0.05
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:58842496 original size:129 final size:130
Alignment explanation
Indices: 58842229--58842927 Score: 644
Period size: 129 Copynumber: 5.2 Consensus size: 130
58842219 CACCATTATC
* * *
58842229 ATTATTATCATTATTATTATTATTAGTATATATTTTTTATTATATATGTATATGTATTTATATTT
1 ATTATTATTATTATTATTA-TATTAGTGTATA-TTTTTATTATATATGTATATGTATATATATTT
* * * *
58842294 ATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTTGCTTTTTGTATTTC
64 ATATATAGTATTATTTTTT-ATTACTTTATTTTAATATTTATATTATATTTGATTTTTGTATTTT
58842359 AAT
128 AAT
* * * *
58842362 ATTATTATTATTATTA-TATATTAGTGTACACTTTTATTATATACGTATATGTATATATGTTTAT
1 ATTATTATTATTATTATTATATTAGTGTATATTTTTATTATATATGTATATGTATATATATTTAT
*
58842426 ATATAGTATTATTTTTTATTACTTTATTTTAATATTTATATTATATTTGCTTTTTGTATTTTAAT
66 ATATAGTATTATTTTTTATTACTTTATTTTAATATTTATATTATATTTGATTTTTGTATTTTAAT
* *
58842491 ATTATTACTATTATCATTATTATTATTAATGTTAGTGTATATTTTTTTTATATGTGTATATGTAT
1 ATTA-T--TA-T-T-ATTATTATTA-T-A--TTAGTGTATATTTTTATTATATATGTATATGTAT
* * *
58842556 ATATATTTATATATAGTATTATTTTATTTAATA-TTTATATT-ATATTTGCT-TT-T-TTT-ATT
56 ATATATTTATATATAGTATTA-TTT-TTTATTACTTTATTTTAATATTT-ATATTATATTTGATT
** *
58842615 TTAATATTATTACT
118 TTTGTATT-TTAAT
* * * *
58842629 ATTATCATTATTATTATTAATGTTAGTGTATA-TTTTGTTATATATGTATATATAAGTATATATT
1 ATTATTATTATTATTATT-ATATTAGTGTATATTTTTATTATATATGTATATGT-A-TATATATT
* *
58842693 TATATATAGTATTATTTTTAATTACTTTATTTTAATA-TTATTATTATATTTGGTTTTTGTATTT
63 TATATATAGTATTATTTTTTATTACTTTATTTTAATATTTA-TATTATATTTGATTTTTGTA-TT
58842757 CATTATTATTGCT
126 --TTA--A----T
* * *
58842770 AGTATTATTATTATTATTAATATTAGTGTA-AGTTTTTACTATATAGGTATATATGTATATATAT
1 ATTATTATTATTATTATT-ATATTAGTGTATA-TTTTTATTATATA--TGTATATGTATATATAT
* * *
58842834 TTATACATAGTATTATTTCTAATTACTTTATTTTAATATTGTTATTATGTTATATTTGATTTTTG
62 TTATATATAGTATTATTTTTTATTACTTTATTTTAATA-T-TTA-TA--TTATATTTGATTTTTG
* *
58842899 TATTTCATT
122 TATTTTAAT
** *
58842908 ATTATTGCTAGTATTATTAT
1 ATTATTATTATTATTATTAT
58842928 CCTTATCATC
Statistics
Matches: 472, Mismatches: 52, Indels: 80
0.78 0.09 0.13
Matches are distributed among these distances:
128 23 0.05
129 74 0.16
130 74 0.16
131 11 0.02
132 17 0.04
133 24 0.05
134 4 0.01
135 12 0.03
136 2 0.00
137 12 0.03
138 27 0.06
139 1 0.00
140 58 0.12
141 39 0.08
142 59 0.12
143 1 0.00
144 9 0.02
145 6 0.01
146 2 0.00
147 17 0.04
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.59
Consensus pattern (130 bp):
ATTATTATTATTATTATTATATTAGTGTATATTTTTATTATATATGTATATGTATATATATTTAT
ATATAGTATTATTTTTTATTACTTTATTTTAATATTTATATTATATTTGATTTTTGTATTTTAAT
Found at i:58842568 original size:18 final size:19
Alignment explanation
Indices: 58842547--58842602 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
58842537 TTTATATGTG
58842547 TATATGTATA-TATATTTA
1 TATATGTATATTATATTTA
*
58842565 TATATAGTATTATTTTATTTA
1 TATAT-GTA-TATTATATTTA
*
58842586 -ATATTTATATTATATTT
1 TATATGTATATTATATTT
58842603 GCTTTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 14 0.44
19 5 0.16
20 6 0.19
21 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TATATGTATATTATATTTA
Found at i:58842585 original size:21 final size:21
Alignment explanation
Indices: 58842559--58842598 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
58842549 TATGTATATA
58842559 TATTT-ATATATAGTATTATTT
1 TATTTAATATATA-TATTATTT
*
58842580 TATTTAATATTTATATTAT
1 TATTTAATATATATATTAT
58842599 ATTTGCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTTAATATATATATTATTT
Found at i:58842646 original size:270 final size:269
Alignment explanation
Indices: 58842231--58842881 Score: 790
Period size: 270 Copynumber: 2.4 Consensus size: 269
58842221 CCATTATCAT
* * *
58842231 TATTATCATTATTATTATT-A-TTAGTATATATTTTTTATTATATATGTATATGTATTTATATTT
1 TATTATCATTATTATTATTAATTTAGTGTATATTTTTT-TTATATGTGTATATGTATATATATTT
* * * *
58842294 ATACATAGTATTA-TTTTTTAATTACTTTATTTTAATATTTTTATTATATTTGCTTTTTGTATTT
65 ATACATAGTATTATTTTTTTAATTACTTTATATTAATATTTTTATTATATTT-CTATATGTATTA
* * *
58842358 CAATATTATTATTATTATTATATATTAGTGTACACTTTTATTATATACGTATATGT-A-TATATG
129 CAATATCATTATTATTATTA-ATATTAGTGTACA-TTTTATTATATACGTATATATAAGTATATA
*
58842421 TTTATATATAGTATTATTTTTTATTACTTTATTTTAATATT-TATATTATATTTGCTTTTTGTAT
192 TTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTAT-TATTATATTTGCTTTTTGTAT
*
58842485 TTTAATATTATTAC
256 TTCAATATTATTAC
58842499 TATTATCATTATTATTATTAATGTTAGTGTATATTTTTTTTATATGTGTATATGTATATATATTT
1 TATTATCATTATTATTATTAAT-TTAGTGTATATTTTTTTTATATGTGTATATGTATATATATTT
* * *
58842564 ATATATAGTATTATTTTATTTAA-TA-TTTATATT-ATATTTGCTTTTTTTATTT-TAATAT-TA
65 ATACATAGTATTATTTT-TTTAATTACTTTATATTAATATTT--TTATTATATTTCT-ATATGTA
* * * * *
58842624 TTACTATTATCATTATTATTATTAATGTTAGTGTATATTTTGTTATATATGTATATATAAGTATA
126 TTAC-AATATCATTATTATTATTAATATTAGTGTACATTTTATTATATACGTATATATAAGTATA
*
58842689 TATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTTGGTTTTTGTA
190 TATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTTGCTTTTTGTA
* *
58842754 TTTCATTATTATTGC
255 TTTCAATATTATTAC
* * * * *
58842769 TAGTATTATTATTATTATTAATATTAGTGTA-AGTTTTTACTATATAGGTATATATGTATATATA
1 TATTATCATTATTATTATTAAT-TTAGTGTATA-TTTTT--TTTATATGTGTATATGTATATATA
* * *
58842833 TTTATACATAGTATTA--TTTCTAATTACTTTATTTTAATATTGTTATTAT
62 TTTATACATAGTATTATTTTTTTAATTACTTTATATTAATATTTTTATTAT
58842882 GTTATATTTG
Statistics
Matches: 330, Mismatches: 35, Indels: 34
0.83 0.09 0.09
Matches are distributed among these distances:
268 37 0.11
269 30 0.09
270 180 0.55
271 37 0.11
272 46 0.14
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (269 bp):
TATTATCATTATTATTATTAATTTAGTGTATATTTTTTTTATATGTGTATATGTATATATATTTA
TACATAGTATTATTTTTTTAATTACTTTATATTAATATTTTTATTATATTTCTATATGTATTACA
ATATCATTATTATTATTAATATTAGTGTACATTTTATTATATACGTATATATAAGTATATATTTA
TATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTTGCTTTTTGTATTTCAA
TATTATTAC
Found at i:58842712 original size:18 final size:18
Alignment explanation
Indices: 58842667--58842709 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
58842657 TATATTTTGT
*
58842667 TATATATGTATATATAAG
1 TATATATTTATATATAAG
58842685 TATATATTTATATAT-AG
1 TATATATTTATATATAAG
58842702 TAT-TATTT
1 TATATATTT
58842710 TTAATTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.21
17 5 0.21
18 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
TATATATTTATATATAAG
Found at i:58847536 original size:7 final size:7
Alignment explanation
Indices: 58847524--58847554 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
58847514 AGAAAGAGAA
58847524 AATTGGT
1 AATTGGT
58847531 AATTGGT
1 AATTGGT
58847538 AATTGGT
1 AATTGGT
*
58847545 AATTGTT
1 AATTGGT
58847552 AAT
1 AAT
58847555 GTTTATGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (7 bp):
AATTGGT
Found at i:58848235 original size:19 final size:19
Alignment explanation
Indices: 58848203--58848241 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
58848193 TTATTTTAAA
* *
58848203 TAAAATAGTGTTATATTAT
1 TAAAATACTATTATATTAT
*
58848222 TAAAATACTATTATTTTAT
1 TAAAATACTATTATATTAT
58848241 T
1 T
58848242 TTATTTTATT
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:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAAATACTATTATATTAT
Found at i:58852538 original size:25 final size:25
Alignment explanation
Indices: 58852504--58852553 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
58852494 AGTTCATCGT
58852504 GGTATTCATCAACAACATTTTGGTA
1 GGTATTCATCAACAACATTTTGGTA
58852529 GGTATTCATCAACAACATTTTGGTA
1 GGTATTCATCAACAACATTTTGGTA
58852554 TACTCTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (25 bp):
GGTATTCATCAACAACATTTTGGTA
Found at i:58856043 original size:31 final size:31
Alignment explanation
Indices: 58856008--58856067 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
58855998 GCCATGTGTA
58856008 AGGCTGTGTGGGCCACATGGGTTGGCCAAGT
1 AGGCTGTGTGGGCCACATGGGTTGGCCAAGT
58856039 AGGCTGTGTGGGCCACATGGGTTGGCCAA
1 AGGCTGTGTGGGCCACATGGGTTGGCCAA
58856068 AGGTTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.17, C:0.20, G:0.42, T:0.22
Consensus pattern (31 bp):
AGGCTGTGTGGGCCACATGGGTTGGCCAAGT
Found at i:58858532 original size:85 final size:85
Alignment explanation
Indices: 58858412--58858809 Score: 607
Period size: 85 Copynumber: 4.7 Consensus size: 85
58858402 TAATGATCTA
* * * * *
58858412 AATTACATGTAAGACTATGCCTGGGGCATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTTTG
1 AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
*
58858477 GGATAGAGGCAACGATACTG
66 GGACAGAGGCAACGATACTG
* *
58858497 AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTATTTTCGTAAAAGACTCTGTCTG
1 AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
* *
58858562 GGACAGAGGTAATGATACTG
66 GGACAGAGGCAACGATACTG
* * **
58858582 AATTACGTGTAAGAACATGTTTGGGACATCAACATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
1 AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
*
58858647 GGACAGAGGCAACGATATTG
66 GGACAGAGGCAACGATACTG
* * *
58858667 AATTACGTGTAAGACCATGTCTAGGACATCGGCATTGTATCTGTTTTCATAAAAGACCCTGTCTG
1 AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
58858732 GGACAGAGGCAACGATACTG
66 GGACAGAGGCAACGATACTG
* *
58858752 AATTACGTGTAAGACCATGTCTGTGACAATCGGCATCGTATCTGTTTTCGTATAAGAC
1 AATTACGTGTAAGACCATGTCTGGGAC-ATCGGCATCGTATCTGTTTTCGTAAAAGAC
58858810 TGTAACACCC
Statistics
Matches: 280, Mismatches: 32, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
85 253 0.90
86 27 0.10
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (85 bp):
AATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGTTTTCGTAAAAGACCCTGTCTG
GGACAGAGGCAACGATACTG
Found at i:58859763 original size:28 final size:27
Alignment explanation
Indices: 58859714--58859802 Score: 135
Period size: 28 Copynumber: 3.3 Consensus size: 27
58859704 AGCATGGCTG
* *
58859714 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
58859740 CCAGATACAGATATTTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
58859768 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
58859796 CCAGAAC
1 CCAGAAC
58859803 GCTTCCTCCA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 5 0.09
27 10 0.17
28 42 0.72
29 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:58861061 original size:15 final size:16
Alignment explanation
Indices: 58861030--58861062 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
58861020 GGCTATAGAG
58861030 GAAAATAAGAAGAAGA
1 GAAAATAAGAAGAAGA
*
58861046 GAAAAT-AGATGAAGA
1 GAAAATAAGAAGAAGA
58861061 GA
1 GA
58861063 GGAGAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (16 bp):
GAAAATAAGAAGAAGA
Found at i:58862796 original size:12 final size:13
Alignment explanation
Indices: 58862779--58862810 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58862769 GCAAATGTTA
58862779 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
58862791 AGTTTTGATGCAT
1 AGTTTTGATGCAT
58862804 -GTTTTGA
1 AGTTTTGA
58862811 AATGTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:58866486 original size:37 final size:37
Alignment explanation
Indices: 58866443--58866519 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
58866433 AACTCTGAAG
58866443 TTAATTTCTTTCGTGTAAAATTGCTTTCTTGTGATAT
1 TTAATTTCTTTCGTGTAAAATTGCTTTCTTGTGATAT
*
58866480 TTAATTTCTTTCGTGTAAGATTGCTTTCTTGTGATAT
1 TTAATTTCTTTCGTGTAAAATTGCTTTCTTGTGATAT
58866517 TTA
1 TTA
58866520 GAAGCAGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (37 bp):
TTAATTTCTTTCGTGTAAAATTGCTTTCTTGTGATAT
Found at i:58867047 original size:21 final size:22
Alignment explanation
Indices: 58867008--58867058 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
58866998 AAATTATGAC
*
58867008 TTTAAAGATATATATTTTTATAT
1 TTTATAGATATATATTTTTA-AT
58867031 TTT-TAGATATA-ATTTTTAAT
1 TTTATAGATATATATTTTTAAT
58867051 TTTATAGA
1 TTTATAGA
58867059 ATTATTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 11 0.42
22 7 0.27
23 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (22 bp):
TTTATAGATATATATTTTTAAT
Found at i:58867609 original size:20 final size:20
Alignment explanation
Indices: 58867566--58867611 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
58867556 AATGGTTATA
* *
58867566 TTTAAATATTTAAAATATAG
1 TTTATATATTTAAAATAAAG
*
58867586 TTTATATATTTAAAATAAAT
1 TTTATATATTTAAAATAAAG
58867606 TTTATA
1 TTTATA
58867612 AATAAGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTATATATTTAAAATAAAG
Found at i:58867808 original size:10 final size:10
Alignment explanation
Indices: 58867793--58867822 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
58867783 AAATGTATAT
58867793 TTTAATAATA
1 TTTAATAATA
58867803 TTTAATAATA
1 TTTAATAATA
*
58867813 TTTAAAAATA
1 TTTAATAATA
58867823 AAAAATAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTAATAATA
Found at i:58871267 original size:2 final size:2
Alignment explanation
Indices: 58871260--58871285 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58871250 TGGGTACTTT
58871260 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
58871286 AAATTTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:58876820 original size:15 final size:15
Alignment explanation
Indices: 58876796--58876827 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58876786 TATGCATGCA
*
58876796 AAATATAAAAGACAT
1 AAATACAAAAGACAT
58876811 AAATACAAAAGACAT
1 AAATACAAAAGACAT
58876826 AA
1 AA
58876828 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:58879970 original size:42 final size:43
Alignment explanation
Indices: 58879885--58879992 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 43
58879875 ACATCGATGT
* * * * **
58879885 CATATCCTAGATATGGTCTTATACGAAAATCTCATTTTGATGC
1 CATATCCCAGACATGGTCTTACACGAAAATCTCATATCAATGC
* *
58879928 CATGTCCCAGACGTGGTCTTACACG-AAATCTCATATCAATGC
1 CATATCCCAGACATGGTCTTACACGAAAATCTCATATCAATGC
*
58879970 CATATCCCAGATATGGTCTTACA
1 CATATCCCAGACATGGTCTTACA
58879993 TGATAACACA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 34 0.63
43 20 0.37
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (43 bp):
CATATCCCAGACATGGTCTTACACGAAAATCTCATATCAATGC
Found at i:58880010 original size:42 final size:42
Alignment explanation
Indices: 58879924--58880013 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
58879914 TCTCATTTTG
* * * *
58879924 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCA
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCACATAACA
* *
58879966 ATGCCATATCCCAGATATGGTCTTACATGATAA-CACATAACA
1 ATGCCATATCCCAGACATGGTCTTACACGA-AATCACATAACA
58880008 ATGCCA
1 ATGCCA
58880014 ATGCCATATC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 39 0.95
43 2 0.05
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCACATAACA
Found at i:58889018 original size:42 final size:42
Alignment explanation
Indices: 58888896--58889053 Score: 138
Period size: 42 Copynumber: 3.7 Consensus size: 42
58888886 GTCTCAGACG
* ** * * *
58888896 TGGTCTTGCATGGGATCTCACATCGATGCCATATCCCAGATA
1 TGGTCTTACATGAAATCTCATATCGATGCCATATCCCAAACA
* * * * * *
58888938 TGGTCTTATACGAAAATCTCATTTCGATGCTATGTCCCAAACG
1 TGGTCTTACATG-AAATCTCATATCGATGCCATATCCCAAACA
* * *
58888981 TGGTCTTACATGAAATCTCATATCAACGCCATATCCCAAATA
1 TGGTCTTACATGAAATCTCATATCGATGCCATATCCCAAACA
* *
58889023 TGGTCTTACATGATAA-CACATAACGATGCCA
1 TGGTCTTACATGA-AATCTCATATCGATGCCA
58889054 ATTCCATATC
Statistics
Matches: 89, Mismatches: 25, Indels: 4
0.75 0.21 0.03
Matches are distributed among these distances:
42 56 0.63
43 33 0.37
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
TGGTCTTACATGAAATCTCATATCGATGCCATATCCCAAACA
Found at i:58889799 original size:10 final size:9
Alignment explanation
Indices: 58889773--58889797 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
58889763 TTCAAGGATC
58889773 TCAAAAACA
1 TCAAAAACA
58889782 TCAAAAACA
1 TCAAAAACA
58889791 TCAAAAA
1 TCAAAAA
58889798 ACTAACACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.20, G:0.00, T:0.12
Consensus pattern (9 bp):
TCAAAAACA
Found at i:58896084 original size:16 final size:18
Alignment explanation
Indices: 58896052--58896084 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
58896042 TTTTTGGACT
58896052 TTTTGGGACTGTTATTTG
1 TTTTGGGACTGTTATTTG
58896070 TTTT-GGACT-TTATTT
1 TTTTGGGACTGTTATTT
58896085 TTCGCTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.12, C:0.06, G:0.21, T:0.61
Consensus pattern (18 bp):
TTTTGGGACTGTTATTTG
Found at i:58901997 original size:15 final size:14
Alignment explanation
Indices: 58901972--58902041 Score: 65
Period size: 15 Copynumber: 5.1 Consensus size: 14
58901962 AGATTGAAGA
58901972 TTTAA-TAATAATAT
1 TTTAATTAATAAT-T
58901986 TTTAATTAATAATT
1 TTTAATTAATAATT
*
58902000 TTTAAATTAATTATT
1 TTT-AATTAATAATT
* *
58902015 CTT-ATTTATAA-T
1 TTTAATTAATAATT
*
58902027 TTTAATTAAAAATT
1 TTTAATTAATAATT
58902041 T
1 T
58902042 ATTTCAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
12 3 0.07
13 12 0.27
14 11 0.24
15 19 0.42
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAATTAATAATT
Found at i:58903712 original size:8 final size:8
Alignment explanation
Indices: 58903695--58903724 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
58903685 ATCATTTTTT
58903695 AAAT-TAA
1 AAATATAA
58903702 AAATATAA
1 AAATATAA
58903710 AAATATAA
1 AAATATAA
58903718 AAATATA
1 AAATATA
58903725 GTTTTACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.18
8 18 0.82
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAATATAA
Found at i:58910009 original size:13 final size:13
Alignment explanation
Indices: 58909991--58910016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58909981 CCTCTGTACG
58909991 CTCCACGTCGCCA
1 CTCCACGTCGCCA
58910004 CTCCACGTCGCCA
1 CTCCACGTCGCCA
58910017 TTCGTACCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.54, G:0.15, T:0.15
Consensus pattern (13 bp):
CTCCACGTCGCCA
Found at i:58924098 original size:20 final size:19
Alignment explanation
Indices: 58924067--58924117 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
58924057 TGCCTCTTTT
*
58924067 TGCATT-CATTTTATGCATC
1 TGCATTGCATTTTAT-CATA
58924086 TGCATTGCATTTTTATCATA
1 TGCATTGCA-TTTTATCATA
58924106 TGCATTGCATTT
1 TGCATTGCATTT
58924118 CACAAAAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.31
20 14 0.48
21 6 0.21
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.49
Consensus pattern (19 bp):
TGCATTGCATTTTATCATA
Found at i:58928484 original size:44 final size:45
Alignment explanation
Indices: 58928431--58928541 Score: 147
Period size: 44 Copynumber: 2.5 Consensus size: 45
58928421 TTGATGAATC
*
58928431 CATAAATCTCATC-CCTCTGAAGTAGCAATAGAGTAGATTGAAGT
1 CATAAATCTCATCTCCTCTGAAGTAGCAATAGAGCAGATTGAAGT
* *
58928475 CATAAATCTCATCTCC-CTGAAGTAGCAGTGGAGCAGATTGAAGT
1 CATAAATCTCATCTCCTCTGAAGTAGCAATAGAGCAGATTGAAGT
* * *
58928519 TATAGATCTTATCTCCT-TGAAGT
1 CATAAATCTCATCTCCTCTGAAGT
58928542 TACAGTGTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 57 0.97
45 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (45 bp):
CATAAATCTCATCTCCTCTGAAGTAGCAATAGAGCAGATTGAAGT
Found at i:58928556 original size:44 final size:44
Alignment explanation
Indices: 58928431--58928561 Score: 131
Period size: 44 Copynumber: 3.0 Consensus size: 44
58928421 TTGATGAATC
* * **
58928431 CATAAATCTCATC-CCTCTGAAGTAGCAATAGAGTAGATTGAAGT
1 CATAAATCTCATCTCC-CTGAAGTAGCAGTGGAACAGATTGAAGT
*
58928475 CATAAATCTCATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGT
1 CATAAATCTCATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGT
* * * * * *
58928519 TATAGATCTTATCTCCTTGAAGTTA-CAGTGTAACAGATCGAAG
1 CATAAATCTCATCTCCCTGAAG-TAGCAGTGGAACAGATTGAAG
58928562 ACAGTGAATC
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
44 71 0.95
45 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
CATAAATCTCATCTCCCTGAAGTAGCAGTGGAACAGATTGAAGT
Found at i:58928758 original size:143 final size:143
Alignment explanation
Indices: 58928480--58929365 Score: 953
Period size: 143 Copynumber: 6.2 Consensus size: 143
58928470 GAAGTCATAA
* * * ** * * * *
58928480 ATCTCATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGTTA-TAGATCTTATCTCCTTGAAGTTA
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAG-CCTTATCTCCCTGAAGTTG
* * * * * * * * *
58928544 CAGTGTA-ACAGA-TCGAAGACAGTGAATCTTACTTCCCTGATGTTACAGTGAAACAGATTAAAT
65 CAGCGGAGA-AGACT-GAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
58928607 CTACAAATTATGGCAG
128 CTACAAATTATGGCAG
* *
58928623 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTAAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* * * * * * *
58928688 AGCCGAGAAGACTGAAGATAGTGAATCTTATTTCTCTGAAGTTGTAGTGGAACAAATTGAAGTTA
66 AGCGGAGAAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
* * *
58928753 TAAATTAAGGTAG
131 CAAATTATGGCAG
* * *
58928766 ATCTTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* * *
58928831 AGCGGAGTAGACTTAAGACAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTA
66 AGCGGAGAAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
*
58928896 CAAATTATGG-TG
131 CAAATTATGGCAG
* * * *
58928908 AATCTTATCTTCCTAAAGTTGCAATGGAGCAGATTGACGCCACCAGCCTTATCTCCCTGGAGTTG
1 -ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* * * * *
58928973 CAGTGGAGTAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCT
65 CAGCGGAGAAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
* *
58929038 ACAAATTGTGGCGG
130 ACAAATTATGGCAG
* * * *
58929052 ATTTTATCTTCCTGAAGTTGCAATGGAGTAGATTGAAGCCACCAACCTTATCTCCCTGAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* * * * * * *
58929117 AGCGGAGTAGATTGAAGACAACGAATATTATTTCCCTGATGTTGCAGTGGAATAGATTAAAGCTA
66 AGCGGAGAAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
*
58929182 CAAATTATGGCAA
131 CAAATTATGGCAG
* * * *
58929195 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCTCCTTGGAGTTGT
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* * * * * * * * * *
58929260 AGTGGAGTAA-ACTGAATATAGTGAATCTCATTTCTCTAAAGTTGCAGTGGAGCAAATTAAAGCT
66 AGCGGAG-AAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
* *
58929324 ACAAGTTA---CGG
130 ACAAATTATGGCAG
* *
58929335 ATCTTATC-TCTCTGAAGTAGCAGTAGAGCAG
1 ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAG
58929366 GCCAAAGTCA
Statistics
Matches: 634, Mismatches: 102, Indels: 17
0.84 0.14 0.02
Matches are distributed among these distances:
139 2 0.00
140 27 0.04
142 1 0.00
143 597 0.94
144 7 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (143 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
AGCGGAGAAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
CAAATTATGGCAG
Found at i:58928831 original size:44 final size:44
Alignment explanation
Indices: 58928780--58929266 Score: 166
Period size: 44 Copynumber: 10.3 Consensus size: 44
58928770 TATCTTTCTA
*
58928780 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * * ** *
58928824 AAGTTGCAGCGGAGTAGACTT-AAGACAGCGAATCTTATTTCCCTG
1 AAGTTGCAGTGGAGCAGA-TTGAAGCCA-CCAGCCTTATCTCCCTG
* * ** * * *
58928869 AAGTTGTAGTGGAACAGATTGAAGCTACAAATTATGGTGAATCTTATCTTCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGC--C--ACCA----G--CCTTATCTCCCTG
* *
58928923 AAGTTGCAATGGAGCAGATTGACGCCACCAGCCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * ** * ** * *
58928967 GAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTCATTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGCCTTATCTCCCTG
* * * * * *
58929012 AAGTTGCAATGGAACAGATTGAAGCTACAAATTGTGGCGGATTTTATCTTCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCAC-CA-----GC----CTTATCTCCCTG
* * *
58929066 AAGTTGCAATGGAGTAGATTGAAGCCACCAACCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * * *** *
58929110 AAGTTGCAGCGGAGTAGATTGAAGACAACGAATATTATTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAG-CCACCAGCCTTATCTCCCTG
* ** * ** *
58929155 ATGTTGCAGTGGAATAGATTAAAGCTACAAATTATGGCAAATCTTATCTTCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGC--C--ACCA--GC----CTTATCTCCCTG
* *
58929209 AAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCTCCTTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* *
58929253 GAGTTGTAGTGGAG
1 AAGTTGCAGTGGAG
58929267 TAAACTGAAT
Statistics
Matches: 320, Mismatches: 88, Indels: 70
0.67 0.18 0.15
Matches are distributed among these distances:
44 109 0.34
45 100 0.31
46 1 0.00
47 1 0.00
48 6 0.02
49 1 0.00
50 5 0.02
52 2 0.01
53 1 0.00
54 94 0.29
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
Found at i:58929015 original size:286 final size:285
Alignment explanation
Indices: 58928526--58929327 Score: 1057
Period size: 286 Copynumber: 2.8 Consensus size: 285
58928516 AGTTATAGAT
* * * * ** * * * *
58928526 CTTATCTCCTTGAAGTTACAGTGTAACAGATCGAAGACAGTGAATCTTACTTCCCTGATGTTACA
1 CTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGACAGCGAATCTTATTTCCCTGATGTTGCA
* * *
58928591 GTGAAACAGATTAAATCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGG-AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
* ** ** * *
58928656 TGAAGCCACTAGCCTTATCTCCCTAAAGTTGCAGCCGAGAAGACTGAAGATAGTGAATCTTATTT
130 TGAAGCCACCAGCCTTATCTCCCTGGAGTTGCAGTGGAGTAGACTGAAGATAGTGAATCTCATTT
* * * * *
58928721 CTCTGAAGTTGTAGTGGAACAAATTGAAGTTATAAATTAAGGTAGATCTTATCTTTCTAAAGTTG
195 CTCTGAAGTTGCAGTGGAACAAATTGAAGCTACAAATTAAGGCAGATCTTATCTTCCTAAAGTTG
* *
58928786 CAGTGGAGCAGATTGAAGCCACCAGC
260 CAATGGAGCAGATTGAAGCCACCAAC
* * *
58928812 CTTATCTCCTTGAAGTTGCAGCGGAGTAGACTT-AAGACAGCGAATCTTATTTCCCTGAAGTTGT
1 CTTATCTCCCTGAAGTTGCAGCGGAGTAGA-TTGAAGACAGCGAATCTTATTTCCCTGATGTTGC
* * * *
58928876 AGTGGAACAGATTGAAGCTACAAATTATGGTGAATCTTATCTTCCTAAAGTTGCAATGGAGCAGA
65 AGTGGAACAGATTAAAGCTACAAATTATGG-AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
* *
58928941 TTGACGCCACCAGCCTTATCTCCCTGGAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTCATT
129 TTGAAGCCACCAGCCTTATCTCCCTGGAGTTGCAGTGGAGTAGACTGAAGATAGTGAATCTCATT
* * * ** * * *
58929006 TCCCTGAAGTTGCAATGGAACAGATTGAAGCTACAAATTGTGGCGGATTTTATCTTCCTGAAGTT
194 TCTCTGAAGTTGCAGTGGAACAAATTGAAGCTACAAATTAAGGCAGATCTTATCTTCCTAAAGTT
*
58929071 GCAATGGAGTAGATTGAAGCCACCAAC
259 GCAATGGAGCAGATTGAAGCCACCAAC
* *
58929098 CTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGACAACGAATATTATTTCCCTGATGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGACAGCGAATCTTATTTCCCTGATGTTGCA
*
58929163 GTGGAATAGATTAAAGCTACAAATTATGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
66 GTGGAACAGATTAAAGCTACAAATTATGG-AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
58929228 TGAAGCCATCAGCCTTATCTCCTTGGAGTTGTAGTGGAGTAAACTGAATATAGTGAATCTCATTT
130 TGAAGCCACCAGCCTTATCTCCCTGGAGTTGCAGTGGAGTAGACTGAAGATAGTGAATCTCATTT
* * *
58929293 CTCTAAAGTTGCAGTGGAGCAAATTAAAGCTACAA
195 CTCTGAAGTTGCAGTGGAACAAATTGAAGCTACAA
58929328 GTTACGGATC
Statistics
Matches: 446, Mismatches: 68, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
285 2 0.00
286 443 0.99
287 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (285 bp):
CTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGACAGCGAATCTTATTTCCCTGATGTTGCA
GTGGAACAGATTAAAGCTACAAATTATGGAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATT
GAAGCCACCAGCCTTATCTCCCTGGAGTTGCAGTGGAGTAGACTGAAGATAGTGAATCTCATTTC
TCTGAAGTTGCAGTGGAACAAATTGAAGCTACAAATTAAGGCAGATCTTATCTTCCTAAAGTTGC
AATGGAGCAGATTGAAGCCACCAAC
Found at i:58929163 original size:45 final size:44
Alignment explanation
Indices: 58929055--58929179 Score: 142
Period size: 45 Copynumber: 2.8 Consensus size: 44
58929045 GTGGCGGATT
* * * *
58929055 TTATCTTCCTGAAGTTGCAATGGAGTAGATTGAAGCCACCAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCAACCAACA
* * *
58929099 TTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGACAACGAATA
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-CAACCAACA
* * * *
58929144 TTATTTCCCTGATGTTGCAGTGGAATAGATTAAAGC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC
58929180 TACAAATTAT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 33 0.49
45 35 0.51
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCAACCAACA
Found at i:58929396 original size:15 final size:15
Alignment explanation
Indices: 58929376--58929409 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
58929366 GCCAAAGTCA
58929376 TAAACCTTATCTTCC
1 TAAACCTTATCTTCC
58929391 TAAACCTTATCTTCC
1 TAAACCTTATCTTCC
58929406 TAAA
1 TAAA
58929410 GTTGCAACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAACCTTATCTTCC
Found at i:58930417 original size:13 final size:13
Alignment explanation
Indices: 58930401--58930425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58930391 ATTTCTTTAG
58930401 TATTTTATTTACT
1 TATTTTATTTACT
58930414 TATTTTATTTAC
1 TATTTTATTTAC
58930426 ATTTATACTC
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTTACT
Found at i:58937440 original size:3 final size:3
Alignment explanation
Indices: 58937432--58937456 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
58937422 GCATGAATGT
58937432 GTA GTA GTA GTA GTA GTA GTA GTA G
1 GTA GTA GTA GTA GTA GTA GTA GTA G
58937457 AGTCTAGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GTA
Found at i:58940531 original size:11 final size:11
Alignment explanation
Indices: 58940515--58940539 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58940505 AGAACATGTG
58940515 AAAAATAAAAA
1 AAAAATAAAAA
58940526 AAAAATAAAAA
1 AAAAATAAAAA
58940537 AAA
1 AAA
58940540 TAAAGAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:58947235 original size:95 final size:93
Alignment explanation
Indices: 58947072--58947264 Score: 359
Period size: 95 Copynumber: 2.1 Consensus size: 93
58947062 ATAGATAATA
58947072 TAAATGGAAAGATCAGATAATATCATAAATCATAAACAATATTGAAATTACTTTTTAAACCATTT
1 TAAATGGAAAGATCAGATAATATCATAAATCATAAACAATATTGAAATTACTTTTTAAACCATTT
58947137 TTAATGTTGATTTTAACACTTCTCACTATT
66 TTAATGTTGATTTTAACAC-T-TCACTATT
*
58947167 TAAATGGAAAGATTAGATAATATCATAAATCATAAACAATATTGAAATTACTTTTTAAACCATTT
1 TAAATGGAAAGATCAGATAATATCATAAATCATAAACAATATTGAAATTACTTTTTAAACCATTT
58947232 TTAATGTTGATTTTAACACTTCACTATT
66 TTAATGTTGATTTTAACACTTCACTATT
58947260 TAAAT
1 TAAAT
58947265 TACACACACA
Statistics
Matches: 97, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
93 13 0.13
94 1 0.01
95 83 0.86
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.39
Consensus pattern (93 bp):
TAAATGGAAAGATCAGATAATATCATAAATCATAAACAATATTGAAATTACTTTTTAAACCATTT
TTAATGTTGATTTTAACACTTCACTATT
Found at i:58966464 original size:27 final size:27
Alignment explanation
Indices: 58966434--58966638 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
58966424 ATATTAAGTC
* * *
58966434 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
58966461 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
58966489 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
58966516 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
58966543 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
58966570 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
*
58966597 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
58966624 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58966639 GTACAATTTA
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
27 132 0.84
28 26 0.16
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:58975310 original size:37 final size:37
Alignment explanation
Indices: 58975251--58975359 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
58975241 AGCTCAAACG
* *
58975251 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58975288 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
58975325 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
58975360 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58975631 original size:48 final size:48
Alignment explanation
Indices: 58975505--58975689 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
58975495 GCACATCGCC
*
58975505 TACATATTTCACAGTAGCCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTC--A
* *
58975555 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCAGCTTTACCACATATACATATCTCA
* *
58975603 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
* *
58975651 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATA
58975690 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
48 81 0.65
49 2 0.02
50 42 0.34
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
Found at i:58975694 original size:98 final size:98
Alignment explanation
Indices: 58975505--58975688 Score: 293
Period size: 98 Copynumber: 1.9 Consensus size: 98
58975495 GCACATCGCC
*
58975505 TACATATTTCACAGTAGCCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACAGTAGCCATTCAGCTTTACCACATATACATATCTCATACATATATTTCACATT
58975570 GACCATTCAGCTTTACCACATATGCATATCTCA
66 GACCATTCAGCTTTACCACATATGCATATCTCA
* * *
58975603 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACAT-T-TTTCACATT
1 TACATATTTCACAGTAGCCATTCAGCTTTACCACATATACATATCTCATACATATATTTCACATT
*
58975666 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCAGCTTTACCACATAT
58975689 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 29 0.36
97 1 0.01
98 49 0.61
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (98 bp):
TACATATTTCACAGTAGCCATTCAGCTTTACCACATATACATATCTCATACATATATTTCACATT
GACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:58975738 original size:47 final size:47
Alignment explanation
Indices: 58975611--58975852 Score: 290
Period size: 47 Copynumber: 5.1 Consensus size: 47
58975601 CATACATATT
* * * * **
58975611 TCACATTAGCCATTCGGCTTTACCACATATA--CATTTCTCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACATTCA
* * * *
58975659 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
58975706 CCACATTGGCCATTCGGCCTTATCACACATATGCGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58975753 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
58975800 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58975847 TCACAT
1 TCACAT
58975853 AAAATCCTAA
Statistics
Matches: 173, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
47 136 0.79
48 31 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:58975779 original size:22 final size:22
Alignment explanation
Indices: 58975752--58975823 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
58975742 GCTCACATTC
58975752 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
58975774 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
58975798 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58975821 ATC
1 ATC
58975824 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58975853 original size:25 final size:25
Alignment explanation
Indices: 58975774--58975853 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
58975764 ATTCGGCCTT
**
58975774 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
58975799 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
58975821 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
58975846 ATCACATA
1 ATCACATA
58975854 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:58985295 original size:46 final size:46
Alignment explanation
Indices: 58985227--58985401 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
58985217 TCTCTGTCGA
* **
58985227 GGCCGATGCATGTCCCAGACATGTCTTACTTTGGCACTCATAATAT
1 GGCCGAAGCATGTCCCAGACATGTCTTACACTGGCACTCATAATAT
* * * * * * *
58985273 GGCTGAAGCATGTCCCAAACATGTCTTACAGTAGCCCTCGT-TTGGAT
1 GGCCGAAGCATGTCCCAGACATGTCTTACACTGGCACTCATAAT--AT
* * *
58985320 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT
1 GGCCGAAG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATAT
58985367 GGCCGAAGCATGTCCCAGACATGTCTTACACTGGC
1 GGCCGAAGCATGTCCCAGACATGTCTTACACTGGC
58985402 GCACAAATCA
Statistics
Matches: 104, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 51 0.49
47 30 0.29
48 21 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (46 bp):
GGCCGAAGCATGTCCCAGACATGTCTTACACTGGCACTCATAATAT
Found at i:58985378 original size:94 final size:92
Alignment explanation
Indices: 58985228--58985396 Score: 266
Period size: 94 Copynumber: 1.8 Consensus size: 92
58985218 CTCTGTCGAG
** *
58985228 GCCGATGCATGTCCCAGACATGTCTTACTTTGGCACTCATAATATGGCTGAAGCATGTCCCAAAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCCGAAGCATGTCCCAAAC
58985293 ATGTCTTACAGTAGCCCTCGTTTGGAT
66 ATGTCTTACAGTAGCCCTCGTTTGGAT
* * *
58985320 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATATGGCCGAAGCATGTCCCAA
58985385 ACATGTCTTACA
64 ACATGTCTTACA
58985397 CTGGCGCACA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 48 0.70
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCCGAAGCATGTCCCAAAC
ATGTCTTACAGTAGCCCTCGTTTGGAT
Found at i:58986133 original size:12 final size:12
Alignment explanation
Indices: 58986116--58986140 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58986106 TAAAAATGTA
58986116 AAAATCATCAAG
1 AAAATCATCAAG
58986128 AAAATCATCAAG
1 AAAATCATCAAG
58986140 A
1 A
58986141 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:58991952 original size:131 final size:131
Alignment explanation
Indices: 58991718--58992043 Score: 643
Period size: 131 Copynumber: 2.5 Consensus size: 131
58991708 GGAAATGCCC
58991718 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAAT
1 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAAT
58991783 GATAGCTAGGCTTTTAGGCATTGTTTTATCACCAAATCATGACATCATCCACCTAATACTTTGAC
66 GATAGCTAGGCTTTTAGGCATTGTTTTATCACCAAATCATGACATCATCCACCTAATACTTTGAC
58991848 T
131 T
58991849 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAAT
1 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAAT
58991914 GATAGCTAGGCTTTTAGGCATTGTTTTATCACCAAATCATGACATCATCCACCTAATACTTTGAC
66 GATAGCTAGGCTTTTAGGCATTGTTTTATCACCAAATCATGACATCATCCACCTAATACTTTGAC
58991979 T
131 T
*
58991980 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTTCCCTTTAAAA
1 ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAA
58992044 GCCCTCAATT
Statistics
Matches: 194, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 194 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (131 bp):
ATTTGTTTAAAATTCATCACATGGCCGGCCAACACTATTAAAAGGGTGTAATTGCCCTTTAAAAT
GATAGCTAGGCTTTTAGGCATTGTTTTATCACCAAATCATGACATCATCCACCTAATACTTTGAC
T
Found at i:59000072 original size:14 final size:15
Alignment explanation
Indices: 59000036--59000073 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
59000026 TTTTAAAAGG
59000036 AAAACAAATGAATCTT
1 AAAA-AAATGAATCTT
59000052 AAAAAAATGAATCTT
1 AAAAAAATGAATCTT
59000067 AAAAAAA
1 AAAAAAA
59000074 AACTTAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (15 bp):
AAAAAAATGAATCTT
Found at i:59004595 original size:19 final size:19
Alignment explanation
Indices: 59004561--59004599 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
59004551 GATTTTGTAC
*
59004561 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
59004581 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
59004599 T
1 T
59004600 CTTTTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:59019151 original size:33 final size:33
Alignment explanation
Indices: 59019109--59019197 Score: 142
Period size: 33 Copynumber: 2.7 Consensus size: 33
59019099 TAATCATATA
*
59019109 ACACCAACCATTAAGCATTAAAGTGCCAAAAGC
1 ACACCAACCATTAAGCATCAAAGTGCCAAAAGC
59019142 ACACCAACCATTAAGCATCAAAGTGCCAAAAGC
1 ACACCAACCATTAAGCATCAAAGTGCCAAAAGC
* *
59019175 ACATCAACCATCAAGGCATCAAA
1 ACACCAACCATTAA-GCATCAAA
59019198 ATAACATAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 44 0.85
34 8 0.15
ACGTcount: A:0.46, C:0.29, G:0.11, T:0.13
Consensus pattern (33 bp):
ACACCAACCATTAAGCATCAAAGTGCCAAAAGC
Found at i:59023115 original size:49 final size:50
Alignment explanation
Indices: 59023044--59023169 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
59023034 TCAAGTTGAT
* * **
59023044 GCCATGTCCTAGAGAT-AGTCTTACACTAACTATCA-AAATTGAGGCCGAC
1 GCCATGTCCCAGACATGA-TCTTACACTAACTATCACAAATCCAGGCCGAC
* * * * *
59023093 GCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCCATGCCGAT
1 GCCATGTCCCAGACATGATCTTACACTAACTATCACAAATCCAGGCCGAC
*
59023143 GCCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGATCTTACACT
59023170 GACACCTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 29 0.45
50 36 0.55
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGATCTTACACTAACTATCACAAATCCAGGCCGAC
Found at i:59023207 original size:48 final size:46
Alignment explanation
Indices: 59022990--59023307 Score: 200
Period size: 48 Copynumber: 6.7 Consensus size: 46
59022980 TAGGGTATAA
* * * *
59022990 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGC-TCATCCATCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCAT--ATCG
* ** * * * * * * *
59023037 AGTTGATGCCATGTCCTAGAGATAGTCTTACACTAACTATCAAAATTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-CCATATCG
* * * * * *
59023085 AGGCCGACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCCA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACAC-CATAT-CG
*
59023136 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTTTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACC-ATAT-CG
*
59023184 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACA-CATCTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCATATCG
* * * *
59023229 TAGCTGATG-CATGTCCCAGATAT-GTCTTACACTGGCTTA-CATCTCG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACCATATCG
* *
59023275 AGGCCGATG-CATGTCCCGGACAT-GTCTTACACT
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACT
59023308 AGCTCTCATC
Statistics
Matches: 212, Mismatches: 46, Indels: 27
0.74 0.16 0.09
Matches are distributed among these distances:
44 12 0.06
45 16 0.08
46 44 0.21
47 30 0.14
48 46 0.22
49 28 0.13
50 35 0.17
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCATATCG
Found at i:59023272 original size:46 final size:46
Alignment explanation
Indices: 59023095--59023400 Score: 225
Period size: 46 Copynumber: 6.5 Consensus size: 46
59023085 AGGCCGACGC
* *
59023095 CATGTCCCAGACATGATCTTACACTAGCTCTCACATATC-CATGCCGATG
1 CATGTCCCAGACATG-TCTTACACTAGCTCT--CATCTCGTA-GCCGATG
* * *
59023144 CCATGTCCCAGACATGGTCTTACACT-GACACCTTTAT-ACGT-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAG-C-TC-TCATCTCGTAGCCGATG
* * *
59023192 CCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCGTAGCCGATG
* *
59023238 CATGTCCCAGATATGTCTTACACTGGCT-TACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGTA-GCCGATG
* ** **
59023284 CATGTCCCGGACATGTCTTACACTAGCTCTCATCTCAAAGTAGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAGCCGATG
* * * * *
59023330 CCATGTCCCAGAAAAGGTCTTACACTAGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAG-ACATGTCTTACACTAGCTCTCAT-CTCGTAGCCGATG
59023378 CATGTCCCAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
59023401 AAGTACACAA
Statistics
Matches: 209, Mismatches: 31, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
44 12 0.06
45 19 0.09
46 66 0.32
47 21 0.10
48 59 0.28
49 3 0.01
50 26 0.12
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGTAGCCGATG
Found at i:59023379 original size:94 final size:92
Alignment explanation
Indices: 59022995--59023400 Score: 294
Period size: 94 Copynumber: 4.3 Consensus size: 92
59022985 TATAATGCCA
* *
59022995 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGTTGATGCCATGTCCTAGAGA
1 ATGCCATGTCCCAGACAT-GTCTTACACTGTCTCATCTCA--AAG-TGATGCCATGTCCCAGA-A
* * * *
59023059 TA-GTCTTACACTAACTATCAAAATTGAGGCCG
61 AAGGTCTTACACTAGCTCTCATAA-TGAGGCCG
* * * * *
59023091 ACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCCATGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATG-TCTTACACT-G-TCT--CATCTCAAAG-TGATGCCATGTCCCAGA
* * * * *
59023156 CATGGTCTTACACT-GACAC-CTTTAT-ACGTGCCG
60 AAAGGTCTTACACTAG-CTCTCATAATGA-G-GCCG
* * ** * *
59023189 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCTGATG-CATGTCCCAG-ATAT
1 ATGCCATGTCCCAGACAT-GTCTTACACTGTCTCATCTCAAAG-TGATGCCATGTCCCAGAAAAG
* *
59023252 GTCTTACACTGGCT-TACAT-CTCGAGGCCG
64 GTCTTACACTAGCTCT-CATAAT-GAGGCCG
*
59023281 ATG-CATGTCCCGGACATGTCTTACACTAGCTCTCATCTCAAAGTAGATGCCATGTCCCAGAAAA
1 ATGCCATGTCCCAGACATGTCTTACACT-G-TCTCATCTCAAAGT-GATGCCATGTCCCAGAAAA
* *
59023345 GGTCTTACACTAGCTCTCATAATGTGGCCA
63 GGTCTTACACTAGCTCTCATAATGAGGCCG
59023375 ATG-CATGTCCCAGACATGTCTTACAC
1 ATGCCATGTCCCAGACATGTCTTACAC
59023401 AAGTACACAA
Statistics
Matches: 243, Mismatches: 44, Indels: 48
0.73 0.13 0.14
Matches are distributed among these distances:
90 10 0.04
91 15 0.06
92 32 0.13
93 24 0.10
94 60 0.25
95 3 0.01
96 28 0.12
97 4 0.02
98 34 0.14
99 29 0.12
100 3 0.01
101 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGTCTTACACTGTCTCATCTCAAAGTGATGCCATGTCCCAGAAAAGGT
CTTACACTAGCTCTCATAATGAGGCCG
Found at i:59024055 original size:22 final size:22
Alignment explanation
Indices: 59024030--59024075 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
59024020 CTAATCCATG
59024030 ATAAATCCCTAGAATATCAACC
1 ATAAATCCCTAGAATATCAACC
*
59024052 ATAAATCCCTAGACTATCAACC
1 ATAAATCCCTAGAATATCAACC
59024074 AT
1 AT
59024076 TTTGCAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.28, G:0.04, T:0.24
Consensus pattern (22 bp):
ATAAATCCCTAGAATATCAACC
Found at i:59032596 original size:49 final size:47
Alignment explanation
Indices: 59032499--59032819 Score: 491
Period size: 47 Copynumber: 6.7 Consensus size: 47
59032489 TTAGGATTCT
* * *
59032499 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
59032546 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
59032595 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59032642 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
59032691 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
59032738 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
59032785 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59032820 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 162 0.63
49 93 0.36
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:59032628 original size:96 final size:96
Alignment explanation
Indices: 59032499--59032819 Score: 513
Period size: 96 Copynumber: 3.4 Consensus size: 96
59032489 TTAGGATTCT
* * *
59032499 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
59032563 GTGTATATACATGTGATAAGGCCTAATGGCCG
65 GTGTATATACATGTGATAAGGCCTAATGGCCG
59032595 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59032660 TGTATATACATGTGATAAGGCCTAATGGCCG
66 TGTATATACATGTGATAAGGCCTAATGGCCG
59032691 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * *
59032756 TGTATAT--ATGTGACAGGGCCGAGTGGCCA
66 TGTATATACATGTGATAAGGCCTAATGGCCG
* * *
59032785 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59032820 TCCCGAAGGG
Statistics
Matches: 213, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 49 0.23
95 1 0.00
96 163 0.77
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATACATGTGATAAGGCCTAATGGCCG
Found at i:59032988 original size:37 final size:37
Alignment explanation
Indices: 59032938--59033090 Score: 261
Period size: 37 Copynumber: 4.1 Consensus size: 37
59032928 CCGAGCTCTA
59032938 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
59032975 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
59033012 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* ** * *
59033049 AAGACCCGATAACTTTGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
59033086 AAGAC
1 AAGAC
59033091 TTCGTAATAA
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 111 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:59035477 original size:50 final size:48
Alignment explanation
Indices: 59035354--59035574 Score: 163
Period size: 48 Copynumber: 4.6 Consensus size: 48
59035344 CCATCAAGTT
* * ** * *
59035354 GATGCCATGTCTCAGACATGGTCTTACACTGACTATCGAC-ATTGAGGCG
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-A-CCACTATACATGCC
* * * *
59035403 GACGTCATGTTCCAGACATGGTCTTACACT-AGCTCTCAC-ATATCTATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CACTATA-C-ATGCC
* * * *
59035453 GATGCCATGTCCCAGAAATGGTCTTACACTGACACCTCTATACGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACCACTATACATGCC
* *
59035501 GATGCCATGTCCCAGACATGGTCTTACACTGACA-CATCTA-GCA-ACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACCA-CTATACATGCC
*
59035547 GATG-CATGTCCTAGA-AT-GTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
59035575 GCCTACATCT
Statistics
Matches: 140, Mismatches: 25, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
43 11 0.08
44 2 0.01
45 10 0.07
46 5 0.04
47 3 0.02
48 44 0.31
49 30 0.21
50 34 0.24
51 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACCACTATACATGCC
Found at i:59035583 original size:45 final size:44
Alignment explanation
Indices: 59035451--59035612 Score: 148
Period size: 48 Copynumber: 3.5 Consensus size: 44
59035441 CATATCTATG
* * * * *
59035451 CCGATGCCATGTCCCAGAAATGGTCTTACACTGACACCTCTATACGTG
1 CCGATG-CATGTCCTAGACAT-GTCTTACACTGACACATCTAGA-G-A
* *
59035499 TCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAGCA-A
1 CCGATG-CATGTCCTAGACAT-GTCTTACACTGACACATCTAG-AGA
* *
59035545 CCGATGCATGTCCTAGA-ATGTCTTACACTGGCCTACATCTCGAGA
1 CCGATGCATGTCCTAGACATGTCTTACACT-GAC-ACATCTAGAGA
59035590 CCGATGCATGTCCTAGACATGTC
1 CCGATGCATGTCCTAGACATGTC
59035613 CCAGATAGAG
Statistics
Matches: 100, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
43 10 0.10
44 5 0.05
45 35 0.35
46 10 0.10
48 39 0.39
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (44 bp):
CCGATGCATGTCCTAGACATGTCTTACACTGACACATCTAGAGA
Found at i:59045032 original size:26 final size:26
Alignment explanation
Indices: 59044954--59045040 Score: 61
Period size: 26 Copynumber: 3.4 Consensus size: 26
59044944 TTTAAACCAA
**
59044954 ACTTTTCAAAAGA-ACTTCCCAAAAGC
1 ACTTTTCAAAA-ACACTTTTCAAAAGC
** * * * * *
59044980 ACTTCCCAAGAGCACTATTCCACAGC
1 ACTTTTCAAAAACACTTTTCAAAAGC
59045006 ACTTTTCAAAAACACTTTTCAAAAGC
1 ACTTTTCAAAAACACTTTTCAAAAGC
*
59045032 A-TTGTCAAA
1 ACTTTTCAAA
59045041 CTAGCCCTTC
Statistics
Matches: 43, Mismatches: 17, Indels: 3
0.68 0.27 0.05
Matches are distributed among these distances:
25 7 0.16
26 36 0.84
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (26 bp):
ACTTTTCAAAAACACTTTTCAAAAGC
Found at i:59048104 original size:23 final size:24
Alignment explanation
Indices: 59048072--59048118 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
59048062 ACTACCATTT
59048072 TCTAAATAAAATAATAATA-AATA
1 TCTAAATAAAATAATAATACAATA
* *
59048095 TCTAAGTAAAATATTAATACAATA
1 TCTAAATAAAATAATAATACAATA
59048119 ATTTTTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (24 bp):
TCTAAATAAAATAATAATACAATA
Found at i:59057569 original size:25 final size:25
Alignment explanation
Indices: 59057535--59057585 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
59057525 CATTGCTTAG
*
59057535 AGCCCAAGCATTTGAATGTGAGTTA
1 AGCCCAAGCATTTGAATATGAGTTA
59057560 AGCCCAAGCATTTGAATATGAGTTA
1 AGCCCAAGCATTTGAATATGAGTTA
59057585 A
1 A
59057586 CTTGTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (25 bp):
AGCCCAAGCATTTGAATATGAGTTA
Found at i:59060501 original size:27 final size:26
Alignment explanation
Indices: 59060467--59060521 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
59060457 TTACATTATA
*
59060467 ATTTTTAATTTAATATT-GTATAGTTT
1 ATTTTTAAATTAATATTAGTAT-GTTT
*
59060493 ATTTATTAAATTAATTTTAGTATGTTT
1 ATTT-TTAAATTAATATTAGTATGTTT
59060520 AT
1 AT
59060522 AAGATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.16
27 17 0.68
28 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTTTTAAATTAATATTAGTATGTTT
Found at i:59063883 original size:34 final size:33
Alignment explanation
Indices: 59063845--59063919 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
59063835 GAAAAATACG
* * *
59063845 GTAGCATTCAATATGCTTATAACAAATCGATTCA
1 GTAGCAAT-AATATGCTTATAACAAATCAACTCA
* *
59063879 GTAGCAAATAATATGCTTATAATAGATCAACTCA
1 GTAGC-AATAATATGCTTATAACAAATCAACTCA
59063913 GTAGCAA
1 GTAGCAA
59063920 AAGTCATTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 2 0.06
34 31 0.89
35 2 0.06
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.29
Consensus pattern (33 bp):
GTAGCAATAATATGCTTATAACAAATCAACTCA
Found at i:59063920 original size:34 final size:34
Alignment explanation
Indices: 59063854--59063920 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
59063844 GGTAGCATTC
* *
59063854 AATATGCTTATAACAAATCGATTCAGTAGCAAAT
1 AATATGCTTATAACAAATCAACTCAGTAGCAAAT
* *
59063888 AATATGCTTATAATAGATCAACTCAGTAGCAAA
1 AATATGCTTATAACAAATCAACTCAGTAGCAAA
59063921 AGTCATTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (34 bp):
AATATGCTTATAACAAATCAACTCAGTAGCAAAT
Found at i:59072849 original size:55 final size:54
Alignment explanation
Indices: 59072735--59072855 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 54
59072725 TACCCTTCAG
* **
59072735 CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACTTGTGCTGCCTGT
1 CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACGTGTGC-GCCTAC
* * * *
59072790 CCGTGGACAACACTGTCTTTTTAACACGGCCATGGTGCACACCCGTGTG-GCCTAC
1 CCGTGGACAACACTGACTTATCAACACGGCCAT-G-GCACACACGTGTGCGCCTAC
*
59072845 CCGTGTACAAC
1 CCGTGGACAAC
59072856 TTTGAGCTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
55 44 0.79
56 1 0.02
57 11 0.20
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (54 bp):
CCGTGGACAACACTGACTTATCAACACGGCCATGGCACACACGTGTGCGCCTAC
Found at i:59078745 original size:14 final size:14
Alignment explanation
Indices: 59078712--59078753 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
59078702 AATTGTGTCT
*
59078712 TTTAATGTT-TATA
1 TTTAATATTATATA
59078725 TTATAATATTATATA
1 TT-TAATATTATATA
*
59078740 TTTAATTTTATATA
1 TTTAATATTATATA
59078754 AATTACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 17 0.68
15 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTAATATTATATA
Found at i:59087169 original size:13 final size:13
Alignment explanation
Indices: 59087151--59087189 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
59087141 GTTTTCTATC
*
59087151 TTAATTATTTATT
1 TTAATTTTTTATT
*
59087164 TTAATTTTTTCCTT
1 TTAATTTTTT-ATT
59087178 TTAATTTTTTAT
1 TTAATTTTTTAT
59087190 CTGACTTGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (13 bp):
TTAATTTTTTATT
Found at i:59089628 original size:48 final size:48
Alignment explanation
Indices: 59089477--59089700 Score: 179
Period size: 48 Copynumber: 4.7 Consensus size: 48
59089467 GGGTGAATTA
* * * * * *
59089477 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACACGT-CGA-GG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-TTAC-ATTG
* * * * *
59089525 CTGATGTCATGTCCCAGATATGGTCTTACACTAGCTCTCGTCT-CAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-TACATTG
* *
59089573 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATTACATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTACATTG
* * * * *
59089621 CCGATGCCATGTTCCA-ACCATGGTCTTACATTGGCTCTCA-TATCGTGG
1 CCGATGCCATGTCCCAGA-CATGGTCTTACACTAGCTCTCATTA-CATTG
* * *
59089669 CCGATGCCATATCCCAGGCATGGTGTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
59089701 GGCACACATA
Statistics
Matches: 141, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
47 5 0.04
48 136 0.96
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTACATTG
Found at i:59089711 original size:48 final size:48
Alignment explanation
Indices: 59089620--59089712 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
59089610 TTATTACATT
* * * * *
59089620 GCCGATGCCATGTTCCAACCATGGTCTTACATTGGCTCTCATATCGTG
1 GCCGATGCCATATCCCAACCATGGTCTTACACTGGCACACATATCGTG
** *
59089668 GCCGATGCCATATCCCAGGCATGGTGTTACACTGGCACACATATC
1 GCCGATGCCATATCCCAACCATGGTCTTACACTGGCACACATATC
59089713 ACCCAAATGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATATCCCAACCATGGTCTTACACTGGCACACATATCGTG
Found at i:59097188 original size:48 final size:48
Alignment explanation
Indices: 59097121--59097399 Score: 224
Period size: 48 Copynumber: 5.8 Consensus size: 48
59097111 GTGAATTACT
** * * *
59097121 GATGCCATGTTTCAAACATGGTCTTACACTGGCTCACATGTCTAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCTATGCC
* * * * * * *
59097169 GATGTCATGTCCCAGACATGGTCTTGCACTAGCTCTCGTCTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCTATGCC
* * * * *
59097217 GATCCCATGTCCTAGACATGGTCTTACACTGGCTCTCACCT-TAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCT-ATGCC
* * * ** *
59097265 TATGTCATGTCCCAAACATGGTCTTACACTGGCTCGTAT-TAC-ATTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCT-CTA-TGCC
* * * * *
59097313 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGT-GGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-TATGCC
* *
59097361 GATGCCATGTCCAAGACATGGTCTTACACTGGCACACAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
59097400 ATCACCCAAA
Statistics
Matches: 180, Mismatches: 44, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
47 2 0.01
48 177 0.98
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCTATGCC
Found at i:59097370 original size:96 final size:92
Alignment explanation
Indices: 59097119--59097393 Score: 286
Period size: 96 Copynumber: 2.9 Consensus size: 92
59097109 GGGTGAATTA
* *
59097119 CTGATGCCATGTTTCAAACATGGTCTTACACTGGCTCACATGTCTAGGCCGATGTCATGTCCCAG
1 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT-TCT-GGCCGATGTCATGTCCCAA
* *
59097184 ACATGGTCTTGCACTAGCTCTCGTCTCAATG
64 ACATGGTCTTACACT-G-GCTCGTCTCAATG
* * * * * *
59097215 CTGATCCCATG-TCCTAGACATGGTCTTACACTGGCTCTCACCTTAAT-ACCTATGTCATGTCCC
1 CTGATGCCATGTTCC-AAACATGGTCTTACACTGG--CTCACATT-CTGGCCGATGTCATGTCCC
* *
59097278 AAACATGGTCTTACACTGGCTCGTATTACATTG
62 AAACATGGTCTTACACTGGCTCGT-CT-CAATG
* *
59097311 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGTGGTCGATGCCATGT-CCAA
1 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT-TC-TGGCCGATGTCATGTCCCAA
59097375 GACATGGTCTTACACTGGC
64 -ACATGGTCTTACACTGGC
59097394 ACACATATCA
Statistics
Matches: 148, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
94 11 0.07
95 10 0.07
96 116 0.78
97 4 0.03
98 7 0.05
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.30
Consensus pattern (92 bp):
CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATTCTGGCCGATGTCATGTCCCAAAC
ATGGTCTTACACTGGCTCGTCTCAATG
Found at i:59103419 original size:25 final size:25
Alignment explanation
Indices: 59103386--59103435 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
59103376 ATGTAAAAGG
*
59103386 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
59103411 GGGTTGCTAAGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
59103436 TTCATTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:59103627 original size:26 final size:26
Alignment explanation
Indices: 59103592--59103643 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
59103582 AATGTGAAAG
*
59103592 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
59103618 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
59103644 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:59103661 original size:103 final size:103
Alignment explanation
Indices: 59103307--59103675 Score: 616
Period size: 103 Copynumber: 3.6 Consensus size: 103
59103297 TTGTATATAA
** *
59103307 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
*
59103372 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
59103410 A-GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
59103474 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATT-CCCCG
*
59103514 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
59103578 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
** *
59103617 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
59103676 ATAACGGTTA
Statistics
Matches: 252, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
102 69 0.27
103 84 0.33
104 30 0.12
105 68 0.27
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:59115088 original size:128 final size:128
Alignment explanation
Indices: 59114860--59115118 Score: 367
Period size: 128 Copynumber: 2.0 Consensus size: 128
59114850 AATTGATTCC
* * * * * *
59114860 AGAGGTAGTCCTTGTCCAACTCCAACACTAATAAAAAATTCACATTGATGGGCATTTTGGGCAAA
1 AGAGGTAGTCCTTGTCCAACTCCAACACCAATAAAAAATACACACTAAAGGGCATTTTGGACAAA
* * *
59114925 ATTTTTGGGTTGTAATCAGAACAAAAAGCCTTCTTTTGGTTGAGAGAAAGAAAAAATTGACTGT
66 ATTTTTGGGTTGTAATCAAAACAAAAAGCCTTCTTTTGGTTGAGAAAAAGAAAAAATT-ACTCT
* * * *
59114989 AGAGGTAGTTCTTGTCCAACTCCAACACCAAT-AAAAATACACACTAAAGGGTATTTTGTACACA
1 AGAGGTAGTCCTTGTCCAACTCCAACACCAATAAAAAATACACACTAAAGGGCATTTTGGACAAA
* *
59115053 ATTTTTGGGTTGTAATCAAAATAAAAAGGCTTCTTTTGGTTGAGAAAAAGAAAAAATTACTCT
66 ATTTTTGGGTTGTAATCAAAACAAAAAGCCTTCTTTTGGTTGAGAAAAAGAAAAAATTACTCT
59115116 AGA
1 AGA
59115119 TTATTCAACT
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
127 7 0.06
128 78 0.68
129 30 0.26
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (128 bp):
AGAGGTAGTCCTTGTCCAACTCCAACACCAATAAAAAATACACACTAAAGGGCATTTTGGACAAA
ATTTTTGGGTTGTAATCAAAACAAAAAGCCTTCTTTTGGTTGAGAAAAAGAAAAAATTACTCT
Found at i:59119397 original size:46 final size:46
Alignment explanation
Indices: 59119251--59119554 Score: 210
Period size: 46 Copynumber: 6.5 Consensus size: 46
59119241 TGTGTACTAA
* * *
59119251 TGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATG-AGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCCAG
* * * * *
59119297 TGTAAGACTATGTCTGGGACATAGCATCGGCATTGAAACG-AGAGCTAG
1 TGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCCAG
*
59119345 TATAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAG
* * *
59119391 TGTAAGACATGTCTAGGACATGCATCGG-CTACAAGATGT--GTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCCAG
* * * *
59119435 TGTAAGACCATGTTTGGGACATGTCATCGG-CACGGGTATGTTAAAGTCAG
1 TGTAAGA-CATGTCTGGGACATG-CATCGGCCTCGAG-ATG-T-AAGCCAG
* * * ** *
59119485 TGTAAGATCATGTTTGGGACATGGCATC-GACTTGACTTGTGAGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCCAG
* *
59119532 TGTAAGATCGTGTCTGGAACATG
1 TGTAAGA-CATGTCTGGGACATG
59119555 GAATTGGTAT
Statistics
Matches: 211, Mismatches: 33, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
44 11 0.05
45 17 0.08
46 70 0.33
47 52 0.25
48 24 0.11
49 4 0.02
50 32 0.15
51 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAG
Found at i:59129969 original size:43 final size:43
Alignment explanation
Indices: 59129920--59130070 Score: 180
Period size: 43 Copynumber: 3.5 Consensus size: 43
59129910 TATCCCAGAT
* *
59129920 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAAC
* *** *
59129963 AGGGTCTTACACAAAATCGA-ATAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATC-ACATATCGATGCCAATGTCCCAAAC
* * *
59130006 ATGGTCCTACATGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAAAC
59130049 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
59130071 CTCGGTAACC
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
42 2 0.02
43 85 0.97
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAAAC
Found at i:59131960 original size:12 final size:12
Alignment explanation
Indices: 59131939--59131979 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
59131929 ATTATTTTCA
*
59131939 TATTAGTTGTTT
1 TATTATTTGTTT
59131951 TATTATTTGTTT
1 TATTATTTGTTT
59131963 TATTATTT-TTAT
1 TATTATTTGTT-T
59131975 TATTA
1 TATTA
59131980 ATGTTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 2 0.07
12 25 0.93
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (12 bp):
TATTATTTGTTT
Found at i:59131974 original size:21 final size:20
Alignment explanation
Indices: 59131948--59131996 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
59131938 ATATTAGTTG
** *
59131948 TTTTATTATTTGTTTTATTA
1 TTTTATTATTAATGTTATTA
59131968 TTTTTATTATTAATGTTATTA
1 -TTTTATTATTAATGTTATTA
59131989 TTTTATTA
1 TTTTATTA
59131997 GTAGTAGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTATTATTAATGTTATTA
Found at i:59138718 original size:68 final size:68
Alignment explanation
Indices: 59138617--59138748 Score: 264
Period size: 68 Copynumber: 1.9 Consensus size: 68
59138607 TTTCTTTGAG
59138617 AATGTTTTTCCTTTAAAAAAATCTAACATAAGAACTGATATACAATTAGATGAGCATGCATCTTT
1 AATGTTTTTCCTTTAAAAAAATCTAACATAAGAACTGATATACAATTAGATGAGCATGCATCTTT
59138682 TTC
66 TTC
59138685 AATGTTTTTCCTTTAAAAAAATCTAACATAAGAACTGATATACAATTAGATGAGCATGCATCTT
1 AATGTTTTTCCTTTAAAAAAATCTAACATAAGAACTGATATACAATTAGATGAGCATGCATCTT
59138749 CTTCTGGTAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (68 bp):
AATGTTTTTCCTTTAAAAAAATCTAACATAAGAACTGATATACAATTAGATGAGCATGCATCTTT
TTC
Found at i:59140617 original size:21 final size:21
Alignment explanation
Indices: 59140591--59140635 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
59140581 ATTAAGAAAG
*
59140591 AAAGAGCTTGAGAGAA-AAGAA
1 AAAGAGATTGA-AGAACAAGAA
*
59140612 AAAGAGATTGAAGAACACGAA
1 AAAGAGATTGAAGAACAAGAA
59140633 AAA
1 AAA
59140636 AAAGAAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.60, C:0.07, G:0.24, T:0.09
Consensus pattern (21 bp):
AAAGAGATTGAAGAACAAGAA
Found at i:59142552 original size:21 final size:21
Alignment explanation
Indices: 59142526--59142567 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
59142516 AATTTGAGAA
59142526 GAAAAAGCCATTGTTAGGGTT
1 GAAAAAGCCATTGTTAGGGTT
*
59142547 GAAAAATCCATTGTTAGGGTT
1 GAAAAAGCCATTGTTAGGGTT
59142568 CATCCATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (21 bp):
GAAAAAGCCATTGTTAGGGTT
Found at i:59144133 original size:30 final size:30
Alignment explanation
Indices: 59144097--59144271 Score: 287
Period size: 30 Copynumber: 5.8 Consensus size: 30
59144087 ACTTTTCTCA
*
59144097 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
59144127 ACTAGCCACACCTTTTCCACCATCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
59144157 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
59144187 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
59144217 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
59144247 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
59144272 CTTGTACCTA
Statistics
Matches: 133, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 133 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:59144162 original size:60 final size:60
Alignment explanation
Indices: 59144097--59144271 Score: 323
Period size: 60 Copynumber: 2.9 Consensus size: 60
59144087 ACTTTTCTCA
* *
59144097 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCATCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
59144157 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
*
59144217 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
59144272 CTTGTACCTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 112 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.23
Consensus pattern (60 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:59144790 original size:23 final size:23
Alignment explanation
Indices: 59144753--59144884 Score: 72
Period size: 25 Copynumber: 5.5 Consensus size: 23
59144743 TTTTTTTTGT
59144753 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
59144776 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
** *
59144798 TATTAGGTATATT-TTAAATTTTA
1 TATTATATATATTCTT-AATATTA
* * *
59144821 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
59144848 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
59144873 TATTATTTATAT
1 TATTATATATAT
59144885 ATATATATAT
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
21 2 0.02
22 15 0.19
23 19 0.23
24 4 0.05
25 30 0.37
26 1 0.01
27 8 0.10
28 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:59144858 original size:25 final size:25
Alignment explanation
Indices: 59144830--59144972 Score: 94
Period size: 25 Copynumber: 5.6 Consensus size: 25
59144820 ATATTACGTA
* *
59144830 TATATATATTTTATACTATTTTATG
1 TATATATATTTAATACTATATTATG
* * *
59144855 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATG
* *
59144880 TATATATATATATATTACGTGTTATCTTATG
1 TATATATAT-T-TAATAC----TATATTATG
*
59144911 TATATAT-CTTAAT--TATATTATG
1 TATATATATTTAATACTATATTATG
* * *
59144933 TATGTATTTTTAACACTATATTATG
1 TATATATATTTAATACTATATTATG
* *
59144958 TACATATTTTTAATA
1 TATATATATTTAATA
59144973 TTATTACGTA
Statistics
Matches: 90, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
22 14 0.16
23 4 0.04
25 49 0.54
26 1 0.01
27 4 0.04
28 3 0.03
29 1 0.01
31 14 0.16
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATG
Found at i:59144986 original size:19 final size:20
Alignment explanation
Indices: 59144950--59145005 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
59144940 TTTTAACACT
59144950 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* *
59144970 ATATTAT-TACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
59144989 TTATATATGTACATATT
1 ATAT-TATGTACATATT
59145006 GATGTAGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 13 0.43
20 10 0.33
21 7 0.23
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:59145145 original size:16 final size:14
Alignment explanation
Indices: 59145126--59145159 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
59145116 TATTATTCTA
59145126 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
59145141 GATATTTTATATTTT
1 -ATATTTTATATTTT
59145156 ATAT
1 ATAT
59145160 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:59145154 original size:7 final size:8
Alignment explanation
Indices: 59145126--59145159 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
59145116 TATTATTCTA
59145126 ATATTTTG
1 ATATTTTG
59145134 ATATTTTG
1 ATATTTTG
59145142 ATATTTT-
1 ATATTTTG
59145149 ATATTTT-
1 ATATTTTG
59145156 ATAT
1 ATAT
59145160 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:59145161 original size:16 final size:15
Alignment explanation
Indices: 59145126--59145166 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
59145116 TATTATTCTA
59145126 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
59145142 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
59145158 ATATTTTAT
1 ATATTTTAT
59145167 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:59150147 original size:27 final size:27
Alignment explanation
Indices: 59150117--59150294 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
59150107 ATATTGAGCC
* *
59150117 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
59150144 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59150171 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
59150199 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
59150226 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
59150253 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
59150280 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59150295 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:59150229 original size:55 final size:54
Alignment explanation
Indices: 59150117--59150294 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
59150107 ATATTGAGCC
* * *
59150117 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
59150171 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
59150226 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
59150280 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59150295 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:59158150 original size:27 final size:27
Alignment explanation
Indices: 59158120--59158297 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
59158110 ATATTGAGCC
* *
59158120 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
59158147 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
59158174 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
59158202 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
59158229 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
59158256 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
59158283 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59158298 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Done.