Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 130 of 172
Found at i:37354170 original size:59 final size:59
Alignment explanation
Indices: 37354080--37354198 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
37354070 CCCCCCCACA
37354080 TTTCTTTCATAAATGCCTCAAACTACATTGTCTGTACTCTTGGATCCTCATTATCCATC
1 TTTCTTTCATAAATGCCTCAAACTACATTGTCTGTACTCTTGGATCCTCATTATCCATC
*
37354139 TTTCTTTCATAAATGCCTCGAACTACATTGTCTGTACTCTTGGATCCTCATTATCCATC
1 TTTCTTTCATAAATGCCTCAAACTACATTGTCTGTACTCTTGGATCCTCATTATCCATC
37354198 T
1 T
37354199 AAGTTGTGGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (59 bp):
TTTCTTTCATAAATGCCTCAAACTACATTGTCTGTACTCTTGGATCCTCATTATCCATC
Found at i:37357564 original size:21 final size:22
Alignment explanation
Indices: 37357535--37357575 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
37357525 TATTTTTAGT
*
37357535 TTTAATTTT-AATTTTTCAAAA
1 TTTAATTTTAAAATTTTCAAAA
*
37357556 TTTATTTTTAAAATTTTCAA
1 TTTAATTTTAAAATTTTCAA
37357576 CCAATCATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTAATTTTAAAATTTTCAAAA
Found at i:37378504 original size:69 final size:69
Alignment explanation
Indices: 37378424--37378562 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 69
37378414 CAGTAGTAAA
* * * * *
37378424 AACATTTGGACAGCATTGACTTGTACCAAAAATAGACAGCATTTAAGTACTAATTTGGACAACAT
1 AACATTCGGACAGCATAGACTTGTACAAAAAATAGACAGCATTGAAGTACCAATTTGGACAACAT
37378489 TAAT
66 TAAT
* *
37378493 AACATTCGGACAGCATAGATTTGTACAAAAAATGGACAGCATTGAAGTACCAATTTGGACAACAT
1 AACATTCGGACAGCATAGACTTGTACAAAAAATAGACAGCATTGAAGTACCAATTTGGACAACAT
37378558 TAAT
66 TAAT
37378562 A
1 A
37378563 TGCTAAAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (69 bp):
AACATTCGGACAGCATAGACTTGTACAAAAAATAGACAGCATTGAAGTACCAATTTGGACAACAT
TAAT
Found at i:37378666 original size:39 final size:39
Alignment explanation
Indices: 37378593--37378669 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
37378583 TTATACATGT
*
37378593 AAAACAACCACATTTGGGCAACATTATAACATGTAAAAA
1 AAAACAACCACATTTGGACAACATTATAACATGTAAAAA
* * * * *
37378632 AAAACAGCCACATTTGGATATCATTGTAATATGTAAAA
1 AAAACAACCACATTTGGACAACATTATAACATGTAAAA
37378670 CAACCACACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.25
Consensus pattern (39 bp):
AAAACAACCACATTTGGACAACATTATAACATGTAAAAA
Found at i:37386351 original size:425 final size:425
Alignment explanation
Indices: 37385561--37386410 Score: 1556
Period size: 425 Copynumber: 2.0 Consensus size: 425
37385551 CAGATTTTAA
*
37385561 CAACTAGGTTCGAAATTTTGAAAATGTTTGAAAATGAAACTATCTCTGAGTTTTATCCAAGATTG
1 CAACTAGGTTCGAAATTTTGAAAATGTTTGAAAATGAAACTATCTCTAAGTTTTATCCAAGATTG
* * * *
37385626 TGCAAGATTTCTAATAAGGCTTTTTATCTTGGTAAGCTTTTTTTGATAATAATTTGGTATGCAAA
66 TGCAAGATTTCTAATAAGGCTTTTTATCTTAGTAAGCTTTTTCTGATAATAAATTGGTATGAAAA
37385691 TATTGAGGTCTTTACCAGAACATTTCGTCATTAAAGTCACAACAATAAATGAGGTCAAAGATATT
131 TATTGAGGTCTTTACCAGAACATTTCGTCATTAAAGTCACAACAATAAATGAGGTCAAAGATATT
* *
37385756 ATGGCTCTCGAGCTAGACGAGTTAGTAGGCTCACTTCAAACCTTTAAGTTGAACATAGGGGAAGA
196 ATCGCTCTCGAGCTAGACGAGTTAGTAGGCTCACTTCAAACCTTTAAGTTGAACATAGAGGAAGA
37385821 AAAACGTGACAAAATGGGTTTGTCGAAGAACGAAATGTTCAATGCTAAAAAAGCTACCCCAAAAA
261 AAAACGTGACAAAATGGGTTTGTCGAAGAACGAAATGTTCAATGCTAAAAAAGCTACCCCAAAAA
*
37385886 CGAAATAAACAGTGGAGGATATTGATGAAATAAAAAAGCAATTAGCCTTGCTCACCAAAGGCATA
326 CGAAATAAACAGTGGAGGATATTGATGAAATAAAAAAGCAATTAGCCTTGCTCACCAAAAGCATA
37385951 AAGAGGTTCGTTAAGAAGGGAACTAAAGTAGATAG
391 AAGAGGTTCGTTAAGAAGGGAACTAAAGTAGATAG
37385986 CAACTAGGTTCGAAATTTTGAAAATGTTTGAAAATGAAACTATCTCTAAGTTTTATCCAAGATTG
1 CAACTAGGTTCGAAATTTTGAAAATGTTTGAAAATGAAACTATCTCTAAGTTTTATCCAAGATTG
37386051 TGCAAGATTTCTAATAAGGCTTTTTATCTTAGTAAGCTTTTTCTGATAATAAATTGGTATGAAAA
66 TGCAAGATTTCTAATAAGGCTTTTTATCTTAGTAAGCTTTTTCTGATAATAAATTGGTATGAAAA
* *
37386116 TGTTGAGGTCTTTACCAGAACATTTCGTCATTAAAGTCACAACAATAAATGAGGTTAAAGATATT
131 TATTGAGGTCTTTACCAGAACATTTCGTCATTAAAGTCACAACAATAAATGAGGTCAAAGATATT
37386181 ATCGCTCTCGAGCTAGACGAGTTAGTAGGCTCACTTCAAACCTTTAAGTTGAACATAGAGGAAGA
196 ATCGCTCTCGAGCTAGACGAGTTAGTAGGCTCACTTCAAACCTTTAAGTTGAACATAGAGGAAGA
* * *
37386246 AAAATGTGACAAAATGGGTTTGTCGAAGAACGAAATGTTCAATGCTAAAAAAGCTACCCTAACAA
261 AAAACGTGACAAAATGGGTTTGTCGAAGAACGAAATGTTCAATGCTAAAAAAGCTACCCCAAAAA
* *
37386311 CGAAATAAACAGTGGAGGATATTGATGAAATAAAAAAGCAATTAGCCTTGCTCACTAAAAGCATG
326 CGAAATAAACAGTGGAGGATATTGATGAAATAAAAAAGCAATTAGCCTTGCTCACCAAAAGCATA
*
37386376 AAGAGGTTCGTTAAGAAGGGAGCTAAAGTAGATAG
391 AAGAGGTTCGTTAAGAAGGGAACTAAAGTAGATAG
37386411 TGGTAATACA
Statistics
Matches: 409, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
425 409 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (425 bp):
CAACTAGGTTCGAAATTTTGAAAATGTTTGAAAATGAAACTATCTCTAAGTTTTATCCAAGATTG
TGCAAGATTTCTAATAAGGCTTTTTATCTTAGTAAGCTTTTTCTGATAATAAATTGGTATGAAAA
TATTGAGGTCTTTACCAGAACATTTCGTCATTAAAGTCACAACAATAAATGAGGTCAAAGATATT
ATCGCTCTCGAGCTAGACGAGTTAGTAGGCTCACTTCAAACCTTTAAGTTGAACATAGAGGAAGA
AAAACGTGACAAAATGGGTTTGTCGAAGAACGAAATGTTCAATGCTAAAAAAGCTACCCCAAAAA
CGAAATAAACAGTGGAGGATATTGATGAAATAAAAAAGCAATTAGCCTTGCTCACCAAAAGCATA
AAGAGGTTCGTTAAGAAGGGAACTAAAGTAGATAG
Found at i:37387015 original size:20 final size:20
Alignment explanation
Indices: 37386990--37387030 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
37386980 TTTTTCATCA
37386990 TGAGGCAGGGAATAAAAACT
1 TGAGGCAGGGAATAAAAACT
37387010 TGAGGCAGGGAATAAAAACT
1 TGAGGCAGGGAATAAAAACT
37387030 T
1 T
37387031 TAAAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.29, T:0.17
Consensus pattern (20 bp):
TGAGGCAGGGAATAAAAACT
Found at i:37391090 original size:9 final size:9
Alignment explanation
Indices: 37391076--37391133 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
37391066 GTAGTGATTC
37391076 AATTCGGCT
1 AATTCGGCT
37391085 AATTCGGCT
1 AATTCGGCT
*
37391094 AATTCGGGT
1 AATTCGGCT
* *
37391103 AATCCGGTT
1 AATTCGGCT
*
37391112 AATTCGGGT
1 AATTCGGCT
*
37391121 AATTCGGTT
1 AATTCGGCT
37391130 AATT
1 AATT
37391134 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (9 bp):
AATTCGGCT
Found at i:37391099 original size:18 final size:18
Alignment explanation
Indices: 37391076--37391133 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
37391066 GTAGTGATTC
* *
37391076 AATTCGGCTAATTCGGCT
1 AATTCGGGTAATTCGGTT
*
37391094 AATTCGGGTAATCCGGTT
1 AATTCGGGTAATTCGGTT
37391112 AATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGTT
37391130 AATT
1 AATT
37391134 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (18 bp):
AATTCGGGTAATTCGGTT
Found at i:37394964 original size:158 final size:161
Alignment explanation
Indices: 37394670--37394993 Score: 573
Period size: 158 Copynumber: 2.0 Consensus size: 161
37394660 TGTTTCATAG
*
37394670 CTAGGTATTCATAGATGATTTTTTTTGGTGATGCGAATTACTGTACAATAAGGAAAACAAAGGCT
1 CTAGGTATTCATAGATGATTTTTTTTGGTGATGCGAATTACTCTACAATAAGGAAAACAAAGGCT
*
37394735 TGGACTTGACTTGACAAAAGCTGCATATTAGGATTCTTTTGCTCGCTATTTGATTTAATCCTATA
66 TGG---TGACTTGACAAAAGCTACATATTAGGATTCTTTTGCTCGCTATTTGATTTAATCCTATA
37394800 ACCTAATCTAGCCTGGTCAAAAGATATTGCTGAT
128 ACCTAATCTAGCCTGGTCAAAAGATATTGCTGAT
37394834 CTAGGTATTCATAGATGA-TTTTTTTGGTGATGCGAATTACTCTACAATAAGGAAAACAAAGGCT
1 CTAGGTATTCATAGATGATTTTTTTTGGTGATGCGAATTACTCTACAATAAGGAAAACAAAGGCT
*
37394898 T-G-GACTTGACAAAAGCTACATATTAGGATTCTTTTGCTCGCTATTTGCTTTAATCCTATAACC
66 TGGTGACTTGACAAAAGCTACATATTAGGATTCTTTTGCTCGCTATTTGATTTAATCCTATAACC
37394961 TAATCTAGCCTGGTCAAAAGATATTGCTGAT
131 TAATCTAGCCTGGTCAAAAGATATTGCTGAT
37394992 CT
1 CT
37394994 TGTCAATGGC
Statistics
Matches: 157, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
158 92 0.59
162 1 0.01
163 46 0.29
164 18 0.11
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (161 bp):
CTAGGTATTCATAGATGATTTTTTTTGGTGATGCGAATTACTCTACAATAAGGAAAACAAAGGCT
TGGTGACTTGACAAAAGCTACATATTAGGATTCTTTTGCTCGCTATTTGATTTAATCCTATAACC
TAATCTAGCCTGGTCAAAAGATATTGCTGAT
Found at i:37400857 original size:6 final size:6
Alignment explanation
Indices: 37400846--37400872 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37400836 TCTACGGTCT
37400846 GGTTGA GGTTGA GGTTGA GGTTGA GGT
1 GGTTGA GGTTGA GGTTGA GGTTGA GGT
37400873 GAATGTGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTTGA
Found at i:37400957 original size:36 final size:37
Alignment explanation
Indices: 37400907--37400978 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 37
37400897 ATAAAGTTTC
*
37400907 GGATAACTGAGTATTGAACTTATTAT-TTCTTAGGAT
1 GGATAACTGAGTATTGAACTTAGTATATTCTTAGGAT
* *
37400943 GGATAACTGGGTATTGTACTTAGTATATTCTTAGGA
1 GGATAACTGAGTATTGAACTTAGTATATTCTTAGGA
37400979 GGGCCTGTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 23 0.72
37 9 0.28
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (37 bp):
GGATAACTGAGTATTGAACTTAGTATATTCTTAGGAT
Found at i:37412402 original size:14 final size:14
Alignment explanation
Indices: 37412383--37412414 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
37412373 TCCAATCACC
37412383 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
37412397 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
37412411 GGGC
1 GGGC
37412415 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:37417518 original size:14 final size:14
Alignment explanation
Indices: 37417499--37417544 Score: 92
Period size: 14 Copynumber: 3.3 Consensus size: 14
37417489 TCCAATCACC
37417499 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
37417513 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
37417527 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
37417541 GGGC
1 GGGC
37417545 TAAATGACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.07, C:0.15, G:0.46, T:0.33
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:37422408 original size:21 final size:21
Alignment explanation
Indices: 37422382--37422471 Score: 82
Period size: 20 Copynumber: 4.4 Consensus size: 21
37422372 TATGAGAGAA
37422382 TATAAGGAAGTATCAAAAAAT
1 TATAAGGAAGTATCAAAAAAT
* *
37422403 TATAAGAAAATA-CTAAAAAAT
1 TATAAGGAAGTATC-AAAAAAT
*
37422424 CTA-AA-GAAGTACCAAAAAA-
1 -TATAAGGAAGTATCAAAAAAT
*
37422443 TATGAGGAAGTAT-AAAAAAT
1 TATAAGGAAGTATCAAAAAAT
*
37422463 TATGAGGAA
1 TATAAGGAA
37422472 ACACAAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.04
19 7 0.12
20 26 0.46
21 20 0.35
22 2 0.04
ACGTcount: A:0.59, C:0.06, G:0.14, T:0.21
Consensus pattern (21 bp):
TATAAGGAAGTATCAAAAAAT
Found at i:37422479 original size:20 final size:19
Alignment explanation
Indices: 37422436--37422481 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
37422426 AAAGAAGTAC
**
37422436 CAAAAAATATGAGGAAGTA
1 CAAAAAATATGAGGAAACA
*
37422455 TAAAAAATTATGAGGAAACA
1 CAAAAAA-TATGAGGAAACA
37422475 CAAAAAA
1 CAAAAAA
37422482 AACACGAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (19 bp):
CAAAAAATATGAGGAAACA
Found at i:37423295 original size:19 final size:20
Alignment explanation
Indices: 37423252--37423300 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
37423242 ATACACAAAA
* * *
37423252 AATAACAAAAATTATGAGCG
1 AATACCAAAAATTACGAGAG
37423272 AATACCAAAAATTACGAGAG
1 AATACCAAAAATTACGAGAG
37423292 -ATACCAAAA
1 AATACCAAAA
37423301 GAAATGAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.16
Consensus pattern (20 bp):
AATACCAAAAATTACGAGAG
Found at i:37423357 original size:20 final size:20
Alignment explanation
Indices: 37423334--37423539 Score: 57
Period size: 20 Copynumber: 10.3 Consensus size: 20
37423324 AAAGAGAGAG
37423334 GATGTACCAAAAATTATGAA
1 GATGTACCAAAAATTATGAA
** * *
37423354 GATGTATAAAAAAGTTACGAGG
1 GATGTACCAAAAA-TTATGA-A
*
37423376 GA-ATACCAAAAA-TATGAA
1 GATGTACCAAAAATTATGAA
*
37423394 G--GATACCAAAAATACATG--
1 GATG-TACCAAAAAT-TATGAA
* ** * * *
37423412 GATGCATGAAAAAATACGAG
1 GATGTACCAAAAATTATGAA
* * *
37423432 GATGCACCGAAAATTATAAA
1 GATGTACCAAAAATTATGAA
*
37423452 GATGTACAAAAAATTATGAGA
1 GATGTACCAAAAATTATGA-A
* ** * *
37423473 GAATATATTAAAAAATATGAG
1 G-ATGTACCAAAAATTATGAA
* ** ** *
37423494 GAAGTATAAAAAAAAATGAG
1 GATGTACCAAAAATTATGAA
37423514 GATGTACCAAAAATTAT-AA
1 GATGTACCAAAAATTATGAA
37423533 GGATGTA
1 -GATGTA
37423540 TAAATACCAA
Statistics
Matches: 131, Mismatches: 43, Indels: 24
0.66 0.22 0.12
Matches are distributed among these distances:
18 13 0.10
19 11 0.08
20 76 0.58
21 15 0.11
22 16 0.12
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.21
Consensus pattern (20 bp):
GATGTACCAAAAATTATGAA
Found at i:37423491 original size:22 final size:20
Alignment explanation
Indices: 37423459--37423543 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
37423449 AAAGATGTAC
*
37423459 AAAAAATTATGAGAGAA-TAT
1 AAAAAAATATGAG-GAAGTAT
37423479 ATTAAAAAATATGAGGAAGTAT
1 A--AAAAAATATGAGGAAGTAT
* * *
37423501 AAAAAAAAATGAGGATGTAC
1 AAAAAAATATGAGGAAGTAT
* * * *
37423521 CAAAAATTATAAGGATGTAT
1 AAAAAAATATGAGGAAGTAT
37423541 AAA
1 AAA
37423544 TACCAAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
20 34 0.65
21 3 0.06
22 15 0.29
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.24
Consensus pattern (20 bp):
AAAAAAATATGAGGAAGTAT
Found at i:37423609 original size:17 final size:17
Alignment explanation
Indices: 37423561--37423618 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
37423551 AAATTTGAGA
37423561 AAGTATCAAAAAAATATG
1 AAGTAT-AAAAAAATATG
*
37423579 ATGATATACTAAAAAATATG
1 AAG-TATA--AAAAAATATG
*
37423599 AAGTATAAAAAATTATG
1 AAGTATAAAAAAATATG
37423616 AAG
1 AAG
37423619 GAAAAGTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 12 0.35
18 3 0.09
19 7 0.21
20 12 0.35
ACGTcount: A:0.59, C:0.03, G:0.12, T:0.26
Consensus pattern (17 bp):
AAGTATAAAAAAATATG
Found at i:37423695 original size:21 final size:21
Alignment explanation
Indices: 37423646--37423717 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 21
37423636 TACACGATAT
37423646 AATA-CAAAAAA-TATAA-GG
1 AATACCAAAAAATTATAATGG
** *
37423664 AAGTATAAAAAAATTATGA-GG
1 AA-TACCAAAAAATTATAATGG
*
37423685 ATGTACC-AAAAATTATAATGG
1 A-ATACCAAAAAATTATAATGG
37423706 AATACCAAAAAA
1 AATACCAAAAAA
37423718 AAAAAGAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 20 0.49
21 17 0.41
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (21 bp):
AATACCAAAAAATTATAATGG
Found at i:37424560 original size:11 final size:11
Alignment explanation
Indices: 37424544--37424576 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
37424534 TATATTGTAC
37424544 TTAAAATAAAT
1 TTAAAATAAAT
37424555 TTAAAATAAAT
1 TTAAAATAAAT
37424566 TTAAAA-AAAT
1 TTAAAATAAAT
37424576 T
1 T
37424577 ATACAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TTAAAATAAAT
Found at i:37434683 original size:16 final size:16
Alignment explanation
Indices: 37434658--37434696 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
37434648 TTGGTTCACT
37434658 GTAATAGAATAGAGGC
1 GTAATAGAATAGAGGC
*
37434674 GTAATGGAATAGAGGC
1 GTAATAGAATAGAGGC
37434690 GTAATAG
1 GTAATAG
37434697 CAATTCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.33, T:0.21
Consensus pattern (16 bp):
GTAATAGAATAGAGGC
Found at i:37434738 original size:45 final size:44
Alignment explanation
Indices: 37434674--37434782 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 44
37434664 GAATAGAGGC
37434674 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAAT-GAATAGAGGCGTAATAGCAATTC-ATGTGTTTGGTTGAAT
* *
37434719 GTAATGAAATAGAGGCGTAATAG-TATTCTTGTGTTTGGTTGAAT
1 GTAATG-AATAGAGGCGTAATAGCAATTCATGTGTTTGGTTGAAT
37434763 G----GAATAGAGGCGTAATAGCA
1 GTAATGAATAGAGGCGTAATAGCA
37434783 GAAGGAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
43 1 0.02
44 19 0.33
45 21 0.36
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.32
Consensus pattern (44 bp):
GTAATGAATAGAGGCGTAATAGCAATTCATGTGTTTGGTTGAAT
Found at i:37434780 original size:39 final size:40
Alignment explanation
Indices: 37434676--37434782 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 40
37434666 ATAGAGGCGT
37434676 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTG
1 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTG
* *
37434716 AATGTAATGAAATAGAGGCGTAATAG-TATTC-TTGTGTTTGGTTG
1 AATG----G-AATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTG
37434760 AATGGAATAGAGGCGTAATAGCA
1 AATGGAATAGAGGCGTAATAGCA
37434783 GAAGGAAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
39 16 0.28
40 5 0.09
43 1 0.02
44 19 0.33
45 16 0.28
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (40 bp):
AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTG
Found at i:37434900 original size:21 final size:20
Alignment explanation
Indices: 37434876--37434962 Score: 53
Period size: 19 Copynumber: 4.5 Consensus size: 20
37434866 AATAAGATTA
37434876 TTAATATAAATAATAAATAAT
1 TTAATATAAATAA-AAATAAT
* *
37434897 TTAATAATAATTTAAAATAA-
1 TTAAT-ATAAATAAAAATAAT
* *
37434917 TT-AT-T-ATTAAATATAAT
1 TTAATATAAATAAAAATAAT
*
37434934 TTAATA-AAA-AATATATAAT
1 TTAATATAAATAA-AAATAAT
37434953 TTAATA-AAAT
1 TTAATATAAAT
37434963 TCTTAATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
16 9 0.17
17 3 0.06
18 4 0.07
19 19 0.35
20 2 0.04
21 11 0.20
22 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATAAATAAAAATAAT
Found at i:37434905 original size:11 final size:11
Alignment explanation
Indices: 37434886--37434918 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
37434876 TTAATATAAA
37434886 TAATAAATAATT
1 TAAT-AATAATT
37434898 TAATAATAATT
1 TAATAATAATT
37434909 TAA-AATAATT
1 TAATAATAATT
37434919 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:37434939 original size:24 final size:21
Alignment explanation
Indices: 37434863--37434975 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
37434853 GTTATTAAAT
37434863 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
37434885 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
37434907 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
* *
37434933 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
37434952 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
37434974 TT
1 TT
37434976 ATTCTTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.08
21 14 0.20
22 13 0.18
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:37434942 original size:29 final size:28
Alignment explanation
Indices: 37434909--37434999 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
37434899 AATAATAATT
37434909 TAAAATAATTATTATTAAATATAATTTAA
1 TAAAATAATTATTATTAAATATAATTT-A
* * *
37434938 TAAAA-AATATATAATTTAATAAAATTCT-
1 TAAAATAAT-TATTATTAAATATAATT-TA
* * *
37434966 TAATATAATTATTCTTATAT-TAATTTA
1 TAAAATAATTATTATTAAATATAATTTA
37434993 CTAAAAT
1 -TAAAAT
37435000 CATAATATAT
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 19 0.40
29 22 0.47
30 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAAATAATTATTATTAAATATAATTTA
Found at i:37434952 original size:56 final size:57
Alignment explanation
Indices: 37434876--37435004 Score: 156
Period size: 56 Copynumber: 2.3 Consensus size: 57
37434866 AATAAGATTA
37434876 TTAATATAAATAATAAATAATTTAATAATAA-T-TTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAA-AATTCTTAAAATAATTATTATTAAAT-TAAT
* * * *
37434934 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATTAAT
1 TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
* *
37434990 TTACTAAAATCATAA
1 TTAATAAAATAATAA
37435005 TATATAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
55 2 0.03
56 29 0.48
57 24 0.39
58 6 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
Found at i:37435029 original size:60 final size:57
Alignment explanation
Indices: 37434876--37435029 Score: 136
Period size: 56 Copynumber: 2.6 Consensus size: 57
37434866 AATAAGATTA
* * * *
37434876 TTAATATAAATAATAAATAATTTAATAATA-ATTTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAA-AATATATAATATAATAAAATATTTAATATAATTATTATTAAATATAAT
* * *
37434934 TTAATAAAAAATATATAATTTAATAAAAT-TCTTAATATAATTATTCTTATAT-TAAT
1 TTAATAAAAAATATATAATATAATAAAATAT-TTAATATAATTATTATTAAATATAAT
*
37434990 TTACTAAAATCATAATATATAATAATAA-AAAATATTTAAT
1 TTAAT-AAA--A-AATATATAAT-ATAATAAAATATTTAAT
37435030 CTCATTTATT
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
56 26 0.32
57 24 0.30
58 6 0.07
59 1 0.01
60 20 0.25
61 4 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAAAATATATAATATAATAAAATATTTAATATAATTATTATTAAATATAAT
Found at i:37435414 original size:77 final size:77
Alignment explanation
Indices: 37435287--37435438 Score: 295
Period size: 77 Copynumber: 2.0 Consensus size: 77
37435277 TTTTTGTCCA
37435287 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
1 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
37435352 ATTGACATAACT
66 ATTGACATAACT
*
37435364 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATGTATAAAATTTT
1 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
37435429 ATTGACATAA
66 ATTGACATAA
37435439 AACTTTAAGA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (77 bp):
CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
ATTGACATAACT
Found at i:37437998 original size:53 final size:54
Alignment explanation
Indices: 37437914--37438020 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
37437904 GCAGTGAATT
37437914 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
37437968 TCAAAAACCACAAC-AAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
37438021 GAATAGGTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 39 0.74
54 14 0.26
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (54 bp):
TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
Found at i:37438438 original size:22 final size:22
Alignment explanation
Indices: 37438394--37438438 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37438384 CAAAAACAAC
* ***
37438394 TTTTTGTGACGTTTTTCTCTTG
1 TTTTTGTAACGTTTTTAAATTG
37438416 TTTTTGTAACGTTTTTAAATTG
1 TTTTTGTAACGTTTTTAAATTG
37438438 T
1 T
37438439 CACAAAAAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.13, C:0.09, G:0.16, T:0.62
Consensus pattern (22 bp):
TTTTTGTAACGTTTTTAAATTG
Found at i:37443047 original size:23 final size:22
Alignment explanation
Indices: 37442996--37443047 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
37442986 CCTCGTCTTT
*
37442996 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
37443018 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
37443041 TTCTTTT
1 TTCTTTT
37443048 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:37443056 original size:12 final size:12
Alignment explanation
Indices: 37443005--37443059 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
37442995 TTTCTTTTGT
37443005 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
37443018 -TCATTTTC-TC
1 TTCTTTTTCAAC
37443028 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
37443041 TTCTTTTTCAAT
1 TTCTTTTTCAAC
37443053 TTCTTTT
1 TTCTTTT
37443060 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:37443066 original size:17 final size:18
Alignment explanation
Indices: 37443041--37443078 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
37443031 TTTCTTCAAC
* *
37443041 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
37443058 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
37443076 TTC
1 TTC
37443079 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:37454050 original size:21 final size:23
Alignment explanation
Indices: 37454008--37454050 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
37453998 GATCGAGACC
*
37454008 AACTATAGTGGTATCGCGATACT
1 AACTATAGTGGTATCGCAATACT
*
37454031 AACTAT-G-GGTATTGCAATAC
1 AACTATAGTGGTATCGCAATAC
37454051 CCAACTCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (23 bp):
AACTATAGTGGTATCGCAATACT
Found at i:37460676 original size:20 final size:21
Alignment explanation
Indices: 37460638--37460677 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37460628 GATATTATAT
37460638 TTTTATAATTAAATAGAAAAG
1 TTTTATAATTAAATAGAAAAG
*
37460659 TTTTATAATT-ATTAGAAAA
1 TTTTATAATTAAATAGAAAA
37460678 CCATAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
TTTTATAATTAAATAGAAAAG
Found at i:37463116 original size:24 final size:24
Alignment explanation
Indices: 37463060--37463128 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
37463050 GTCCTCATCT
* *
37463060 TCTTCATCTTCACCTCGACCCTCG
1 TCTTCATCTTCATCTCGACCCTCA
37463084 TAC-TCATCTTCATCTCGACCCTCA
1 T-CTTCATCTTCATCTCGACCCTCA
* * *
37463108 TCTTTATCTTTATCTCCACCC
1 TCTTCATCTTCATCTCGACCC
37463129 CTGTCTTCGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 1 0.03
24 36 0.95
25 1 0.03
ACGTcount: A:0.16, C:0.42, G:0.04, T:0.38
Consensus pattern (24 bp):
TCTTCATCTTCATCTCGACCCTCA
Found at i:37465209 original size:9 final size:9
Alignment explanation
Indices: 37465195--37465256 Score: 72
Period size: 9 Copynumber: 6.9 Consensus size: 9
37465185 CGAACAAAAC
*
37465195 TTGAGAAAA
1 TTGAGAGAA
37465204 TTGAGAGAA
1 TTGAGAGAA
*
37465213 TTGAGAGAG
1 TTGAGAGAA
37465222 TTGAGAGAA
1 TTGAGAGAA
* *
37465231 TTAAGAG-T
1 TTGAGAGAA
37465239 TTAGAGAGAA
1 TT-GAGAGAA
37465249 TTGAGAGA
1 TTGAGAGA
37465257 GTTAGATTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 2 0.05
9 40 0.91
10 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:37465255 original size:18 final size:18
Alignment explanation
Indices: 37465204--37465259 Score: 80
Period size: 18 Copynumber: 3.1 Consensus size: 18
37465194 CTTGAGAAAA
37465204 TTGAGAGAATTGAGAGAG
1 TTGAGAGAATTGAGAGAG
37465222 TTGAGAGAATT-A-AGAG
1 TTGAGAGAATTGAGAGAG
37465238 TTTAGAGAGAATTGAGAGAG
1 -TT-GAGAGAATTGAGAGAG
37465258 TT
1 TT
37465260 AGATTTGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 20 0.59
19 3 0.09
20 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.27
Consensus pattern (18 bp):
TTGAGAGAATTGAGAGAG
Found at i:37467347 original size:106 final size:106
Alignment explanation
Indices: 37467233--37467526 Score: 360
Period size: 107 Copynumber: 2.8 Consensus size: 106
37467223 GTCTTATGCT
* * * *
37467233 TTTATGTGTCTAAATTTTATTTTGCTCACAATTTAATCT-CTTTTTTCATTTTAATATTGTACAT
1 TTTATGTGTTTAAATTTCATTTTACTCACAATTTAATCTATTTTTTTCATTTTAATATTGTACAT
* * **
37467297 ATTTCACGTGTTTTATTCATTTAGTATTCTTAATTTGATGTA
66 ATTTCA-GTGTTTTATTCATTTAGTATACTTAATCTGATACA
* * ** *
37467339 TTTGTGTGTTTAAATTTCATTTTATTCACAATTTAATCTATTTTTTTCATTTTAATATCATACAA
1 TTTATGTGTTTAAATTTCATTTTACTCACAATTTAATCTATTTTTTTCATTTTAATATTGTACAT
*
37467404 ATTTCATGTGTTGTATTCATTTAGTATACTTAATCTGATACA
66 ATTTCA-GTGTTTTATTCATTTAGTATACTTAATCTGATACA
* * * * *
37467446 TTTATGTGTTTAAATTTCGTTTTACTCACAAGTTAATCTAATTTTTTTGCATTCTAAGATTG-AA
1 TTTATGTGTTTAAATTTCATTTTACTCACAATTTAATCT-ATTTTTTT-CATTTTAATATTGTAC
37467510 ATATTTCA-TGTTTTATT
64 ATATTTCAGTGTTTTATT
37467527 GTCAATTAGT
Statistics
Matches: 159, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
106 42 0.26
107 92 0.58
108 16 0.10
109 9 0.06
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.54
Consensus pattern (106 bp):
TTTATGTGTTTAAATTTCATTTTACTCACAATTTAATCTATTTTTTTCATTTTAATATTGTACAT
ATTTCAGTGTTTTATTCATTTAGTATACTTAATCTGATACA
Found at i:37469611 original size:11 final size:10
Alignment explanation
Indices: 37469587--37469616 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
37469577 GTTAGGAATG
37469587 TTTTTTAATA
1 TTTTTTAATA
37469597 TTTTTTAATA
1 TTTTTTAATA
37469607 TTTTTATAAT
1 TTTTT-TAAT
37469617 TTTAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTTAATA
Found at i:37471247 original size:18 final size:19
Alignment explanation
Indices: 37471220--37471255 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
37471210 AAAAATTAAT
37471220 TTAAATTTAATATGCACAA
1 TTAAATTTAATATGCACAA
37471239 TTAAA-TTAATATGCACA
1 TTAAATTTAATATGCACA
37471256 TTATTATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (19 bp):
TTAAATTTAATATGCACAA
Found at i:37471440 original size:26 final size:26
Alignment explanation
Indices: 37471410--37471460 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
37471400 ACATTGTTTC
* *
37471410 TAAATTTAAAA-TTTTTAAATCTATT
1 TAAAATTAAAATTTTTTAAATATATT
37471435 TAAAATTAAAATTTTTTAAATATATT
1 TAAAATTAAAATTTTTTAAATATATT
37471461 ACACGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TAAAATTAAAATTTTTTAAATATATT
Found at i:37472762 original size:13 final size:14
Alignment explanation
Indices: 37472746--37472779 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
37472736 AATAAATATA
37472746 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
37472759 TATTTTTTAATTTT
1 TATTTTTTAATTTT
37472773 TAATTTT
1 T-ATTTT
37472780 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 6 0.32
15 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:37477387 original size:11 final size:11
Alignment explanation
Indices: 37477367--37477485 Score: 96
Period size: 11 Copynumber: 11.4 Consensus size: 11
37477357 TAAAAATTAA
37477367 AAAAATTATTTT
1 AAAAA-TATTTT
37477379 AAAAATATTTT
1 AAAAATATTTT
37477390 --AAA-A--TT
1 AAAAATATTTT
* *
37477396 AAAAAAATTTAA
1 AAAAATATTT-T
37477408 AAAAATATTTT
1 AAAAATATTTT
37477419 AAAAATATTTT
1 AAAAATATTTT
37477430 AAAAATATTTT
1 AAAAATATTTT
37477441 --AAA-A--TT
1 AAAAATATTTT
*
37477447 AAAAAAATTTT
1 AAAAATATTTT
37477458 AAAAAAGTATTTT
1 -AAAAA-TATTTT
*
37477471 AAAAGTATTTT
1 AAAAATATTTT
37477482 AAAA
1 AAAA
37477486 TAAAAAAATA
Statistics
Matches: 89, Mismatches: 5, Indels: 27
0.74 0.04 0.22
Matches are distributed among these distances:
6 4 0.04
8 8 0.09
9 8 0.09
11 41 0.46
12 23 0.26
13 5 0.06
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:37477432 original size:51 final size:52
Alignment explanation
Indices: 37477367--37477485 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
37477357 TAAAAATTAA
37477367 AAAAATTATTTTAAAAATATTTTAAAATTAAAAAAA-TTTAAAAAAATATTTT
1 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAAAATATTTT
*
37477419 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAAAGTATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAAAATATTTT
*
37477471 AAAAGTATTTTAAAA
1 AAAAATATTTTAAAA
37477486 TAAAAAAATA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 30 0.47
52 34 0.53
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (52 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAAAATATTTT
Found at i:37477480 original size:41 final size:40
Alignment explanation
Indices: 37477352--37477495 Score: 177
Period size: 40 Copynumber: 3.5 Consensus size: 40
37477342 ACCAAAAATT
37477352 TATTTTAAAAATTAAAAAAATTATTTTAAAAATATTTTAAAA
1 TATTTT-AAAATTAAAAAAA-TATTTTAAAAATATTTTAAAA
***
37477394 T-TAAAAAAATTTAAAAAAATATTTTAAAAATATTTTAAAAA
1 TATTTTAAAA-TTAAAAAAATATTTTAAAAATATTTT-AAAA
*
37477435 TATTTTAAAATTAAAAAAAT-TTTAAAAAAGTATTTTAAAA
1 TATTTTAAAATTAAAAAAATATTTTAAAAA-TATTTTAAAA
37477475 GTATTTTAAAA-TAAAAAAATA
1 -TATTTTAAAATTAAAAAAATA
37477496 AAAATATTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
40 42 0.47
41 41 0.46
42 6 0.07
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATATTTTAAAAATATTTTAAAA
Found at i:37485296 original size:23 final size:23
Alignment explanation
Indices: 37485261--37485354 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
37485251 AAGTTAGAAG
* *
37485261 AGTGAAGAGACTTAAATATGAAA
1 AGTGAAGAAACTTGAATATGAAA
* *
37485284 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAAACTTGAATATGAAA
* *
37485307 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAAACTTGAATATGAAA
* *
37485330 AGTTAAGAAGCTTGAATATGAAA
1 AGTGAAGAAACTTGAATATGAAA
37485353 AG
1 AG
37485355 ATACACACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.50, C:0.04, G:0.23, T:0.22
Consensus pattern (23 bp):
AGTGAAGAAACTTGAATATGAAA
Found at i:37485328 original size:46 final size:46
Alignment explanation
Indices: 37485261--37485351 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
37485251 AAGTTAGAAG
*
37485261 AGTGAAGAGACTTAAATATGAAAAGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTAAAGATGAAAAGTGAAAAAACTTGAATATGAAT
* * * *
37485307 AGTGAAGAGACTTGAAGATGAAAAGTTAAGAAGCTTGAATATGAA
1 AGTGAAGAGACTTAAAGATGAAAAGTGAAAAAACTTGAATATGAA
37485352 AAGATACACA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.49, C:0.04, G:0.23, T:0.23
Consensus pattern (46 bp):
AGTGAAGAGACTTAAAGATGAAAAGTGAAAAAACTTGAATATGAAT
Found at i:37489785 original size:23 final size:23
Alignment explanation
Indices: 37489759--37489852 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
37489749 AAGTTAGAAG
37489759 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
37489782 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
37489805 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
37489828 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
37489851 AG
1 AG
37489853 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:37493277 original size:21 final size:22
Alignment explanation
Indices: 37493242--37493283 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
37493232 TATTTAAATA
*
37493242 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGCAGCAAT
*
37493264 ATAATAAC-AAATAGCAGCAA
1 ATAACAACAAAATAGCAGCAA
37493284 AACACTAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.60, C:0.14, G:0.10, T:0.17
Consensus pattern (22 bp):
ATAACAACAAAATAGCAGCAAT
Found at i:37495557 original size:26 final size:26
Alignment explanation
Indices: 37495528--37495584 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
37495518 AGGTCTATTA
37495528 AGTTTAAGTGGGTCT-AAGGACCCTTG
1 AGTTTAAGTGGGT-TGAAGGACCCTTG
* * *
37495554 AGTTTGAGTTGGTTGAAGGACCTTTG
1 AGTTTAAGTGGGTTGAAGGACCCTTG
37495580 AGTTT
1 AGTTT
37495585 GAGTTGGCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.21, C:0.11, G:0.32, T:0.37
Consensus pattern (26 bp):
AGTTTAAGTGGGTTGAAGGACCCTTG
Found at i:37495966 original size:36 final size:36
Alignment explanation
Indices: 37495919--37495990 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
37495909 GCCAAGATGA
37495919 CCATACCCAATGGGGTGACCATCGAGGGGTCGAGAG
1 CCATACCCAATGGGGTGACCATCGAGGGGTCGAGAG
*
37495955 CCATACCCAATGGGGTGACCATTGAGGGGTCGAGAG
1 CCATACCCAATGGGGTGACCATCGAGGGGTCGAGAG
37495991 GGACTAAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.25, C:0.24, G:0.36, T:0.15
Consensus pattern (36 bp):
CCATACCCAATGGGGTGACCATCGAGGGGTCGAGAG
Found at i:37497029 original size:15 final size:15
Alignment explanation
Indices: 37497009--37497056 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
37496999 TTTATGGAAA
37497009 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
37497024 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
37497038 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
37497054 ATC
1 ATC
37497057 GAGATATTAG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:37501663 original size:15 final size:15
Alignment explanation
Indices: 37501643--37501720 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
37501633 TTTATGGAAA
37501643 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
37501658 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
37501672 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
37501688 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
37501702 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
37501718 ATC
1 ATC
37501721 GAGATATTGA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:37501680 original size:30 final size:30
Alignment explanation
Indices: 37501639--37501720 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
37501629 CATATTTATG
*
37501639 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
37501669 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
37501699 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
37501721 GAGATATTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:37503280 original size:2 final size:2
Alignment explanation
Indices: 37503273--37503315 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
37503263 GTATAAGTTC
37503273 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37503315 T
1 T
37503316 TTAAGTTTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37509399 original size:62 final size:57
Alignment explanation
Indices: 37509328--37509474 Score: 179
Period size: 57 Copynumber: 2.5 Consensus size: 57
37509318 ATTGACGGTA
*
37509328 AAAAAGATCTAGCCCAGACGGGTGATCCTATCCTGATATAGCCCTCCTAAAGAATATGTGTG
1 AAAAAGATCTAGCCCAGACGGGTGATCC--T--TGATATAGCCCTCCCAAAGAATATGTG-G
* *
37509390 AAAAAGATCTAGCCCGGACGGGTGAT-CTTGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCAGACGGGTGATCCTTGATATAGCCCTCCCAAAGAATATGTGG
* * *
37509446 AAAATGGATTTAGCCCAGACGGGTAATCC
1 AAAA-AGATCTAGCCCAGACGGGTGATCC
37509475 GAATTAAGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
56 5 0.07
57 43 0.57
58 1 0.01
59 1 0.01
61 1 0.01
62 25 0.33
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (57 bp):
AAAAAGATCTAGCCCAGACGGGTGATCCTTGATATAGCCCTCCCAAAGAATATGTGG
Found at i:37509667 original size:67 final size:67
Alignment explanation
Indices: 37509559--37509693 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
37509549 TAAGTTTATA
** * * *
37509559 TTACAAGGGATTTAGCCTGGACTGGTAATCCCGTTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
1 TTACAAGGGATTTAGCCTGGACTGGTAATCCCACTGTAAGAAATAAGGTTCGCGGAAGCGTGCTC
37509624 TC
66 TC
*
37509626 TTACAGGGGATTTAGCCTGGACTGGTAATCCCACTGTAAGAAATAAGGTTCGCGGAAGCGTGCTC
1 TTACAAGGGATTTAGCCTGGACTGGTAATCCCACTGTAAGAAATAAGGTTCGCGGAAGCGTGCTC
37509691 TC
66 TC
37509693 T
1 T
37509694 GAAATGGAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (67 bp):
TTACAAGGGATTTAGCCTGGACTGGTAATCCCACTGTAAGAAATAAGGTTCGCGGAAGCGTGCTC
TC
Found at i:37525569 original size:16 final size:16
Alignment explanation
Indices: 37525536--37525569 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37525526 GCCTCTTGTT
* *
37525536 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
37525552 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
37525568 AA
1 AA
37525570 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:37528394 original size:21 final size:21
Alignment explanation
Indices: 37528368--37528408 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37528358 AGACGAGCAA
* *
37528368 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
37528389 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
37528409 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:37530346 original size:16 final size:16
Alignment explanation
Indices: 37530313--37530346 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37530303 GGAGATTGTT
* *
37530313 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
37530329 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
37530345 AA
1 AA
37530347 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:37532412 original size:11 final size:11
Alignment explanation
Indices: 37532396--37532428 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
37532386 GTTCTCCAAT
37532396 ATATCGTTGAC
1 ATATCGTTGAC
37532407 ATATCGTTGAC
1 ATATCGTTGAC
37532418 ATATCGTTGAC
1 ATATCGTTGAC
37532429 TTGTGTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (11 bp):
ATATCGTTGAC
Found at i:37533965 original size:122 final size:122
Alignment explanation
Indices: 37533813--37534168 Score: 488
Period size: 121 Copynumber: 2.9 Consensus size: 122
37533803 TACCTAATTG
* **
37533813 AATTTTAATACGACACTATAATAAATTTGTAAATATTAAATAAATAATATTTACTAACTCACTGG
1 AATTTTAATACGACACTCTAATAACCTTGTAAATATTAAATAAATAATATTTACTAACTCACTGG
37533878 TCAGAATTGTGGTCCCAAAACTACTGTTTCTGACACCACTGAAAATGAG-TTATTACA
66 TCAGAATTGTGGTCCCAAAA-TACTGTTTCTGACACCACTGAAAATGAGTTTATTACA
* *
37533935 AATTTTAATACGACACTCTAATAACGTTGTAAATATTAAATAAATAATATTTACTAACTCATTGG
1 AATTTTAATACGACACTCTAATAACCTTGTAAATATTAAATAAATAATATTTACTAACTCACTGG
* * * * * *
37534000 TCTA-AATTGTGGTCTCAAAATTACGGTTTCCGACTCTACTG-AAATG-GTTTGTTACA
66 TC-AGAATTGTGGTCCCAAAA-TACTGTTTCTGACACCACTGAAAATGAGTTTATTACA
* *
37534056 AATTTTTATACGACACTCTAATAACCTTGTAAATATTAAATAAATAATATTTACTAACTCACTGA
1 AATTTTAATACGACACTCTAATAACCTTGTAAATATTAAATAAATAATATTTACTAACTCACTGG
* * *
37534121 TC-GAAATTGTAGTCCCAAAATAATTGTTTCTGACACCATTGAAAATGA
66 TCAG-AATTGTGGTCCCAAAAT-ACTGTTTCTGACACCACTGAAAATGA
37534169 CCTGTTACAA
Statistics
Matches: 204, Mismatches: 23, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
120 2 0.01
121 102 0.50
122 99 0.49
123 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (122 bp):
AATTTTAATACGACACTCTAATAACCTTGTAAATATTAAATAAATAATATTTACTAACTCACTGG
TCAGAATTGTGGTCCCAAAATACTGTTTCTGACACCACTGAAAATGAGTTTATTACA
Found at i:37534619 original size:40 final size:39
Alignment explanation
Indices: 37534573--37534694 Score: 138
Period size: 39 Copynumber: 3.0 Consensus size: 39
37534563 ATAAAACAGG
37534573 AAAACGCTTCATTGAGGAAGCGATTTGTCCACGTGGACAA
1 AAAACGCTTC-TTGAGGAAGCGATTTGTCCACGTGGACAA
** * * *
37534613 AAAACGCTTCTCAAGGAAACGCTTTGTCCACGTGGACAG
1 AAAACGCTTCTTGAGGAAGCGATTTGTCCACGTGGACAA
*
37534652 AAAACGCTTCCTTGAGGGAGC-ACTTTGTGTCCACGTGGACAA
1 AAAACGCTT-CTTGAGGAAGCGA--TT-TGTCCACGTGGACAA
37534694 A
1 A
37534695 GTGCTCCTCG
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 33 0.49
40 17 0.25
41 2 0.03
42 15 0.22
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAACGCTTCTTGAGGAAGCGATTTGTCCACGTGGACAA
Found at i:37535696 original size:95 final size:94
Alignment explanation
Indices: 37535561--37535815 Score: 334
Period size: 95 Copynumber: 2.7 Consensus size: 94
37535551 CCAATCTAAT
* * *
37535561 TTTTTTAA-AATTTATAAAGTAACCCTATACCCTAATTTATTTAATTTTTCCCTTAAAACCCTAA
1 TTTTATAATAATTTATAAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAACCCTAA
*
37535625 ACACTAAACCCTAATCTATTTTTTTAAAA
66 ACACTAAACCCTAATCTAATTTTTTAAAA
* ***
37535654 TTTTATAATAATTTACTCAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAGTATA
1 TTTTATAATAATTTA-TAAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAACCCTA
*
37535719 AACACTAAACTCTAATCTAATTTTTTAAAA
65 AACACTAAACCCTAATCTAATTTTTTAAAA
* * * * * *
37535749 -TTTATAATTAAGTTAATTAAGAAACCCTAAACTCTTATTGATTTAATTTTTTCCTTAAAACCCT
1 TTTTATAA-TAA-TTTATAAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAACCCT
37535813 AAA
64 AAA
37535816 ATCTAAAAAC
Statistics
Matches: 140, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
93 7 0.05
94 13 0.09
95 117 0.84
96 3 0.02
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (94 bp):
TTTTATAATAATTTATAAAGTAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAACCCTAA
ACACTAAACCCTAATCTAATTTTTTAAAA
Found at i:37540480 original size:108 final size:107
Alignment explanation
Indices: 37540230--37540550 Score: 502
Period size: 107 Copynumber: 3.0 Consensus size: 107
37540220 AAGGAAAATT
* *
37540230 TTTCTAAA-TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATTTGCTGGGTT
1 TTTC-AAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
*
37540294 TCGATTTTTTTCGTTCAACCAAATAGCCAAATATCATTTTAAAA
65 TCGA-TTTTTTCGTTCAACCAAATAGCCAAATATCCTTTTAAAA
37540338 TTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
37540403 CGATTTTTTCGTTCAACCAAATAGCCAAATATCCTTTTAAAA
66 CGATTTTTTCGTTCAACCAAATAGCCAAATATCCTTTTAAAA
* * *
37540445 TTTCAAAGTAAGGCAATGTTTTGCGTTCGGAAAATTCGAGAAAACGTGCCCTAATGTGTTAGGTT
1 TTTCAAAGTAAGGCAATGTTTTGCGTTTGG-AAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* * ** *
37540510 TCGA-TTTCTCATTTGACCAAATAGCCAAATATCCTCTTAAA
65 TCGATTTTTTCGTTCAACCAAATAGCCAAATATCCTTTTAAA
37540551 TCTCAAACCA
Statistics
Matches: 200, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
107 102 0.51
108 98 0.49
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (107 bp):
TTTCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTTCGTTCAACCAAATAGCCAAATATCCTTTTAAAA
Found at i:37543082 original size:6 final size:6
Alignment explanation
Indices: 37543073--37543133 Score: 97
Period size: 6 Copynumber: 10.3 Consensus size: 6
37543063 CACCGATCTT
* *
37543073 CCCTTT CCCTTT CCCTT- CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
37543120 CCCTTC CCCTTC CC
1 CCCTTC CCCTTC CC
37543134 TTGACACCTG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.09
6 49 0.91
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
CCCTTC
Found at i:37546157 original size:22 final size:25
Alignment explanation
Indices: 37546107--37546164 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 25
37546097 TTGTAATGTT
37546107 TTTATAT-TTTAATAATTGAGTATTA
1 TTTATATATTTAAT-ATTGAGTATTA
37546132 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATATATTTAATATTGAGTATTA
*
37546153 TTTATTTATTTA
1 TTTATATATTTA
37546165 TAAATAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.10
22 11 0.37
23 4 0.13
24 6 0.20
25 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (25 bp):
TTTATATATTTAATATTGAGTATTA
Found at i:37546337 original size:14 final size:15
Alignment explanation
Indices: 37546315--37546391 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
37546305 CAATCAAACA
37546315 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
37546329 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
37546344 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
37546364 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
37546378 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
37546392 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:37546356 original size:20 final size:20
Alignment explanation
Indices: 37546331--37546370 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37546321 AATATTTTCC
*
37546331 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
37546351 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
37546371 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:37546376 original size:34 final size:35
Alignment explanation
Indices: 37546319--37546385 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
37546309 CAAACACCAG
*
37546319 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
37546354 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
37546386 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:37546392 original size:14 final size:14
Alignment explanation
Indices: 37546354--37546393 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
37546344 ACAGAAAAGT
*
37546354 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
37546368 AAATCATTTTACGG
1 AAAACATTTTACAG
37546382 AAAACATTTTAC
1 AAAACATTTTAC
37546394 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:37553314 original size:41 final size:41
Alignment explanation
Indices: 37553261--37553400 Score: 194
Period size: 41 Copynumber: 3.4 Consensus size: 41
37553251 TATATGATTG
*
37553261 GCACTAAGTGTGCGAAATTAAATAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
* *
37553302 GCACTAATTGTGCGAAACTAAGTAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
* * *
37553343 GCACTAAGCGTGCGAAACCAAATAATTATGTT-AATAACTG-
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAAC-GA
*
37553383 GCACTAAGTGTGCAAAAC
1 GCACTAAGTGTGCGAAAC
37553401 CGAGATCAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 22 0.25
41 66 0.75
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (41 bp):
GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
Found at i:37559029 original size:11 final size:11
Alignment explanation
Indices: 37559013--37559037 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37559003 ACCATTTCAC
37559013 TTTAAAAAGAT
1 TTTAAAAAGAT
37559024 TTTAAAAAGAT
1 TTTAAAAAGAT
37559035 TTT
1 TTT
37559038 GAAGAATTCT
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTAAAAAGAT
Found at i:37560984 original size:15 final size:15
Alignment explanation
Indices: 37560964--37560992 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37560954 ATATTTCATC
37560964 TTTTTATGCTATAAT
1 TTTTTATGCTATAAT
37560979 TTTTTATGCTATAA
1 TTTTTATGCTATAA
37560993 AAATGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (15 bp):
TTTTTATGCTATAAT
Found at i:37562463 original size:21 final size:21
Alignment explanation
Indices: 37562437--37562478 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
37562427 TTTGGATAAG
37562437 GAAATGGATGAAGGGGTTACC
1 GAAATGGATGAAGGGGTTACC
37562458 GAAATGGATGAAGGGGTTACC
1 GAAATGGATGAAGGGGTTACC
37562479 AACAATGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.38, T:0.19
Consensus pattern (21 bp):
GAAATGGATGAAGGGGTTACC
Found at i:37564113 original size:73 final size:73
Alignment explanation
Indices: 37563992--37564140 Score: 174
Period size: 73 Copynumber: 2.0 Consensus size: 73
37563982 CCACTTGTCC
* * * * * * ** *
37563992 TTGGACAAGGGGTTCTCTCAAAGGGTGCCTAGTAAGGGGTTGTCTTGGTGGGTTGTGAAGGGTGG
1 TTGGACAAGGGGTACTCTCAAAGAGTGCCCAGTAAGGGATTATCTTGGTGGGTAGCAAAAGGTGG
37564057 CATAACAA
66 CATAACAA
* * *
37564065 TTGGACGAGGGGTACTCTCGAAA-AGTGCCCAGTAAGGGATTATTTTGGTGGGTAGCAAAAGGTT
1 TTGGACAAGGGGTACTCTC-AAAGAGTGCCCAGTAAGGGATTATCTTGGTGGGTAGCAAAAGGTG
37564129 GCATAACAA
65 GCATAACAA
37564138 TTG
1 TTG
37564141 CCTCCTTTAG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
73 60 0.95
74 3 0.05
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.27
Consensus pattern (73 bp):
TTGGACAAGGGGTACTCTCAAAGAGTGCCCAGTAAGGGATTATCTTGGTGGGTAGCAAAAGGTGG
CATAACAA
Found at i:37566199 original size:25 final size:25
Alignment explanation
Indices: 37566171--37566218 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
37566161 AAGCTCTCTT
37566171 AAGCTTTCTG-ATACATGGCTCTTCC
1 AAGCTTTCTGTATACAT-GCTCTTCC
*
37566196 AAGCTTTCTGTATATATGCTCTT
1 AAGCTTTCTGTATACATGCTCTT
37566219 ATGAGCATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (25 bp):
AAGCTTTCTGTATACATGCTCTTCC
Found at i:37568409 original size:33 final size:33
Alignment explanation
Indices: 37568367--37568522 Score: 126
Period size: 33 Copynumber: 4.6 Consensus size: 33
37568357 CCGTTATGGT
37568367 GGAATCAGCACTTAGCAACCACCGATGATTTGG
1 GGAATCAGCACTTAGCAACCACCGATGATTTGG
* ***
37568400 GGAATCAGCACTTAGCAACCCCTTTCACATCTGAAGACACGG
1 GGAATCAGCACTTAGCAA---C---CAC--C-GATGATTTGG
*
37568442 TGGAATCAGCACTTAGCAACCGCCGATGATTTGG
1 -GGAATCAGCACTTAGCAACCACCGATGATTTGG
*
37568476 GGAATCAGCACTTAGCAACC-CC-----TTGGG
1 GGAATCAGCACTTAGCAACCACCGATGATTTGG
37568503 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
37568523 CCCTTTTTAT
Statistics
Matches: 103, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
27 24 0.23
32 2 0.02
33 38 0.37
34 6 0.06
35 1 0.01
36 1 0.01
37 2 0.02
39 3 0.03
40 1 0.01
41 1 0.01
42 6 0.06
43 18 0.17
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCGATGATTTGG
Found at i:37583496 original size:18 final size:17
Alignment explanation
Indices: 37583451--37583501 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
37583441 AACTCAATCC
37583451 AAATAATTAATTTAATT
1 AAATAATTAATTTAATT
37583468 ATAA-AATTAATTTATATT
1 A-AATAATTAATTTA-ATT
*
37583486 AAATAAATAATTTAAT
1 AAATAATTAATTTAAT
37583502 AAAAAAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATAATTAATTTAATT
Found at i:37585391 original size:89 final size:89
Alignment explanation
Indices: 37585292--37585548 Score: 435
Period size: 90 Copynumber: 2.9 Consensus size: 89
37585282 TGCACTTTGG
* *
37585292 CCCCCTAAAAATAATAAAAAATTCATTTAATCCATTAAAAATTATAAAAAAATAGGCTATTCAAA
1 CCCCCTAAAAATAATAAAAATTTCATTTAATCCATTGAAAATTATAAAAAAATAGGCTATTCAAA
*
37585357 TGGTGAAATTATAATTTAATTTCA
66 TGGTGAAATTACAATTTAATTTCA
* *
37585381 CCCCCTAAAAATAATAAAAATTTGATTTAATCCATTGAAAATTATAAAAAATAGAGGCTATTCAA
1 CCCCCTAAAAATAATAAAAATTTCATTTAATCCATTGAAAATTATAAAAAA-ATAGGCTATTCAA
37585446 ATGGTGAAATTACAATTTAATTTCA
65 ATGGTGAAATTACAATTTAATTTCA
*
37585471 CCCCCTAAAAATAATAAAAATTTGC-TTTAATCCATTGAAAATTATAAAAATATAGGCTATTCAA
1 CCCCCTAAAAATAATAAAAATTT-CATTTAATCCATTGAAAATTATAAAAAAATAGGCTATTCAA
37585535 ATGGTGAAATTACA
65 ATGGTGAAATTACA
37585549 TTTTTACTAT
Statistics
Matches: 158, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
89 74 0.47
90 84 0.53
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (89 bp):
CCCCCTAAAAATAATAAAAATTTCATTTAATCCATTGAAAATTATAAAAAAATAGGCTATTCAAA
TGGTGAAATTACAATTTAATTTCA
Found at i:37585476 original size:90 final size:90
Alignment explanation
Indices: 37585292--37585548 Score: 446
Period size: 89 Copynumber: 2.9 Consensus size: 90
37585282 TGCACTTTGG
* * *
37585292 CCCCCTAAAAATAATAAAAAATTCATTTAATCCATTAAAAATTATAAAAAA-ATAGGCTATTCAA
1 CCCCCTAAAAATAATAAAAATTTGATTTAATCCATTGAAAATTATAAAAAATATAGGCTATTCAA
*
37585356 ATGGTGAAATTATAATTTAATTTCA
66 ATGGTGAAATTACAATTTAATTTCA
*
37585381 CCCCCTAAAAATAATAAAAATTTGATTTAATCCATTGAAAATTATAAAAAATAGAGGCTATTCAA
1 CCCCCTAAAAATAATAAAAATTTGATTTAATCCATTGAAAATTATAAAAAATATAGGCTATTCAA
37585446 ATGGTGAAATTACAATTTAATTTCA
66 ATGGTGAAATTACAATTTAATTTCA
*
37585471 CCCCCTAAAAATAATAAAAATTTGCTTTAATCCATTGAAAATTAT-AAAAATATAGGCTATTCAA
1 CCCCCTAAAAATAATAAAAATTTGATTTAATCCATTGAAAATTATAAAAAATATAGGCTATTCAA
37585535 ATGGTGAAATTACA
66 ATGGTGAAATTACA
37585549 TTTTTACTAT
Statistics
Matches: 160, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
89 80 0.50
90 80 0.50
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (90 bp):
CCCCCTAAAAATAATAAAAATTTGATTTAATCCATTGAAAATTATAAAAAATATAGGCTATTCAA
ATGGTGAAATTACAATTTAATTTCA
Found at i:37587064 original size:21 final size:21
Alignment explanation
Indices: 37587038--37587109 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
37587028 ACAAATGCTA
37587038 AACGGAAACCCATAAGGGTTG
1 AACGGAAACCCATAAGGGTTG
* * * *
37587059 AACGGAAGCTCATAAGAGCTG
1 AACGGAAACCCATAAGGGTTG
* * *
37587080 AACTGAAACCCATTAGGGTTA
1 AACGGAAACCCATAAGGGTTG
*
37587101 AACGAAAAC
1 AACGGAAAC
37587110 TATATGAGTT
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (21 bp):
AACGGAAACCCATAAGGGTTG
Found at i:37587835 original size:43 final size:43
Alignment explanation
Indices: 37587642--37587931 Score: 264
Period size: 42 Copynumber: 6.7 Consensus size: 43
37587632 GCGTCGCTAA
* * * * *
37587642 CTTTAGCGGCGTTTTTTTGAAATAAACGCCGCTATAAATCATGAC
1 CTTTAGCGGCG-CTTTTTCACA-AAACGCCGCTATAGATCAAGAC
** *
37587687 CTTTAGCGGCGCTTTCCCAC-AAACGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTTCACAAAACGCCGCTATAGATCAAGAC
** * *
37587729 CTTTAGCGGCGCTTTTTCAC-AAACGCTACTATAGATTAGGAC
1 CTTTAGCGGCGCTTTTTCACAAAACGCCGCTATAGATCAAGAC
** ** *
37587771 CTTTAGCGGCGCAATCACACAAAACGCCGCTATAGATTAAGAC
1 CTTTAGCGGCGCTTTTTCACAAAACGCCGCTATAGATCAAGAC
* * * * * *
37587814 TTTTAACGACGCTTTTTCACAAAACACTGCTATAGATAAAGAC
1 CTTTAGCGGCGCTTTTTCACAAAACGCCGCTATAGATCAAGAC
* * *
37587857 CTTTAGCGGCGCTTTTTCCCACAAACGTCGCTATAGAACAA-AC
1 CTTTAGCGGCGCTTTTTCACA-AAACGCCGCTATAGATCAAGAC
* *
37587900 CTTTAGCGACAC-TTTTCACACAAACGCCGCTA
1 CTTTAGCGGCGCTTTTTCACA-AAACGCCGCTA
37587932 AAAACATATC
Statistics
Matches: 201, Mismatches: 42, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
42 91 0.45
43 81 0.40
44 18 0.09
45 11 0.05
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTTCACAAAACGCCGCTATAGATCAAGAC
Found at i:37587915 original size:86 final size:84
Alignment explanation
Indices: 37587684--37587924 Score: 279
Period size: 86 Copynumber: 2.8 Consensus size: 84
37587674 TATAAATCAT
* *
37587684 GACCTTTAGCGGCGCTTTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCAC
1 GACCTTTAGCGGCGCTTTCCCACAAACGCCGCTATAGATCA-AACCTTTAGCGACGCTTTTTCAC
* * *
37587749 -AAACGCTACTATAGATTAG
65 AAAACACTACTATAGATAAA
** * * * *
37587768 GACCTTTAGCGGCGCAATCACACAAAACGCCGCTATAGATTAAGACTTTTAACGACGCTTTTTCA
1 GACCTTTAGCGGCGCTTTCCCAC-AAACGCCGCTATAGATCAA-ACCTTTAGCGACGCTTTTTCA
*
37587833 CAAAACACTGCTATAGATAAA
64 CAAAACACTACTATAGATAAA
* * *
37587854 GACCTTTAGCGGCGCTTTTTCCCACAAACGTCGCTATAGAACAAACCTTTAGCGACAC-TTTTCA
1 GACCTTTAGCGGCGC--TTTCCCACAAACGCCGCTATAGATCAAACCTTTAGCGACGCTTTTTCA
37587918 CACAAAC
64 CA-AAAC
37587925 GCCGCTAAAA
Statistics
Matches: 130, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
84 20 0.15
85 44 0.34
86 45 0.35
87 16 0.12
88 5 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (84 bp):
GACCTTTAGCGGCGCTTTCCCACAAACGCCGCTATAGATCAAACCTTTAGCGACGCTTTTTCACA
AAACACTACTATAGATAAA
Found at i:37590070 original size:14 final size:13
Alignment explanation
Indices: 37590051--37590083 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
37590041 TTCAGTACTG
37590051 AGCAAAAAACAGTT
1 AGCAAAAAA-AGTT
37590065 AGC-AAAAAAGTT
1 AGCAAAAAAAGTT
37590077 AGCAAAA
1 AGCAAAA
37590084 GTAGCAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 8 0.44
14 3 0.17
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (13 bp):
AGCAAAAAAAGTT
Found at i:37590076 original size:12 final size:13
Alignment explanation
Indices: 37590055--37590083 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
37590045 GTACTGAGCA
37590055 AAAAACAGTTAGC
1 AAAAACAGTTAGC
37590068 AAAAA-AGTTAGC
1 AAAAACAGTTAGC
37590080 AAAA
1 AAAA
37590084 GTAGCAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAAACAGTTAGC
Found at i:37593164 original size:7 final size:7
Alignment explanation
Indices: 37593152--37593194 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
37593142 TACCTATCCA
37593152 TAACCCC
1 TAACCCC
*
37593159 TAACCCT
1 TAACCCC
* *
37593166 TAATCCT
1 TAACCCC
*
37593173 TAACCTC
1 TAACCCC
37593180 TAACCCC
1 TAACCCC
37593187 TAACCCC
1 TAACCCC
37593194 T
1 T
37593195 CTTTTACAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.26
Consensus pattern (7 bp):
TAACCCC
Found at i:37594072 original size:19 final size:19
Alignment explanation
Indices: 37594048--37594085 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
37594038 CGCTTTTTCA
37594048 AAAACGCCGCTAAAGCTCT
1 AAAACGCCGCTAAAGCTCT
37594067 AAAACGCCGCTAAAGCTCT
1 AAAACGCCGCTAAAGCTCT
37594086 GAGCATTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.16, T:0.16
Consensus pattern (19 bp):
AAAACGCCGCTAAAGCTCT
Found at i:37594129 original size:41 final size:41
Alignment explanation
Indices: 37594067--37594163 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 41
37594057 CTAAAGCTCT
* * *
37594067 AAAACGCCGCTAAAGCTCTGAGCATTAGCGGCGATTTTTCA
1 AAAACGCCGCTAAAGCTCTGAGCATTAGCAGCGATTCTCCA
* * * *
37594108 AAAATGCCGCTAAATCTCTGAGCATTTGCAGCGCTTCTCCA
1 AAAACGCCGCTAAAGCTCTGAGCATTAGCAGCGATTCTCCA
37594149 AAAACGCCGCTAAAG
1 AAAACGCCGCTAAAG
37594164 ACCAGGGCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
AAAACGCCGCTAAAGCTCTGAGCATTAGCAGCGATTCTCCA
Found at i:37595554 original size:184 final size:184
Alignment explanation
Indices: 37595245--37595599 Score: 665
Period size: 184 Copynumber: 1.9 Consensus size: 184
37595235 GAAATTGAGG
*
37595245 TATCGATACCTCGTTTTCGAAACCATTTAACTTAATAAATTCTTCTAAAACACAATTCACTAATT
1 TATCGATACCTCGTTTTCGAAACCACTTAACTTAATAAATTCTTCTAAAACACAATTCACTAATT
*
37595310 CAAATGTCTTTCTAAAATCTCATTTGGCTCATAAACACTAAATAATAAAATATACGAGCTCACTT
66 CAAATGTCTTTCTAAAATCTCATTTGGCTCATAAACACTAAACAATAAAATATACGAGCTCACTT
*
37595375 GTCGGATTTGGTGGTCTCAAACCACTATTTCCAACATCACTTGTCGGATTTGAT
131 GTCAGATTTGGTGGTCTCAAACCACTATTTCCAACATCACTTGTCGGATTTGAT
37595429 TATCGATACCTCGTTTTCGAAACCACTTAACTTAATAAATTCTTCTAAAACACAATTCACTAATT
1 TATCGATACCTCGTTTTCGAAACCACTTAACTTAATAAATTCTTCTAAAACACAATTCACTAATT
37595494 CAAATGTCTTTCTAAAATCTCATTTGGCTCATAAACACTAAACAATAAAATATACGAGCTCACTT
66 CAAATGTCTTTCTAAAATCTCATTTGGCTCATAAACACTAAACAATAAAATATACGAGCTCACTT
* *
37595559 GTCAGATTTGGTGGTCTCGAACCACTATTTCTAACATCACT
131 GTCAGATTTGGTGGTCTCAAACCACTATTTCCAACATCACT
37595600 GAAAATCAGG
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 166 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (184 bp):
TATCGATACCTCGTTTTCGAAACCACTTAACTTAATAAATTCTTCTAAAACACAATTCACTAATT
CAAATGTCTTTCTAAAATCTCATTTGGCTCATAAACACTAAACAATAAAATATACGAGCTCACTT
GTCAGATTTGGTGGTCTCAAACCACTATTTCCAACATCACTTGTCGGATTTGAT
Found at i:37601621 original size:26 final size:27
Alignment explanation
Indices: 37601569--37601622 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
37601559 TCTAACTTGA
* * *
37601569 TTTATGGATCTTTCAAAAGCACTTTAT
1 TTTATGGACCTTTCAAAACCACATTAT
37601596 TTTATGGACCTTTC-AAACCACATTAT
1 TTTATGGACCTTTCAAAACCACATTAT
37601622 T
1 T
37601623 CATGGTCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (27 bp):
TTTATGGACCTTTCAAAACCACATTAT
Found at i:37602425 original size:32 final size:31
Alignment explanation
Indices: 37602368--37602431 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
37602358 AAAATTTAAT
*
37602368 TTTTTTAACTTTATTTATATATTTTTAGAAA
1 TTTTTTAACTTTATTTATATATTTTTAAAAA
* *
37602399 TTTTTTAA-TTTTTTTTTATAATTTTTTAAAAA
1 TTTTTTAACTTTATTTATAT-A-TTTTTAAAAA
37602431 T
1 T
37602432 ATAAATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 9 0.32
31 9 0.32
32 10 0.36
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (31 bp):
TTTTTTAACTTTATTTATATATTTTTAAAAA
Found at i:37602588 original size:18 final size:18
Alignment explanation
Indices: 37602565--37602604 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
37602555 CATAAATTTG
*
37602565 TTATTTGAATTATTCTAA
1 TTATTTGAATTATTCGAA
37602583 TTATTTGAATTATTCGAA
1 TTATTTGAATTATTCGAA
37602601 TTAT
1 TTAT
37602605 AAAATTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (18 bp):
TTATTTGAATTATTCGAA
Found at i:37604117 original size:182 final size:181
Alignment explanation
Indices: 37603806--37604171 Score: 617
Period size: 182 Copynumber: 2.0 Consensus size: 181
37603796 GTTTCAAAAG
* * * *
37603806 TATTTTTGGAAAGGAGAAGCTAAAGTTTTTATATTTTCCTTTCTCGAAAGCATTTTTAGTGCTTA
1 TATTTTTGAAAAGGAGAAGCTAAAGTTTTTAGATTTTCCTTTCTAGAAAGCACTTTTAGTGCTTA
37603871 ATTACTTTTTCACCCCTCCAACAACATAGTACTCTCTTGGTGCTTAATTACAAATTTGTTAAAAT
66 ATTACTTTTTCACCCCTCCAACAACATAGTACTCTCTTGGTGCTTAATTACAAATTTGTTAAAAT
37603936 CATTAATTAAAAATAAAAAAAAATTATTTTTTAAAATAATACAAATGTGTTAA
131 CATTAATTAAAAAT-AAAAAAAA-TATTTTTTAAAATAATACAAATGTGTTAA
* *
37603989 TATTTTTGAAAAGGAGAAGCTAAATTTTTTAGATTTTCCTTTCTAG-AAGCACTTTTGGTGCTTA
1 TATTTTTGAAAAGGAGAAGCTAAAGTTTTTAGATTTTCCTTTCTAGAAAGCACTTTTAGTGCTTA
* * *
37604053 ATTACTTTTTCACCCCTCCAATAACATAGTACTTTCTTGGTGCTTAATTACAAATTTTTTAAAAT
66 ATTACTTTTTCACCCCTCCAACAACATAGTACTCTCTTGGTGCTTAATTACAAATTTGTTAAAAT
*
37604118 CATTAATTAAAAATAAAAAATATATTTTTTAAAATAATACAAATGTGTTAA
131 CATTAATTAAAAATAAAAAAAATATTTTTTAAAATAATACAAATGTGTTAA
37604169 TAT
1 TAT
37604172 CTAATTACAA
Statistics
Matches: 173, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
180 32 0.18
181 7 0.04
182 92 0.53
183 42 0.24
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.41
Consensus pattern (181 bp):
TATTTTTGAAAAGGAGAAGCTAAAGTTTTTAGATTTTCCTTTCTAGAAAGCACTTTTAGTGCTTA
ATTACTTTTTCACCCCTCCAACAACATAGTACTCTCTTGGTGCTTAATTACAAATTTGTTAAAAT
CATTAATTAAAAATAAAAAAAATATTTTTTAAAATAATACAAATGTGTTAA
Found at i:37609702 original size:21 final size:22
Alignment explanation
Indices: 37609670--37609717 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
37609660 AAATTTTTTA
37609670 AAAAAATCTTTA-AAAAAATCAC
1 AAAAAATCTTTAGAAAAAATC-C
*
37609692 AAAAAAT-TTTAGAAAAATTCC
1 AAAAAATCTTTAGAAAAAATCC
37609713 AAAAA
1 AAAAA
37609718 TGATAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAAATCTTTAGAAAAAATCC
Found at i:37610196 original size:19 final size:19
Alignment explanation
Indices: 37610172--37610208 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37610162 CCAAAAAAAT
*
37610172 AATTTTTTAAAATTTTTTA
1 AATTTTCTAAAATTTTTTA
*
37610191 AATTTTCTAGAATTTTTT
1 AATTTTCTAAAATTTTTT
37610209 GACATGTGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
AATTTTCTAAAATTTTTTA
Found at i:37610764 original size:11 final size:11
Alignment explanation
Indices: 37610750--37610776 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37610740 TAATTTTTCT
37610750 TTTTTTTTGGA
1 TTTTTTTTGGA
37610761 TTTTTTTTGGA
1 TTTTTTTTGGA
37610772 TTTTT
1 TTTTT
37610777 AACTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (11 bp):
TTTTTTTTGGA
Found at i:37617662 original size:16 final size:16
Alignment explanation
Indices: 37617643--37617678 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
37617633 AATGGGGCTT
*
37617643 TAATGGAATAGAGATG
1 TAATAGAATAGAGATG
*
37617659 TAATAGAATAGAGTTG
1 TAATAGAATAGAGATG
37617675 TAAT
1 TAAT
37617679 CAATAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (16 bp):
TAATAGAATAGAGATG
Found at i:37617923 original size:60 final size:59
Alignment explanation
Indices: 37617857--37618014 Score: 167
Period size: 60 Copynumber: 2.6 Consensus size: 59
37617847 TTTTAATAAG
* *
37617857 ATTATTATTAAATCTAATTTAATAAAAATATTA-ATAAATAAATAATCATATTTTAACATA
1 ATTATTATTAAATCTAATTTAATAAAAATAATATATAAATAAATAA-CAT-TCTTAACATA
* * * *
37617917 ATTATTATTAAATAC-AATTTTATAAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAAT-CTAATTTAATAAAAATAATATATAAATAAATAACATTCTTAACATA
* * * *
37617976 ATAATTATTAAAATATAAATTAATAAAAATCATAATATA
1 ATTATTATT-AAATCTAATTTAATAAAAATAAT-ATATA
37618015 TATTTAAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
59 16 0.20
60 50 0.61
61 16 0.20
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (59 bp):
ATTATTATTAAATCTAATTTAATAAAAATAATATATAAATAAATAACATTCTTAACATA
Found at i:37617993 original size:39 final size:37
Alignment explanation
Indices: 37617949--37618039 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 37
37617939 TAAAAATAAT
* * * *
37617949 ATATAATTTAATAACATTCTTAATATAATAATTATTAAA
1 ATATAATTTAATAAAAATCATAATAT-ATAATTA-AAAA
* *
37617988 ATATAAATTAATAAAAATCATAATATATATTTAAAAA
1 ATATAATTTAATAAAAATCATAATATATAATTAAAAA
*
37618025 ATATAATAT-ATAAAA
1 ATATAATTTAATAAAA
37618040 CATTTATATA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 6 0.14
37 10 0.23
38 6 0.14
39 22 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (37 bp):
ATATAATTTAATAAAAATCATAATATATAATTAAAAA
Found at i:37618012 original size:22 final size:20
Alignment explanation
Indices: 37617987--37618034 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
37617977 TAATTATTAA
37617987 AATATAAATTAATAAAAATCAT
1 AATATAAATTAA-AAAAAT-AT
* *
37618009 AATATATATTTAAAAAATAT
1 AATATAAATTAAAAAAATAT
37618029 AATATA
1 AATATA
37618035 TAAAACATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 6 0.25
22 10 0.42
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AATATAAATTAAAAAAATAT
Found at i:37619890 original size:30 final size:31
Alignment explanation
Indices: 37619851--37619910 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
37619841 GGAGGTGGGA
*
37619851 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
37619882 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
37619911 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:37619969 original size:30 final size:30
Alignment explanation
Indices: 37619934--37620006 Score: 146
Period size: 30 Copynumber: 2.4 Consensus size: 30
37619924 GGGCTTTTGG
37619934 GAGTAAAATTTTGAGAAAAAGTAAATGGGA
1 GAGTAAAATTTTGAGAAAAAGTAAATGGGA
37619964 GAGTAAAATTTTGAGAAAAAGTAAATGGGA
1 GAGTAAAATTTTGAGAAAAAGTAAATGGGA
37619994 GAGTAAAATTTTG
1 GAGTAAAATTTTG
37620007 GTGAGAAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (30 bp):
GAGTAAAATTTTGAGAAAAAGTAAATGGGA
Found at i:37620111 original size:29 final size:30
Alignment explanation
Indices: 37620051--37620111 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
37620041 GGATGAGAGG
* ***
37620051 GGAGTAAAAGTTTTTGGGGGAAAGTGGGAA
1 GGAGTAAAAGTTTTTGAGGGAAAGTAAAAA
37620081 GGAGTAAAAG-TTTTGAGGGAAAGTAAAAA
1 GGAGTAAAAGTTTTTGAGGGAAAGTAAAAA
37620110 GG
1 GG
37620112 TTTGGGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (30 bp):
GGAGTAAAAGTTTTTGAGGGAAAGTAAAAA
Found at i:37620485 original size:94 final size:94
Alignment explanation
Indices: 37620318--37620507 Score: 335
Period size: 94 Copynumber: 2.0 Consensus size: 94
37620308 ACTCCTATTT
37620318 GTAATGCATTCAAATCGTTCTATTAGTGGGTAACTAAGCTTTCATTCGAAAAGTCTTAGAGGTGG
1 GTAATGCATTCAAATCGTTCTATTAGTGGGTAACTAAGCTTTCATTCGAAAAGTCTTAGAGGTGG
37620383 AATAATCTAGTTCTAAGTATACGAGTGAG
66 AATAATCTAGTTCTAAGTATACGAGTGAG
* * *
37620412 GTAATGTATTCAAATTGTTCTATTAGTGGGTAACTAAGCTTTCATTCGGAAAGTCTTAGAGGTGG
1 GTAATGCATTCAAATCGTTCTATTAGTGGGTAACTAAGCTTTCATTCGAAAAGTCTTAGAGGTGG
* *
37620477 AGTGATCTAGTTCTAAGTATACGAGTGAG
66 AATAATCTAGTTCTAAGTATACGAGTGAG
37620506 GT
1 GT
37620508 TACAATTTAA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (94 bp):
GTAATGCATTCAAATCGTTCTATTAGTGGGTAACTAAGCTTTCATTCGAAAAGTCTTAGAGGTGG
AATAATCTAGTTCTAAGTATACGAGTGAG
Found at i:37621168 original size:16 final size:16
Alignment explanation
Indices: 37621147--37621183 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
37621137 GGATGACACG
37621147 TGGCTCCTTGAGATCA
1 TGGCTCCTTGAGATCA
37621163 TGGCTCCTTGAGATCA
1 TGGCTCCTTGAGATCA
37621179 TGGCT
1 TGGCT
37621184 TAGGGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.32
Consensus pattern (16 bp):
TGGCTCCTTGAGATCA
Found at i:37626250 original size:10 final size:10
Alignment explanation
Indices: 37626235--37626263 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
37626225 ATTATTATTT
37626235 TAAATATATA
1 TAAATATATA
37626245 TAAATATATA
1 TAAATATATA
37626255 -AAATATATA
1 TAAATATATA
37626264 AAAGCCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAATATATA
Found at i:37626260 original size:9 final size:9
Alignment explanation
Indices: 37626236--37626266 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
37626226 TTATTATTTT
37626236 AAATATATA
1 AAATATATA
37626245 TAAATATATA
1 -AAATATATA
37626255 AAATATATA
1 AAATATATA
37626264 AAA
1 AAA
37626267 GCCTTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATATATA
Found at i:37641101 original size:19 final size:19
Alignment explanation
Indices: 37641046--37641100 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
37641036 TCAACAAAAA
37641046 TTATAAAAAAGTTCAAAATAT
1 TTAT-AAAAA-TTCAAAATAT
* *
37641067 TTTTCAAAATTCAAAATAT
1 TTATAAAAATTCAAAATAT
37641086 TTATAAAAATT-AAAA
1 TTATAAAAATTCAAAA
37641101 AAATTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 4 0.13
19 19 0.63
20 4 0.13
21 3 0.10
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (19 bp):
TTATAAAAATTCAAAATAT
Found at i:37641107 original size:18 final size:19
Alignment explanation
Indices: 37641036--37641108 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
37641026 TTGGTCTCTC
37641036 TCAACAAAAATTATAAAAAAGT
1 TCAA-AAAAATTAT-AAAAA-T
* * * *
37641058 TCAAAATATTTTTCAAAAT
1 TCAAAAAAATTATAAAAAT
* *
37641077 TCAAAATATTTATAAAAAT
1 TCAAAAAAATTATAAAAAT
37641096 T-AAAAAAATTATA
1 TCAAAAAAATTATA
37641109 TTTTTTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 10 0.23
19 19 0.44
20 4 0.09
21 6 0.14
22 4 0.09
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (19 bp):
TCAAAAAAATTATAAAAAT
Found at i:37648672 original size:328 final size:328
Alignment explanation
Indices: 37648075--37648728 Score: 1164
Period size: 328 Copynumber: 2.0 Consensus size: 328
37648065 CATGAAATCT
37648075 ATAGGACTTGCTCAACACTAATAAAGACTAAGATAAGTAAGTTTATCCCTGATTAGTTACTAAGC
1 ATAGGACTTGCTCAACACTAATAAAGACTAAGATAAGTAAGTTTATCCCTGATTAGTTACTAAGC
*
37648140 TTTTTAAGCTCACACATTAGTTGTTTAACACGTGTAGGTTTGGACTTACATAGAAGTCATGATGT
66 TTTTTAAGCTCACACATTAGTTGTTTAACACGTGTAGGTTTGGACTTACATAGAAGTCATAATGT
*
37648205 TGGCTTAGGAGCATCACATCATCCATCGAGCTTCTAAGGATGTAATTCAAGCATTTAAATACCAT
131 TGGCTTAGGAGCATCACATCATCCATCGAGCTTCTAAGGATGTAATTCAAACATTTAAATACCAT
37648270 TTGTATTGGATTATTGGAATATATACAAAAACTTAAATTGCTTGAGCAATTGTAAACTTAGATGA
196 TTGTATTGGATTATTGGAATATATACAAAAACTTAAATTGCTTGAGCAATTGTAAACTTAGATGA
* *
37648335 TGAACTTGAGCTTCTTTTGTGTTTCTATTAAAAAATATATGTATATTTTGTTTTGGACGTGTTCA
261 TGAACTTGAGCCTCTTTTGTGTTTCTATTAAAAAATATATGTATATTTTGTTTTGGACGTGCTCA
37648400 TCC
326 TCC
* *
37648403 ATAGGACTTGCTCAACACTAATAAAGACTAAGATAAGTAAGTTTATCCCTGATTAGTTATTGAGC
1 ATAGGACTTGCTCAACACTAATAAAGACTAAGATAAGTAAGTTTATCCCTGATTAGTTACTAAGC
37648468 TTTTTAAGCTCACACATTAGTTGTTTAACACGTGTAGGTTTGGACTTACATAGAAGTCATAATGT
66 TTTTTAAGCTCACACATTAGTTGTTTAACACGTGTAGGTTTGGACTTACATAGAAGTCATAATGT
* * * * *
37648533 TGGCTTGGGAGCATCATATCATCCATCGAGCTTCTAAGGTTGTAATTCAAACGTTTAAATTCCAT
131 TGGCTTAGGAGCATCACATCATCCATCGAGCTTCTAAGGATGTAATTCAAACATTTAAATACCAT
* * * *
37648598 TTGTATTGGATTATTGGCATATATACAAAAACTTAGATTTCTTGAGCAATTGTAAAGTTAGATGA
196 TTGTATTGGATTATTGGAATATATACAAAAACTTAAATTGCTTGAGCAATTGTAAACTTAGATGA
*
37648663 TGAACTTGAGCCTCTTTTGTGTTTCTCTTAAAAAATATATGTATATTTTGTTTTGGACGTGCTCA
261 TGAACTTGAGCCTCTTTTGTGTTTCTATTAAAAAATATATGTATATTTTGTTTTGGACGTGCTCA
37648728 T
326 T
37648729 GCCAAGTTTT
Statistics
Matches: 310, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
328 310 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (328 bp):
ATAGGACTTGCTCAACACTAATAAAGACTAAGATAAGTAAGTTTATCCCTGATTAGTTACTAAGC
TTTTTAAGCTCACACATTAGTTGTTTAACACGTGTAGGTTTGGACTTACATAGAAGTCATAATGT
TGGCTTAGGAGCATCACATCATCCATCGAGCTTCTAAGGATGTAATTCAAACATTTAAATACCAT
TTGTATTGGATTATTGGAATATATACAAAAACTTAAATTGCTTGAGCAATTGTAAACTTAGATGA
TGAACTTGAGCCTCTTTTGTGTTTCTATTAAAAAATATATGTATATTTTGTTTTGGACGTGCTCA
TCC
Found at i:37660493 original size:5 final size:5
Alignment explanation
Indices: 37660483--37660507 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37660473 AATGCCCCAT
37660483 CAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA
37660508 GAAAGCTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:37661153 original size:86 final size:86
Alignment explanation
Indices: 37661008--37661182 Score: 350
Period size: 86 Copynumber: 2.0 Consensus size: 86
37660998 AGCCACTTAA
37661008 AAACGTTTACTTTTCAAAAACATTTATGTGCCACGAAAAATGACGATCGTAAGTATCGAAATAGG
1 AAACGTTTACTTTTCAAAAACATTTATGTGCCACGAAAAATGACGATCGTAAGTATCGAAATAGG
37661073 TATGAAATAAAGGCGAGTTGC
66 TATGAAATAAAGGCGAGTTGC
37661094 AAACGTTTACTTTTCAAAAACATTTATGTGCCACGAAAAATGACGATCGTAAGTATCGAAATAGG
1 AAACGTTTACTTTTCAAAAACATTTATGTGCCACGAAAAATGACGATCGTAAGTATCGAAATAGG
37661159 TATGAAATAAAGGCGAGTTGC
66 TATGAAATAAAGGCGAGTTGC
37661180 AAA
1 AAA
37661183 AGTACTAAGC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (86 bp):
AAACGTTTACTTTTCAAAAACATTTATGTGCCACGAAAAATGACGATCGTAAGTATCGAAATAGG
TATGAAATAAAGGCGAGTTGC
Found at i:37661661 original size:18 final size:20
Alignment explanation
Indices: 37661621--37661672 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
37661611 AAAATTACAA
*
37661621 AAAAATTTAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
*
37661640 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
37661659 AAAAATATCAAAAT
1 AAAAAT-TCAAAAT
37661673 TTATATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 17 0.61
20 7 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:37661751 original size:40 final size:41
Alignment explanation
Indices: 37661681--37661760 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
37661671 ATTTATATTT
37661681 TAAAAAAATTATAAACTTTTTAAAAAATTCTAAAA-AATATA
1 TAAAAAAATTATAAAC-TTTTAAAAAATTCTAAAATAATATA
37661722 TAAAAAAATTGA-AAA-TTTTAAAAATATTCTAAAATAATA
1 TAAAAAAATT-ATAAACTTTTAAAAA-ATTCTAAAATAATA
37661761 ATTTTGGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
39 9 0.25
40 9 0.25
41 17 0.47
42 1 0.03
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (41 bp):
TAAAAAAATTATAAACTTTTAAAAAATTCTAAAATAATATA
Found at i:37661755 original size:19 final size:19
Alignment explanation
Indices: 37661677--37661756 Score: 72
Period size: 19 Copynumber: 4.1 Consensus size: 19
37661667 CAAAATTTAT
*
37661677 ATTTTAAAAAAATTATAAA
1 ATTTTAAAAAAATTCTAAA
* *
37661696 CTTTTTAAAAAATTCTAAAAA
1 ATTTTAAAAAAATTCT--AAA
* *
37661717 ATATATAAAAAAATT-GAAA
1 AT-TTTAAAAAAATTCTAAA
*
37661736 ATTTTAAAAATATTCTAAA
1 ATTTTAAAAAAATTCTAAA
37661755 AT
1 AT
37661757 AATAATTTTG
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
18 10 0.21
19 23 0.49
21 4 0.09
22 10 0.21
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (19 bp):
ATTTTAAAAAAATTCTAAA
Done.