Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 213 of 226
Found at i:63525576 original size:72 final size:72
Alignment explanation
Indices: 63525482--63525786 Score: 457
Period size: 72 Copynumber: 4.2 Consensus size: 72
63525472 GAGGAAAAGT
* * **
63525482 ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGATAACTGTCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAGG
63525547 GAATTTG
66 GAATTTG
* * * * *
63525554 GCCGTTTAATTGATTTTTTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAGG
63525619 GAATTTG
66 GAATTTG
** * *
63525626 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAGG
63525691 GAATTTG
66 GAATTTG
* * * *
63525698 ACCATTTAATTGATTTTCTGAAACATGAAACAACTTCAGAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAGG
63525763 GAATTTG
66 GAATTTG
63525770 ACCATTTAATTGATTTT
1 ACCATTTAATTGATTTT
63525787 GTGCAAGATA
Statistics
Matches: 207, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 207 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.31
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAGG
GAATTTG
Found at i:63525742 original size:144 final size:144
Alignment explanation
Indices: 63525482--63525786 Score: 531
Period size: 144 Copynumber: 2.1 Consensus size: 144
63525472 GAGGAAAAGT
* *
63525482 ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGATAACTGTCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
* * *
63525547 GAATTTGGCCGTTTAATTGATTTTTTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATA
66 GAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATA
63525612 GACAATGGAATTTG
131 GACAATGGAATTTG
63525626 ACCATTTAATTGATTTTCTGAAACATCAAACT-CCTCCAAAGATGACAACTGCCCTATAGACAAG
1 ACCATTTAATTGATTTTCTGAAACATCAAA-TACCTCCAAAGATGACAACTGCCCTATAGACAAG
* *
63525690 GGAATTTGACCATTTAATTGATTTTCTGAAACATGAAACAACTTCAGAGATGATAACTCCCCTAT
65 GGAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTAT
63525755 AGACAATGGAATTTG
130 AGACAATGGAATTTG
63525770 ACCATTTAATTGATTTT
1 ACCATTTAATTGATTTT
63525787 GTGCAAGATA
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
144 152 0.99
145 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.31
Consensus pattern (144 bp):
ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
GAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATA
GACAATGGAATTTG
Found at i:63531861 original size:119 final size:119
Alignment explanation
Indices: 63531647--63531862 Score: 317
Period size: 119 Copynumber: 1.8 Consensus size: 119
63531637 TTGATAGCAA
* * * *
63531647 TGATTAATTTTCTAACCGTGGATACGTTCTGAAACGTTAAATGAGTGACAATAAAATGTGTTCCA
1 TGATTAATTTTCTAAACGTGGATACGTTCTGAAAAGATAAATGAGTGACAATAAAATGTATTCCA
*
63531712 TTTTTGTGAGCGGGATTAAAAATTATTTTTTTCGATACCCATCATCGGTAATAG
66 TTTTCGTGAGCGGGATTAAAAATTATTTTTTTCGATACCCATCATCGGTAATAG
* * * *
63531766 TGATTAATTTTCTAAATGTGGATGC-TTGCTGAAAAGATAAATGATTGACAATAAAATGTATTCT
1 TGATTAATTTTCTAAACGTGGATACGTT-CTGAAAAGATAAATGAGTGACAATAAAATGTATTCC
*
63531830 ATTTTCGTGAGTGGAGATTAAAAATTATTTTTT
65 ATTTTCGTGAGCGG-GATTAAAAATTATTTTTT
63531863 AATTATTTGA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
118 2 0.02
119 65 0.76
120 18 0.21
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (119 bp):
TGATTAATTTTCTAAACGTGGATACGTTCTGAAAAGATAAATGAGTGACAATAAAATGTATTCCA
TTTTCGTGAGCGGGATTAAAAATTATTTTTTTCGATACCCATCATCGGTAATAG
Found at i:63537027 original size:72 final size:72
Alignment explanation
Indices: 63536936--63537392 Score: 593
Period size: 72 Copynumber: 6.3 Consensus size: 72
63536926 AAAAGTACTA
* *
63536936 TTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGATAACTGCCTTATAGACAAGGGAAT
1 TTTAATTGATTTTCTGAAACATCAAATAACTCCAAAGATGATAACTGCCCTATAGACAAGGGAAT
63537001 TTGGCCG
66 TTGGCCG
* * * * *
63537008 CTTAACTGATTTT-TCGAAACATCAAACAACTTCAAAGATGA-AACCT-CTCCTATAGACAATGG
1 TTTAATTGATTTTCT-GAAACATCAAATAACTCCAAAGATGATAA-CTGC-CCTATAGACAAGGG
* *
63537070 AATTTGACCA
63 AATTTGGCCG
* * *
63537080 TTTAATTGATTTTCTGAAACATCAAACT-CCTCTAAAGATGACAACTGCCCTATAGACAAGGGAA
1 TTTAATTGATTTTCTGAAACATCAAA-TAACTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
63537144 TTTGGCCG
65 TTTGGCCG
* * * *
63537152 TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACGGAAT
1 TTTAATTGATTTTCTGAAACATCAAATAACTCCAAAGATGATAACTGCCCTATAGACAAGGGAAT
*
63537217 TTGACCG
66 TTGGCCG
*
63537224 TTTAATTGATTTTCTGAAACATCAAACT-CCTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
1 TTTAATTGATTTTCTGAAACATCAAA-TAACTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
63537288 TTTGGCCG
65 TTTGGCCG
* * * *
63537296 TTTAACTGATTTTTTGAAACATCAAATAACTTCAAAGATGATAACT-CTCCTATAGACAATGGAA
1 TTTAATTGATTTTCTGAAACATCAAATAACTCCAAAGATGATAACTGC-CCTATAGACAAGGGAA
* *
63537360 TTTGACCA
65 TTTGGCCG
*
63537368 TTTAATTGATTTTCTGAAAGATCAA
1 TTTAATTGATTTTCTGAAACATCAA
63537393 GCTGAGTAAC
Statistics
Matches: 332, Mismatches: 42, Indels: 22
0.84 0.11 0.06
Matches are distributed among these distances:
71 6 0.02
72 322 0.97
73 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (72 bp):
TTTAATTGATTTTCTGAAACATCAAATAACTCCAAAGATGATAACTGCCCTATAGACAAGGGAAT
TTGGCCG
Found at i:63537204 original size:144 final size:143
Alignment explanation
Indices: 63536935--63537392 Score: 767
Period size: 144 Copynumber: 3.2 Consensus size: 143
63536925 GAAAAGTACT
*
63536935 ATTTAATTGATTTTCTGAAACATCAAA-TACCTCCAAAGATGATAACTGCCTTATAGACAAGGGA
1 ATTTAATTGATTTTCTGAAACATCAAACT-CCTCCAAAGATGATAACTGCCCTATAGACAAGGGA
*
63536999 ATTTGGCCGCTTAACTGATTTTTCGAAACATCAAACAACTTCAAAGATGA-AACCTCTCCTATAG
65 ATTTGGCCGTTTAACTGATTTTT-GAAACATCAAACAACTTCAAAGATGATAA-CTCTCCTATAG
63537063 ACAATGGAATTTGACC
128 ACAATGGAATTTGACC
* *
63537079 ATTTAATTGATTTTCTGAAACATCAAACTCCTCTAAAGATGACAACTGCCCTATAGACAAGGGAA
1 ATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
* *
63537144 TTTGGCCGTTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGAC
66 TTTGGCCGTTTAACTGATTTT-TGAAACATCAAACAACTTCAAAGATGATAACTCTCCTATAGAC
*
63537209 AACGGAATTTGACC
130 AATGGAATTTGACC
*
63537223 GTTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
1 ATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
*
63537288 TTTGGCCGTTTAACTGATTTTTTGAAACATCAAATAACTTCAAAGATGATAACTCTCCTATAGAC
66 TTTGGCCGTTTAACTGA-TTTTTGAAACATCAAACAACTTCAAAGATGATAACTCTCCTATAGAC
63537353 AATGGAATTTGACC
130 AATGGAATTTGACC
*
63537367 ATTTAATTGATTTTCTGAAAGATCAA
1 ATTTAATTGATTTTCTGAAACATCAA
63537393 GCTGAGTAAC
Statistics
Matches: 294, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
144 286 0.97
145 8 0.03
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (143 bp):
ATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
TTTGGCCGTTTAACTGATTTTTGAAACATCAAACAACTTCAAAGATGATAACTCTCCTATAGACA
ATGGAATTTGACC
Found at i:63539278 original size:12 final size:12
Alignment explanation
Indices: 63539261--63539285 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63539251 GAAAAATTAA
63539261 AAATTTAAAAAT
1 AAATTTAAAAAT
63539273 AAATTTAAAAAT
1 AAATTTAAAAAT
63539285 A
1 A
63539286 TGATTCTTTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTTAAAAAT
Found at i:63539792 original size:17 final size:18
Alignment explanation
Indices: 63539770--63539807 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
63539760 GTAATGAATC
*
63539770 ACAAATAATCAATA-AAT
1 ACAAATAAGCAATACAAT
63539787 ACAAATAAGCAATACAAT
1 ACAAATAAGCAATACAAT
63539805 ACA
1 ACA
63539808 CAAGAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.63, C:0.16, G:0.03, T:0.18
Consensus pattern (18 bp):
ACAAATAAGCAATACAAT
Found at i:63540014 original size:27 final size:28
Alignment explanation
Indices: 63539982--63540040 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
63539972 AATTATAATC
** *
63539982 AATAAATTGTATATATAA-AAATTTTAA
1 AATAAATAATATATATAAGAAAGTTTAA
*
63540009 AATAAATAATATATATAAGAAAGTTTGA
1 AATAAATAATATATATAAGAAAGTTTAA
63540037 AATA
1 AATA
63540041 GATTAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (28 bp):
AATAAATAATATATATAAGAAAGTTTAA
Found at i:63540329 original size:17 final size:18
Alignment explanation
Indices: 63540309--63540342 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63540299 ATAAATAAAA
*
63540309 AATAATA-ATATGAAATC
1 AATAATATATATAAAATC
63540326 AATAATATATATAAAAT
1 AATAATATATATAAAAT
63540343 AAAAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
AATAATATATATAAAATC
Found at i:63540329 original size:24 final size:26
Alignment explanation
Indices: 63540282--63540330 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
63540272 TAAAAGAAAT
*
63540282 AAATTATATATATAGAAATAAATAAA
1 AAATAATATATATAGAAATAAATAAA
*
63540308 AAATAATA-ATAT-GAAATCAATAA
1 AAATAATATATATAGAAATAAATAA
63540331 TATATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 4 0.19
26 7 0.33
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (26 bp):
AAATAATATATATAGAAATAAATAAA
Found at i:63540389 original size:17 final size:19
Alignment explanation
Indices: 63540353--63540390 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63540343 AAAAAATTTA
*
63540353 ATATAAACTATGTATGTAT
1 ATATAAAATATGTATGTAT
63540372 ATATAAAATA-GTAT-TAT
1 ATATAAAATATGTATGTAT
63540389 AT
1 AT
63540391 GAGAGTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 9 0.50
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (19 bp):
ATATAAAATATGTATGTAT
Found at i:63540563 original size:23 final size:23
Alignment explanation
Indices: 63540518--63540607 Score: 108
Period size: 23 Copynumber: 3.8 Consensus size: 23
63540508 AAAATCATAG
*
63540518 ATGATAAGTTCAAAATAATAATAC
1 ATGATAACTT-AAAATAATAATAC
* *
63540542 ATGATAACTTTAAATAAAAATAC
1 ATGATAACTTAAAATAATAATAC
*
63540565 ATGATAAACTTAAAATAATAATAT
1 ATGAT-AACTTAAAATAATAATAC
* *
63540589 ATTATAAATTAAAATAATA
1 ATGATAACTTAAAATAATA
63540608 TTGATGATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
23 29 0.51
24 28 0.49
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (23 bp):
ATGATAACTTAAAATAATAATAC
Found at i:63545438 original size:72 final size:72
Alignment explanation
Indices: 63545347--63545587 Score: 335
Period size: 72 Copynumber: 3.3 Consensus size: 72
63545337 AAAAGTACCA
63545347 TTTAATTGATTTTCTGAAACAT-ATAATACCTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
1 TTTAATTGATTTTCTGAAACATCA-AATACCTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
63545411 TTTGGCCG
65 TTTGGCCG
* * * * * * *
63545419 CTTAACTGATTTT-TCGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAA
1 TTTAATTGATTTTCT-GAAACATCAAATACCTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
* *
63545483 TTTGACCA
65 TTTGGCCG
*
63545491 TTTAATTGATTTTCTGAAACATCAAACT-CCTCCAAAGATGACAACTGCCCTATAGACAAGGGAA
1 TTTAATTGATTTTCTGAAACATCAAA-TACCTCCAAAGATGATAACTGCCCTATAGACAAGGGAA
63545555 TTTGGCCG
65 TTTGGCCG
*
63545563 TTTAATTGATTTACTGAAACATCAA
1 TTTAATTGATTTTCTGAAACATCAA
63545588 GCTGAGTAAC
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
71 1 0.01
72 142 0.98
73 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (72 bp):
TTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGATAACTGCCCTATAGACAAGGGAAT
TTGGCCG
Found at i:63556341 original size:56 final size:53
Alignment explanation
Indices: 63556263--63556370 Score: 119
Period size: 56 Copynumber: 2.0 Consensus size: 53
63556253 TATTTTATAA
* * * * *
63556263 TCTATATACCTTTTTTATTTTCA-TATATATATACATACGTACTCATATATTTTTG
1 TCTATATACATTTTCTACTTTCACGA-ATATATACACACGTA-T-ATATATTTTTG
*
63556318 TCTATATACATCTTTCTACTTTCACGAATATATACACACTTATATATATTTTT
1 TCTATATACAT-TTTCTACTTTCACGAATATATACACACGTATATATATTTTT
63556371 TATATTTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
54 10 0.22
55 11 0.24
56 23 0.51
57 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.50
Consensus pattern (53 bp):
TCTATATACATTTTCTACTTTCACGAATATATACACACGTATATATATTTTTG
Found at i:63558628 original size:14 final size:14
Alignment explanation
Indices: 63558609--63558644 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
63558599 AACGTCTCTT
63558609 TTTGCATTCATGCA
1 TTTGCATTCATGCA
63558623 TTTGCATTCATGCA
1 TTTGCATTCATGCA
*
63558637 TCTGCATT
1 TTTGCATT
63558645 ACATTGCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.44
Consensus pattern (14 bp):
TTTGCATTCATGCA
Found at i:63560012 original size:10 final size:10
Alignment explanation
Indices: 63559997--63560055 Score: 66
Period size: 10 Copynumber: 5.8 Consensus size: 10
63559987 AGTGGAGGCA
63559997 AAAAAAAAGT
1 AAAAAAAAGT
*
63560007 AAAAAAAAGC
1 AAAAAAAAGT
63560017 AAAAAAAAG-
1 AAAAAAAAGT
*
63560026 AACAAAAAAAT
1 AA-AAAAAAGT
*
63560037 AAAAAAAAAT
1 AAAAAAAAGT
63560047 AAGAAAAAA
1 AA-AAAAAA
63560056 ACCTCTACCG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
9 2 0.05
10 34 0.77
11 8 0.18
ACGTcount: A:0.85, C:0.03, G:0.07, T:0.05
Consensus pattern (10 bp):
AAAAAAAAGT
Found at i:63560019 original size:21 final size:22
Alignment explanation
Indices: 63559994--63560055 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
63559984 CTCAGTGGAG
63559994 GCAAAAAAAAAGTAA-AAAAAA
1 GCAAAAAAAAAGTAACAAAAAA
63560015 GC-AAAAAAAAG-AACAAAAAA
1 GCAAAAAAAAAGTAACAAAAAA
** *
63560035 ATAAAAAAAAA-TAAGAAAAAA
1 GCAAAAAAAAAGTAACAAAAAA
63560056 ACCTCTACCG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 15 0.43
21 18 0.51
ACGTcount: A:0.82, C:0.05, G:0.08, T:0.05
Consensus pattern (22 bp):
GCAAAAAAAAAGTAACAAAAAA
Found at i:63560510 original size:18 final size:19
Alignment explanation
Indices: 63560487--63560534 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
63560477 TTCATTTGAA
*
63560487 AAAAAAGAAACGAA-AAAG
1 AAAAAAGAAAAGAAGAAAG
* *
63560505 AAAAAAGAAAATAAGAATG
1 AAAAAAGAAAAGAAGAAAG
63560524 AAAAAAGAAAA
1 AAAAAAGAAAA
63560535 AGGAGAGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (19 bp):
AAAAAAGAAAAGAAGAAAG
Found at i:63560521 original size:26 final size:26
Alignment explanation
Indices: 63560486--63560535 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
63560476 CTTCATTTGA
63560486 AAAAAAAGAAACG-AAAAAGAAAAAAG
1 AAAAAAAG-AACGAAAAAAGAAAAAAG
* *
63560512 AAAATAAGAATGAAAAAAGAAAAA
1 AAAAAAAGAACGAAAAAAGAAAAA
63560536 GGAGAGGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (26 bp):
AAAAAAAGAACGAAAAAAGAAAAAAG
Found at i:63561745 original size:86 final size:86
Alignment explanation
Indices: 63561507--63562203 Score: 1081
Period size: 86 Copynumber: 8.1 Consensus size: 86
63561497 CAGTAAAAAC
* * * * *
63561507 CGAAGACAAACCTTGTCTCTCTTGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCC
1 CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
*
63561572 TGCATTGACGGCGAAGCAGAT
66 TGCATTGACAGCGAAGCAGAT
* * *
63561593 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTT
1 CGAAG--ACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTT
63561658 CCTGCATTGACAGCGAAGCAGAT
64 CCTGCATTGACAGCGAAGCAGAT
*
63561681 CGAAAACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
1 CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
* *
63561746 TGCATTAACAGTGAAGCAGAT
66 TGCATTGACAGCGAAGCAGAT
63561767 CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
1 CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
* **
63561832 TGCATTGAGAATGAAGCAGAT
66 TGCATTGACAGCGAAGCAGAT
* *
63561853 CGAAGACTAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
1 CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
63561918 TGCATTGACAGCGAAGCAGAT
66 TGCATTGACAGCGAAGCAGAT
*
63561939 CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGTTGGTTGAAGATAGCAGATCTTGCCTTCC
1 CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
63562004 TGCATTGACAGCGAAGCAGAT
66 TGCATTGACAGCGAAGCAGAT
*
63562025 CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCCTGCCTTCC
1 CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
* *
63562090 TGCATTGACAGCAAAGTAGAT
66 TGCATTGACAGCGAAGCAGAT
** * * * **
63562111 CGAAGACAAACCTTGTATCTCTCATTTGTAGCAGAGCTGATTGAAAATTCCAGATCTTGCCTTAC
1 CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTT-C
* *
63562176 C-GTATTTGGCAGCGAAGCAGAT
65 CTGCA-TTGACAGCGAAGCAGAT
63562198 CGAAGA
1 CGAAGA
63562204 TGACAAATTT
Statistics
Matches: 570, Mismatches: 37, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
86 466 0.82
87 22 0.04
88 82 0.14
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (86 bp):
CGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
TGCATTGACAGCGAAGCAGAT
Found at i:63562288 original size:45 final size:46
Alignment explanation
Indices: 63562229--63562424 Score: 131
Period size: 45 Copynumber: 4.4 Consensus size: 46
63562219 CCCTGACTAT
* * *
63562229 AGTGGAGTACATTGAAGCCGATA-ACTCTATCTCCCTGTATTTGGC
1 AGTGGAATAGATTGAAGCTGATAGACTCTATCTCCCTGTATTTGGC
* *
63562274 AGTGGAATAGATTGAAGATTG-TAGA-TCT-TGCCTTCCTGTATTTGGC
1 AGTGGAATAGATTGAAG-CTGATAGACTCTAT--CTCCCTGTATTTGGC
* * * * * * * * * *
63562320 AG-CGAAGCAGATCGAAGATGGTAGATTTTACCTCCCTG-A-CT-AC
1 AGTGGAA-TAGATTGAAGCTGATAGACTCTATCTCCCTGTATTTGGC
* * *
63562363 AGTGGAGTACATTGAAGCTGATA-ACTCTATCTCCCTGTATTTGGT
1 AGTGGAATAGATTGAAGCTGATAGACTCTATCTCCCTGTATTTGGC
63562408 AGTGGAATAGATTGAAG
1 AGTGGAATAGATTGAAG
63562425 ATTGCAGATC
Statistics
Matches: 110, Mismatches: 29, Indels: 24
0.67 0.18 0.15
Matches are distributed among these distances:
42 11 0.10
43 15 0.14
44 5 0.05
45 41 0.37
46 36 0.33
47 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (46 bp):
AGTGGAATAGATTGAAGCTGATAGACTCTATCTCCCTGTATTTGGC
Found at i:63562320 original size:46 final size:46
Alignment explanation
Indices: 63562259--63562455 Score: 158
Period size: 46 Copynumber: 4.4 Consensus size: 46
63562249 ATAACTCTAT
63562259 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGC
* * * * * * *
63562305 CTTCCTGTATTTGGCAG-CGAAGCAGATCGAAGATGGTAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGTAGATCTTGC
* * * * *
63562351 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CTGATA-ACTCTAT--
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTG-TAGA-TCT-TGC
* *
63562393 CTCCCTGTATTTGGTAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGC
* *
63562439 CTTCCTGTATATGGCAG
1 CTCCCTGTATTTGGCAG
63562456 CGAAGCAAAT
Statistics
Matches: 111, Mismatches: 28, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
42 9 0.08
43 15 0.14
44 6 0.05
45 23 0.21
46 58 0.52
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGC
Found at i:63562389 original size:134 final size:134
Alignment explanation
Indices: 63562149--63562560 Score: 691
Period size: 134 Copynumber: 3.1 Consensus size: 134
63562139 TAGCAGAGCT
* * * *
63562149 GATTGAAAATTCCAGATCTTGCCTTACC-GTATTTGGCAGCGAAGCAGATCGAAGATGACAAATT
1 GATTGAAGATTGCAGATCTTGCCTT-CCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATT
*
63562213 TTACCTCCCTGACTATAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTG
65 TTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTG
63562278 GAATA
130 GAATA
* *
63562283 GATTGAAGATTGTAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGTAGATTT
1 GATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTT
* *
63562348 TACCTCCCTGACTACAGTGGAGTACATTGAAGCTGATAACTCTATCTCCCTGTATTTGGTAGTGG
66 TACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
63562413 AATA
131 AATA
* *
63562417 GATTGAAGATTGCAGATCTTGCCTTCCTGTATATGGCAGCGAAGCAAATCGAAGATGGCAGATTT
1 GATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTT
*
63562482 TACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTAGCAGTGG
66 TACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
63562547 AATA
131 AATA
*
63562551 GGTTGAAGAT
1 GATTGAAGAT
63562561 CAAAGATGGC
Statistics
Matches: 260, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
133 2 0.01
134 258 0.99
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (134 bp):
GATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTT
TACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
AATA
Found at i:63564444 original size:56 final size:53
Alignment explanation
Indices: 63564366--63564473 Score: 119
Period size: 56 Copynumber: 2.0 Consensus size: 53
63564356 TATTCTATAA
* * * * *
63564366 TCTATATACCTTTTTTATTTTCA-TATATATATACATACGTACTCATATATTTTTG
1 TCTATATACATTTTCTACTTTCACGA-ATATATACACACGTA-T-ATATATTTTTG
*
63564421 TCTATATACATCTTTCTACTTTCACGAATATATACACACTTATATATATTTTT
1 TCTATATACAT-TTTCTACTTTCACGAATATATACACACGTATATATATTTTT
63564474 TATATTTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
54 10 0.22
55 11 0.24
56 23 0.51
57 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.50
Consensus pattern (53 bp):
TCTATATACATTTTCTACTTTCACGAATATATACACACGTATATATATTTTTG
Found at i:63565834 original size:70 final size:70
Alignment explanation
Indices: 63565748--63565888 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
63565738 ACTGACTTTC
* *
63565748 TTACTTAAACCATTTAATCATTTTAAGTTATCGAGTAAATATTATGATATTAGATTAAAACAATA
1 TTACTTAAACCATTTAATCATTTTAAATTATCGAGTAAATATTATGATATTAGATTAAAAAAATA
63565813 ACAAG
66 ACAAG
63565818 TTACTTAAACCATTTAATCATTTTAAATTATCGAGTAAATATTATGATATTAGATTAAAAAAATA
1 TTACTTAAACCATTTAATCATTTTAAATTATCGAGTAAATATTATGATATTAGATTAAAAAAATA
63565883 ACAAG
66 ACAAG
63565888 T
1 T
63565889 CAACTTACGC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (70 bp):
TTACTTAAACCATTTAATCATTTTAAATTATCGAGTAAATATTATGATATTAGATTAAAAAAATA
ACAAG
Found at i:63569955 original size:16 final size:16
Alignment explanation
Indices: 63569934--63569965 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
63569924 AGTGTCAGCT
63569934 TTGGTCCCACTAATTC
1 TTGGTCCCACTAATTC
63569950 TTGGTCCCACTAATTC
1 TTGGTCCCACTAATTC
63569966 ATAGAATCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (16 bp):
TTGGTCCCACTAATTC
Found at i:63573336 original size:18 final size:18
Alignment explanation
Indices: 63573298--63573333 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
63573288 TTATTATTTT
*
63573298 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
63573316 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
63573334 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:63578739 original size:34 final size:34
Alignment explanation
Indices: 63578698--63578784 Score: 129
Period size: 34 Copynumber: 2.6 Consensus size: 34
63578688 TTACTTTTAA
* * **
63578698 AAAATCAAATTGAAGTCAAGGAGAATTCATTATT
1 AAAATCAAATTAAAGTCAAGGACAACACATTATT
63578732 AAAATCAAATTAAAGTCAAGGACAACACATTATT
1 AAAATCAAATTAAAGTCAAGGACAACACATTATT
*
63578766 AAAATCAAACTAAAGTCAA
1 AAAATCAAATTAAAGTCAA
63578785 CGTGTGTGGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.24
Consensus pattern (34 bp):
AAAATCAAATTAAAGTCAAGGACAACACATTATT
Found at i:63579125 original size:30 final size:30
Alignment explanation
Indices: 63579089--63579148 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
63579079 ACTTAAGAAG
*
63579089 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAAAAATAACAAAATTAA
*
63579119 CAAATGTCTTTAAAAAAATAACAAAATTAA
1 CAAATGTCTCTAAAAAAATAACAAAATTAA
63579149 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAAAAATAACAAAATTAA
Found at i:63587507 original size:3 final size:3
Alignment explanation
Indices: 63587499--63587581 Score: 82
Period size: 3 Copynumber: 27.0 Consensus size: 3
63587489 TTGTATTTTC
*
63587499 ATT ATT ATTT ATTT ATT CATT ATT A-T ATT ATT A-T ATT A-T ACT ATT
1 ATT ATT A-TT A-TT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
63587544 AGTT CTAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 A-TT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63587582 TACTCATTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
2 6 0.09
3 50 0.71
4 14 0.20
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:63588302 original size:72 final size:72
Alignment explanation
Indices: 63588185--63588320 Score: 218
Period size: 72 Copynumber: 1.9 Consensus size: 72
63588175 TCCTTTCAAA
* * *
63588185 CTCAAGTTTTAAACGATCTCGGGAATTAAGAGAAGATCGTGTCCTAGCTTACTGGGAATGATCCT
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGAATGATCCT
63588250 TTTTTTC
66 TTTTTTC
* * *
63588257 CTCAAGTTTTAAACAATCTTGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGAATGATCC
63588321 CCTTTTTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (72 bp):
CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGAATGATCCT
TTTTTTC
Found at i:63589067 original size:7 final size:7
Alignment explanation
Indices: 63589057--63589081 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
63589047 GAAGAATTAA
63589057 GAAAGAT
1 GAAAGAT
63589064 GAAAGAT
1 GAAAGAT
63589071 GAAAGAT
1 GAAAGAT
63589078 GAAA
1 GAAA
63589082 AATTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (7 bp):
GAAAGAT
Found at i:63589585 original size:16 final size:15
Alignment explanation
Indices: 63589545--63589589 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
63589535 AAACTAAAAA
*
63589545 TTTAAGTGTTGAATT
1 TTTAAGTGTTAAATT
63589560 TTT-A-TGTTAAATT
1 TTTAAGTGTTAAATT
63589573 TTATAAGTGTTAAATT
1 TT-TAAGTGTTAAATT
63589589 T
1 T
63589590 ATATTAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
15 4 0.15
16 10 0.38
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (15 bp):
TTTAAGTGTTAAATT
Found at i:63589592 original size:15 final size:15
Alignment explanation
Indices: 63589547--63589592 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
63589537 ACTAAAAATT
*
63589547 TAAGTGTTGAATTT-
1 TAAGTGTTAAATTTA
*
63589561 TTA-TGTTAAATTTTA
1 TAAGTGTTAAA-TTTA
63589576 TAAGTGTTAAATTTA
1 TAAGTGTTAAATTTA
63589591 TA
1 TA
63589593 TTAGAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 6 0.23
14 5 0.19
15 8 0.31
16 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (15 bp):
TAAGTGTTAAATTTA
Found at i:63601608 original size:23 final size:24
Alignment explanation
Indices: 63601582--63601631 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
63601572 AAGAGAACGA
63601582 AAAATAAAATAAAA-AAGAAAG-TT
1 AAAATAAAATAAAAGAA-AAAGATT
*
63601605 AAAATAACATAAAAGAAAAAGATT
1 AAAATAAAATAAAAGAAAAAGATT
63601629 AAA
1 AAA
63601632 TTGCTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (24 bp):
AAAATAAAATAAAAGAAAAAGATT
Found at i:63603871 original size:28 final size:29
Alignment explanation
Indices: 63603819--63603898 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 29
63603809 TTTATGTATA
* ** *
63603819 ATTA-TATTAAATTATTCAAGCATCATGT
1 ATTACTATTAAATTATTTAAATATCATAT
63603847 ATT-CTATTAAATTATTTAAATATCATAT
1 ATTACTATTAAATTATTTAAATATCATAT
*
63603875 ATTATTATGTTAAATTATTTAAAT
1 ATTACTA--TTAAATTATTTAAAT
63603899 GTCCTTTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 26 0.60
29 2 0.05
31 15 0.35
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (29 bp):
ATTACTATTAAATTATTTAAATATCATAT
Found at i:63603913 original size:31 final size:31
Alignment explanation
Indices: 63603853--63603913 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
63603843 ATGTATTCTA
*
63603853 TTAAATTATTTAAATATCATATATTATTATG
1 TTAAATTATTTAAATATCATATATCATTATG
* * *
63603884 TTAAATTATTTAAATGTCCTTTATCATTAT
1 TTAAATTATTTAAATATCATATATCATTAT
63603914 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (31 bp):
TTAAATTATTTAAATATCATATATCATTATG
Found at i:63605991 original size:3 final size:3
Alignment explanation
Indices: 63605983--63606012 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
63605973 TTGACCCACT
63605983 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
63606013 GATGAAAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:63621004 original size:17 final size:17
Alignment explanation
Indices: 63620982--63621015 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
63620972 ATCCACTAAT
*
63620982 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
63620999 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
63621016 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:63625632 original size:17 final size:17
Alignment explanation
Indices: 63625610--63625643 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
63625600 ATCCACTAAT
*
63625610 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
63625627 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
63625644 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:63629940 original size:72 final size:72
Alignment explanation
Indices: 63629624--63629927 Score: 437
Period size: 72 Copynumber: 4.2 Consensus size: 72
63629614 GAGGAAATGT
* * * ** *
63629624 ACCATTAAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACGGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGACAACTCCCCTATAGACAATG
63629689 GAATTTG
66 GAATTTG
* * * * * * *
63629696 GCCGTTTAATTGATTTTTTGAAACATCAAACCACTTCAGAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGACAACTCCCCTATAGACAATG
63629761 GAATTTG
66 GAATTTG
** *
63629768 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGACAACTCCCCTATAGACAATG
63629833 GAATTTG
66 GAATTTG
* * *
63629840 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGACAACTCCCCTATAGACAATG
63629905 GAATTTG
66 GAATTTG
63629912 ACCATTTAATTGATTT
1 ACCATTTAATTGATTT
63629928 ACCGAAAGAT
Statistics
Matches: 204, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 204 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGACAACTCCCCTATAGACAATG
GAATTTG
Found at i:63629940 original size:144 final size:144
Alignment explanation
Indices: 63629624--63629927 Score: 529
Period size: 144 Copynumber: 2.1 Consensus size: 144
63629614 GAGGAAATGT
*
63629624 ACCATTAAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACGGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACGGCCCTATAGACAAGG
* * * *
63629689 GAATTTGGCCGTTTAATTGATTTTTTGAAACATCAAACCACTTCAGAGATGATAACTCCCCTATA
66 GAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATA
63629754 GACAATGGAATTTG
131 GACAATGGAATTTG
* *
63629768 ACCATTTAATTGATTTTCTGAAACATCAAACT-CCTCCAAAGATGACAACTGCCCTATAGACAAT
1 ACCATTTAATTGATTTTCTGAAACATCAAA-TACCTCCAAAGATGACAACGGCCCTATAGACAAG
63629832 GGAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTAT
65 GGAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTAT
63629897 AGACAATGGAATTTG
130 AGACAATGGAATTTG
63629912 ACCATTTAATTGATTT
1 ACCATTTAATTGATTT
63629928 ACCGAAAGAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
144 151 0.99
145 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (144 bp):
ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACGGCCCTATAGACAAGG
GAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATA
GACAATGGAATTTG
Found at i:63631894 original size:3 final size:3
Alignment explanation
Indices: 63631693--63631874 Score: 95
Period size: 3 Copynumber: 61.0 Consensus size: 3
63631683 CAAAACTTAG
* **
63631693 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT AGC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** *
63631741 AGTT -TT ATT GTT ATT -TT ATT ACT ATT AAC ATT ATT A-T ATAA ATT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * ** * * * * *
63631785 ATT ATT GAAT GTT ATT GCT ATA ATT -TT TTT CTT ATT AAT ATT ATG
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
63631830 AAT ATT ATT ATT GA-T ATA ATA ATA ATA ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63631875 TTCATTACCA
Statistics
Matches: 134, Mismatches: 36, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
2 9 0.07
3 118 0.88
4 7 0.05
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:63634840 original size:22 final size:21
Alignment explanation
Indices: 63634792--63634848 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
63634782 TCATTTTTTA
*
63634792 ATTT-TTATATATTTTAAAAT
1 ATTTATTATATTTTTTAAAAT
*
63634812 TTATTATTATATTTTTTGAAAAT
1 AT-TTATTATATTTTTT-AAAAT
*
63634835 ATTTA-TGTATTTTT
1 ATTTATTATATTTTT
63634849 ATATATTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.03
21 10 0.33
22 13 0.43
23 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
ATTTATTATATTTTTTAAAAT
Found at i:63647922 original size:24 final size:24
Alignment explanation
Indices: 63647895--63647947 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
63647885 ATATGGAAAG
* *
63647895 AAATAAAAAATATTTTATGCTAAT
1 AAATAAAAAATATATTATACTAAT
*
63647919 AAATATAAAATATATTATACTAAT
1 AAATAAAAAATATATTATACTAAT
63647943 AAATA
1 AAATA
63647948 CTAAACATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATAAAAAATATATTATACTAAT
Found at i:63649316 original size:18 final size:18
Alignment explanation
Indices: 63649289--63649381 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
63649279 TACGACCGTT
63649289 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
63649307 TACGGCACTATTCACATA
1 TACGGTACTATTCACGTA
* *
63649325 TACAGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
63649343 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
63649361 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
63649379 TAC
1 TAC
63649382 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:63659840 original size:23 final size:23
Alignment explanation
Indices: 63659807--63659862 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
63659797 ATAAAGGAAT
*
63659807 ATAATAATAATGA-CATAATTATA
1 ATAATAATAATAATCAT-ATTATA
*
63659830 ATAATATTAATAATCATATTATA
1 ATAATAATAATAATCATATTATA
*
63659853 GTAATAATAA
1 ATAATAATAA
63659863 ATAAATGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAATAATAATAATCATATTATA
Found at i:63660111 original size:23 final size:23
Alignment explanation
Indices: 63660061--63660129 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
63660051 TTAAGGATGT
* *
63660061 ATAAAA-A-ATAAAGAGGTAATA
1 ATAAAATAGATAAATAGATAATA
63660082 A-ATAAATAGATAAATAGATAATA
1 ATA-AAATAGATAAATAGATAATA
63660105 ATAAAATAG-T-AATA-ATAATA
1 ATAAAATAGATAAATAGATAATA
63660125 ATAAA
1 ATAAA
63660130 GACACAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
20 12 0.29
21 8 0.19
22 2 0.05
23 19 0.45
24 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.25
Consensus pattern (23 bp):
ATAAAATAGATAAATAGATAATA
Found at i:63660117 original size:14 final size:15
Alignment explanation
Indices: 63660093--63660127 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
63660083 ATAAATAGAT
63660093 AAATAGATAATAATA
1 AAATAGATAATAATA
63660108 AAATAG-TAATAATA
1 AAATAGATAATAATA
63660122 ATAATA
1 A-AATA
63660128 AAGACACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:63660776 original size:5 final size:5
Alignment explanation
Indices: 63660760--63660817 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
63660750 TCTAAGGACC
*
63660760 AAAAT GAAAAT AAAAT AAAAT AAAGT GAAAAAT AAAA- AAAAT AAAA-
1 AAAAT -AAAAT AAAAT AAAAT AAAAT --AAAAT AAAAT AAAAT AAAAT
63660806 AATAA- AAAAT AA
1 AA-AAT AAAAT AA
63660818 GATATGACTA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
4 8 0.18
5 28 0.62
6 5 0.11
7 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:63660806 original size:16 final size:16
Alignment explanation
Indices: 63660771--63660814 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
63660761 AAATGAAAAT
* *
63660771 AAAATAAAATAAAGTGA
1 AAAATAAAA-AAAATAA
63660788 AAAATAAAAAAAATAA
1 AAAATAAAAAAAATAA
63660804 AAAATAAAAAA
1 AAAATAAAAAA
63660815 TAAGATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAAAATAA
Found at i:63660812 original size:21 final size:22
Alignment explanation
Indices: 63660766--63660817 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
63660756 GACCAAAATG
* *
63660766 AAAATAAAATAAAATAAAGTGA
1 AAAATAAAATAAAATAAAATAA
63660788 AAAATAAAA-AAAATAAAAAATAA
1 AAAATAAAATAAAAT--AAAATAA
63660811 AAAATAA
1 AAAATAA
63660818 GATATGACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 5 0.19
22 9 0.35
23 12 0.46
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (22 bp):
AAAATAAAATAAAATAAAATAA
Found at i:63665428 original size:36 final size:36
Alignment explanation
Indices: 63665388--63665461 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
63665378 ATCAAAGCAA
*
63665388 AAAAAAATGTTTTGGATTAATCATAGAGAGGTCCCT
1 AAAAAAATGTTTTGGATTAATCATAGAAAGGTCCCT
63665424 AAAAAAATGTTTTGGATTAATCATAGAAAGGTCCCT
1 AAAAAAATGTTTTGGATTAATCATAGAAAGGTCCCT
63665460 AA
1 AA
63665462 GTTTTTGTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.30
Consensus pattern (36 bp):
AAAAAAATGTTTTGGATTAATCATAGAAAGGTCCCT
Found at i:63669118 original size:17 final size:16
Alignment explanation
Indices: 63669088--63669125 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 16
63669078 CTAATTAATC
63669088 AAAAACATTTAAAA-A
1 AAAAACATTTAAAACA
63669103 AAAAACTATATTAAAACA
1 AAAAAC-AT-TTAAAACA
63669121 AAAAA
1 AAAAA
63669126 ATTAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 2 0.10
17 6 0.30
18 6 0.30
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAACATTTAAAACA
Found at i:63675389 original size:165 final size:167
Alignment explanation
Indices: 63675057--63675390 Score: 582
Period size: 165 Copynumber: 2.0 Consensus size: 167
63675047 CAAACCTAAG
* **
63675057 CCTGAAATTTTATCAATGCCCACCCCAAACCTGACCTAGTGTATGAATAGATTTAGAAATGAGTA
1 CCTGAAATTTTATCAAAGCCCACCCCAAACCCAACCTAGTGTATGAATAGATTTAGAAATGAGTA
63675122 ACGAAAATCATGGGGGGGGGGGGAGTAGGGACCGTTGCTTTTGAATTTTGATGCTCTTCATTTCT
66 ACGAAAATCAT--GGGGGGGGGGAGTAGGGACCGTTGCTTTTGAATTTTGATGCTCTTCATTTCT
* *
63675187 CTTGCTTTTTGTCATTATCCCAAATTTCCATGTAAAGTA
129 CTTGCTTTTGGTCATTATCCCAAATTTCCAGGTAAAGTA
*
63675226 CCTGAAATTTTATGAAAGCCCACCCCAAACCCAACCTAGTGTATGAATAGATTTAGAAATGAGTA
1 CCTGAAATTTTATCAAAGCCCACCCCAAACCCAACCTAGTGTATGAATAGATTTAGAAATGAGTA
63675291 ACGAAAATCAT-GGGGGGGGG-GTAGGGACCGTTGCTTTTGAATTTTGATGCTCTTCATTTCTCT
66 ACGAAAATCATGGGGGGGGGGAGTAGGGACCGTTGCTTTTGAATTTTGATGCTCTTCATTTCTCT
63675354 TGCTTTTGGTCATTATCCCAAATTTCCAGGTAAAGTA
131 TGCTTTTGGTCATTATCCCAAATTTCCAGGTAAAGTA
63675391 ACATTGACCT
Statistics
Matches: 159, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
165 78 0.49
166 9 0.06
169 72 0.45
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (167 bp):
CCTGAAATTTTATCAAAGCCCACCCCAAACCCAACCTAGTGTATGAATAGATTTAGAAATGAGTA
ACGAAAATCATGGGGGGGGGGAGTAGGGACCGTTGCTTTTGAATTTTGATGCTCTTCATTTCTCT
TGCTTTTGGTCATTATCCCAAATTTCCAGGTAAAGTA
Found at i:63675993 original size:71 final size:71
Alignment explanation
Indices: 63675877--63676023 Score: 294
Period size: 71 Copynumber: 2.1 Consensus size: 71
63675867 ATTTCAACTA
63675877 TAAAAATTGATGTAGCTAACAAATTAATCAGACAATTACTTGTGACATGCCAACGTACAATGACC
1 TAAAAATTGATGTAGCTAACAAATTAATCAGACAATTACTTGTGACATGCCAACGTACAATGACC
63675942 AATTTT
66 AATTTT
63675948 TAAAAATTGATGTAGCTAACAAATTAATCAGACAATTACTTGTGACATGCCAACGTACAATGACC
1 TAAAAATTGATGTAGCTAACAAATTAATCAGACAATTACTTGTGACATGCCAACGTACAATGACC
63676013 AATTTT
66 AATTTT
63676019 TAAAA
1 TAAAA
63676024 GTAGATATGG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.29
Consensus pattern (71 bp):
TAAAAATTGATGTAGCTAACAAATTAATCAGACAATTACTTGTGACATGCCAACGTACAATGACC
AATTTT
Found at i:63687230 original size:4 final size:4
Alignment explanation
Indices: 63687221--63687247 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
63687211 AAAAGAAAAG
63687221 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
63687248 AAGATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:63688338 original size:306 final size:306
Alignment explanation
Indices: 63687785--63688340 Score: 986
Period size: 306 Copynumber: 1.8 Consensus size: 306
63687775 GCTTGCCCTC
*
63687785 AAGTATGGTTCCTATCTACTGTGAAAGTTAGATTCTACCATAAAAGAAATACTACTTCAAAGTTT
1 AAGTATGGTTCCTATCTACTGTGAAAGTTAGATTCTACCATAAAAGAAATACCACTTCAAAGTTT
* *
63687850 TATAAAAATCAGTCAAAAATGTATATGAAAAATAAAGAAAACCCTAAGCTTGCTTTAAGTAAAAT
66 TATAAAAATCAGTCAAAAATGCATATGAAAAATAAAGAAAACCCTAAGCTTGCTTTAAGTAAAAC
* *
63687915 AAAAAAAGCTTTCCAATTAATACACACAAAAATTAGAATCGACTTTAATTATTTAATGAAAATTA
131 AAAAAAAGCTTTCCAATTAATACACACAAAAATTAGAATCAACTTGAATTATTTAATGAAAATTA
63687980 GGGAAATTACCAAACCTACCAAGACACCCTATTTGTTTCCTCCTTTAGTCCCCAATATATATATA
196 GGGAAATTACCAAACCTACCAAGACACCCTATTTGTTTCCTCCTTTAGTCCCCAATATATATATA
63688045 TATATATACCACTCTAGAATAACGTATTTGAAGTGGTATTTCTTTT
261 TATATATACCACTCTAGAATAACGTATTTGAAGTGGTATTTCTTTT
* *
63688091 AAGTATGGTTCCTATCTACTGTGAAAGTTAGATTCTGCCATAACAGAAATACCACTTCAAAGTTT
1 AAGTATGGTTCCTATCTACTGTGAAAGTTAGATTCTACCATAAAAGAAATACCACTTCAAAGTTT
* *
63688156 TATAGAAATCAGTCAAAAATGCATATGAAAAATAAAGAGAACCCTAAGCTTGCTTTAAGTAAAAC
66 TATAAAAATCAGTCAAAAATGCATATGAAAAATAAAGAAAACCCTAAGCTTGCTTTAAGTAAAAC
* * *
63688221 AGAAAAAGTTTTTCAATTAATACACACAAAAATTAGAATCAACTTGAATTATTTAATGAAAATTA
131 AAAAAAAGCTTTCCAATTAATACACACAAAAATTAGAATCAACTTGAATTATTTAATGAAAATTA
* *
63688286 GGTAAATTACCAAACCTACCAAGACACTCTATTTGTTTCCTCCTTTAGTCCCCAA
196 GGGAAATTACCAAACCTACCAAGACACCCTATTTGTTTCCTCCTTTAGTCCCCAA
63688341 ATTATTATTT
Statistics
Matches: 236, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
306 236 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (306 bp):
AAGTATGGTTCCTATCTACTGTGAAAGTTAGATTCTACCATAAAAGAAATACCACTTCAAAGTTT
TATAAAAATCAGTCAAAAATGCATATGAAAAATAAAGAAAACCCTAAGCTTGCTTTAAGTAAAAC
AAAAAAAGCTTTCCAATTAATACACACAAAAATTAGAATCAACTTGAATTATTTAATGAAAATTA
GGGAAATTACCAAACCTACCAAGACACCCTATTTGTTTCCTCCTTTAGTCCCCAATATATATATA
TATATATACCACTCTAGAATAACGTATTTGAAGTGGTATTTCTTTT
Found at i:63697456 original size:72 final size:72
Alignment explanation
Indices: 63697309--63697456 Score: 199
Period size: 72 Copynumber: 2.1 Consensus size: 72
63697299 GAGGAAATGT
* *
63697309 ACCATTTAATTGATTTTCTGAAACATCAAATAACTTCAAAGATGACAGCTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGAAAGCTCCCCTATAGACAATG
*
63697374 GAATTCG
66 GAATGCG
* * * **
63697381 ACCATTTAATTGATTTTCTGAAATATCAAAGAATTTCAAAGATGATAAG-TCCCCTATCGATGAT
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGA-AAGCTCCCCTATAGACAAT
*
63697445 GGAATGGG
65 GGAATGCG
63697453 ACCA
1 ACCA
63697457 GAAATTTTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
72 64 0.97
73 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGAAAGCTCCCCTATAGACAATG
GAATGCG
Found at i:63705762 original size:7 final size:7
Alignment explanation
Indices: 63705750--63705774 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
63705740 TGTAGATGTC
63705750 AAAAAAG
1 AAAAAAG
63705757 AAAAAAG
1 AAAAAAG
63705764 AAAAAAG
1 AAAAAAG
63705771 AAAA
1 AAAA
63705775 TTTACGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:63706385 original size:28 final size:28
Alignment explanation
Indices: 63706345--63706399 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
63706335 AAGAAAATAT
63706345 ATTTTGTTTAACTTGACTTGCAAGTAAG
1 ATTTTGTTTAACTTGACTTGCAAGTAAG
*
63706373 ATTTTGTTTAACTTGACTTGTAAGTAA
1 ATTTTGTTTAACTTGACTTGCAAGTAA
63706400 TGTCTTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.45
Consensus pattern (28 bp):
ATTTTGTTTAACTTGACTTGCAAGTAAG
Found at i:63706479 original size:29 final size:29
Alignment explanation
Indices: 63706446--63706503 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
63706436 CCACCTTGAT
*
63706446 ATGAA-TTCTCAACAAATAAGTTCTTCACC
1 ATGAACTT-TCAACAAACAAGTTCTTCACC
*
63706475 ATGAACTTTTAACAAACAAGTTCTTCACC
1 ATGAACTTTCAACAAACAAGTTCTTCACC
63706504 TCTTTCACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (29 bp):
ATGAACTTTCAACAAACAAGTTCTTCACC
Found at i:63709195 original size:24 final size:24
Alignment explanation
Indices: 63709168--63709220 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
63709158 ATATGGAAAG
* *
63709168 AAATAAAAAATATTTTATGCTAAT
1 AAATAAAAAATATATTATACTAAT
**
63709192 AAATGTAAAATATATTATACTAAT
1 AAATAAAAAATATATTATACTAAT
63709216 AAATA
1 AAATA
63709221 CTAAACATCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATAAAAAATATATTATACTAAT
Found at i:63709200 original size:26 final size:24
Alignment explanation
Indices: 63709174--63709219 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
63709164 AAAGAAATAA
* *
63709174 AAAATATTTTATGCTAATAAATGT
1 AAAATATATTATACTAATAAATGT
63709198 AAAATATATTATACTAATAAAT
1 AAAATATATTATACTAATAAAT
63709220 ACTAAACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
AAAATATATTATACTAATAAATGT
Found at i:63710957 original size:16 final size:16
Alignment explanation
Indices: 63710924--63710957 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63710914 ACTCAGTGTT
* *
63710924 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
63710940 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
63710956 AA
1 AA
63710958 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:63713780 original size:21 final size:21
Alignment explanation
Indices: 63713754--63713794 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63713744 AGACGAGCAA
* *
63713754 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
63713775 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
63713795 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:63715733 original size:16 final size:16
Alignment explanation
Indices: 63715700--63715733 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63715690 GGAGATTGTT
* *
63715700 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
63715716 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
63715732 AA
1 AA
63715734 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:63721976 original size:23 final size:23
Alignment explanation
Indices: 63721926--63721994 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
63721916 TTAAGGATGT
* *
63721926 ATAAAA-A-ATAAAGAGGTAATA
1 ATAAAATAGATAAATAGATAATA
63721947 A-ATAAATAGATAAATAGATAATA
1 ATA-AAATAGATAAATAGATAATA
63721970 ATAAAATAG-T-AATA-ATAATA
1 ATAAAATAGATAAATAGATAATA
63721990 ATAAA
1 ATAAA
63721995 GACACAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
20 12 0.29
21 8 0.19
22 2 0.05
23 19 0.45
24 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.25
Consensus pattern (23 bp):
ATAAAATAGATAAATAGATAATA
Found at i:63721982 original size:14 final size:15
Alignment explanation
Indices: 63721958--63721992 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
63721948 ATAAATAGAT
63721958 AAATAGATAATAATA
1 AAATAGATAATAATA
63721973 AAATAG-TAATAATA
1 AAATAGATAATAATA
63721987 ATAATA
1 A-AATA
63721993 AAGACACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:63725684 original size:24 final size:25
Alignment explanation
Indices: 63725657--63725704 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
63725647 TGTCAGCAAT
*
63725657 AATTTTTTA-TTTTATATATTTTTA
1 AATTTATTATTTTTATATATTTTTA
63725681 AATTTATTATTTTTATATATTTTT
1 AATTTATTATTTTTATATATTTTT
63725705 GTTGTTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (25 bp):
AATTTATTATTTTTATATATTTTTA
Found at i:63725702 original size:17 final size:18
Alignment explanation
Indices: 63725658--63725702 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
63725648 GTCAGCAATA
63725658 ATTTTT-TAT-TTTATAT
1 ATTTTTATATATTTATAT
63725674 ATTTTTA-A-ATTTAT-T
1 ATTTTTATATATTTATAT
63725689 ATTTTTATATATTT
1 ATTTTTATATATTT
63725703 TTGTTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 13 0.52
17 4 0.16
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATATATTTATAT
Found at i:63729279 original size:24 final size:25
Alignment explanation
Indices: 63729252--63729299 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
63729242 TGTCAGCAAT
*
63729252 AATTTTTTA-TTTTATATATTTTTA
1 AATTTATTATTTTTATATATTTTTA
63729276 AATTTATTATTTTTATATATTTTT
1 AATTTATTATTTTTATATATTTTT
63729300 GTTGTTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (25 bp):
AATTTATTATTTTTATATATTTTTA
Found at i:63729297 original size:17 final size:18
Alignment explanation
Indices: 63729253--63729297 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
63729243 GTCAGCAATA
63729253 ATTTTT-TAT-TTTATAT
1 ATTTTTATATATTTATAT
63729269 ATTTTTA-A-ATTTAT-T
1 ATTTTTATATATTTATAT
63729284 ATTTTTATATATTT
1 ATTTTTATATATTT
63729298 TTGTTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 13 0.52
17 4 0.16
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATATATTTATAT
Found at i:63732464 original size:23 final size:23
Alignment explanation
Indices: 63732420--63732462 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
63732410 ACCTTCTTTT
63732420 GTAACCATTAATTTTATTTTTAA
1 GTAACCATTAATTTTATTTTTAA
*
63732443 GTAACCTTTAA-TTTATTTTT
1 GTAACCATTAATTTTATTTTT
63732463 TATGGTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (23 bp):
GTAACCATTAATTTTATTTTTAA
Found at i:63736267 original size:2 final size:2
Alignment explanation
Indices: 63736260--63736286 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
63736250 TGGTTGGACT
63736260 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
63736287 GATGTTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63741487 original size:29 final size:29
Alignment explanation
Indices: 63741406--63741494 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 29
63741396 GGTTAAATCA
* *
63741406 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAG-TTCAAGTATATAATTGCACC
* * *
63741436 ACAATTAGAATTTCACG-AGTATAATTGCATC
1 A-AATTA-AAGTTCAAGTA-TATAATTGCACC
*
63741467 AAATTAAAGTTCATGTATATAATTGCAC
1 AAATTAAAGTTCAAGTATATAATTGCAC
63741495 ATTAAATCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
29 17 0.36
30 8 0.17
31 20 0.43
32 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (29 bp):
AAATTAAAGTTCAAGTATATAATTGCACC
Found at i:63744532 original size:21 final size:21
Alignment explanation
Indices: 63744500--63744540 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
63744490 AGGCTCGAGG
63744500 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
63744521 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
63744541 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:63755453 original size:22 final size:21
Alignment explanation
Indices: 63755428--63755470 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
63755418 AAGGTCACCG
* *
63755428 TACATATCACTTCCTCCACATA
1 TACAAATCACATCC-CCACATA
*
63755450 TACAAATCTCATCCCCACATA
1 TACAAATCACATCCCCACATA
63755471 CAGATATAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TACAAATCACATCCCCACATA
Found at i:63756821 original size:16 final size:15
Alignment explanation
Indices: 63756801--63756843 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
63756791 AAATTTTACA
*
63756801 AATTAAAAAATAATT
1 AATTAAAAAATAAAT
63756816 ATATT-AAAAATAAAT
1 A-ATTAAAAAATAAAT
63756831 AATATAAAAAATA
1 AAT-TAAAAAATA
63756844 TGATTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 10 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATTAAAAAATAAAT
Found at i:63759897 original size:126 final size:126
Alignment explanation
Indices: 63759497--63759911 Score: 550
Period size: 127 Copynumber: 3.3 Consensus size: 126
63759487 GATAAAATCA
* * * * * * * *
63759497 AAGCAGGATGATTTATCAAAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* **
63759562 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATA--ATTTAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
* * * **
63759621 AAGCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGTACTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
63759686 TGGTCCTAAAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGT-TAAAAAAAACGCTTC
66 AGGTCCTGAAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAAACGCTTC
* *
63759748 AAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGGGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
63759813 AGGTCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAAACGCTGC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
* *
63759874 AAGCAGGATGCTATT-TGAGAAGAATTTTTGAAAACGCG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCG
63759912 AAGAATTTGT
Statistics
Matches: 253, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
124 61 0.24
125 32 0.13
126 78 0.31
127 82 0.32
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (126 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
Found at i:63761689 original size:21 final size:21
Alignment explanation
Indices: 63761663--63761702 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
63761653 ATTTACACCT
63761663 TTCATAAACGTCATTATTTTA
1 TTCATAAACGTCATTATTTTA
*
63761684 TTCATAAATGTCATTATTT
1 TTCATAAACGTCATTATTT
63761703 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (21 bp):
TTCATAAACGTCATTATTTTA
Found at i:63766932 original size:21 final size:21
Alignment explanation
Indices: 63766900--63766940 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
63766890 GAACAATTGG
63766900 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
63766921 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
63766941 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:63769406 original size:120 final size:120
Alignment explanation
Indices: 63769191--63769407 Score: 326
Period size: 120 Copynumber: 1.8 Consensus size: 120
63769181 TTGATATCAC
* * * * *
63769191 TGATTAATTTTCTAACCGTGGATATTTTCTGAAAAGTTAAATGAGTGACAATAAAATGTGTTCCA
1 TGATTAATCTTCTAACCGTGGATACTTTCCGAAAAGATAAATGAGTGACAATAAAATGTATTCCA
*
63769256 TTTTCGTGAGCGGGATTAAAAATTATTTTTTTCGGGTATCCATCATCGGTAATAG
66 TTTTCGTGAACGGGATTAAAAATTATTTTTTTCGGGTATCCATCATCGGTAATAG
* * *
63769311 TGATTAATCTTCTAACTGTGGATGCTTTCCGAAAAGATAAATGATTGACAATAAAATGTATTCCA
1 TGATTAATCTTCTAACCGTGGATACTTTCCGAAAAGATAAATGAGTGACAATAAAATGTATTCCA
* *
63769376 TTTTCGTGAATGGAGATTAATAATTATTTTTT
66 TTTTCGTGAACGG-GATTAAAAATTATTTTTT
63769408 AATTATTTGA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
120 68 0.80
121 17 0.20
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (120 bp):
TGATTAATCTTCTAACCGTGGATACTTTCCGAAAAGATAAATGAGTGACAATAAAATGTATTCCA
TTTTCGTGAACGGGATTAAAAATTATTTTTTTCGGGTATCCATCATCGGTAATAG
Found at i:63772320 original size:72 final size:72
Alignment explanation
Indices: 63772203--63772591 Score: 544
Period size: 72 Copynumber: 5.4 Consensus size: 72
63772193 GAGGAAAAGT
63772203 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
63772268 GAATTTG
66 GAATTTG
** * * * *
63772275 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGATAACTGCCCTATAGACGAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
63772340 GAATTTG
66 GAATTTG
* * * *
63772347 GCCGTTTAACTGATTTTCTGAGACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
*
63772412 GAATTGG
66 GAATTTG
** * * * *
63772419 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
*
63772484 GAAATTG
66 GAATTTG
* * * * * *
63772491 GCCGTTTAATTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACTCCCATGTAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
63772556 GAATTTG
66 GAATTTG
* *
63772563 ACCATTTAATTGATTTACTGAAAGATCAA
1 ACCATTTAATTGATTTTCTGAAACATCAA
63772592 GCTGAGTAAC
Statistics
Matches: 270, Mismatches: 47, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 270 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
GAATTTG
Found at i:63772425 original size:144 final size:144
Alignment explanation
Indices: 63772207--63772591 Score: 662
Period size: 144 Copynumber: 2.7 Consensus size: 144
63772197 AAAAGTACCA
63772207 TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
1 TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
* *
63772272 TTGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGATAACTGCCCTATAGACG
66 TTGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACA
*
63772337 AGGGAATTTGGCCG
131 AGGGAAATTGGCCG
* *
63772351 TTTAACTGATTTTCTGAGACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
1 TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
*
63772416 TGGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACA
66 TTGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACA
63772481 AGGGAAATTGGCCG
131 AGGGAAATTGGCCG
* * * *
63772495 TTTAATTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACTCCCATGTAGACAATGGAAT
1 TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
* *
63772560 TTGACCATTTAATTGATTTACTGAAAGATCAA
66 TTGACCATTTAATTGATTTTCTGAAACATCAA
63772592 GCTGAGTAAC
Statistics
Matches: 226, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
144 226 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (144 bp):
TTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATGGAAT
TTGACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACA
AGGGAAATTGGCCG
Found at i:63773876 original size:27 final size:26
Alignment explanation
Indices: 63773819--63773876 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
63773809 TTTAGGTCTT
*
63773819 AAAAGCTAATGGAGGAAAAAAGAAAG
1 AAAAGCTAAAGGAGGAAAAAAGAAAG
*
63773845 TAAAGCTAAAGGA-GAAAAAAGAGAAGG
1 AAAAGCTAAAGGAGGAAAAAAGA-AA-G
63773872 AAAAG
1 AAAAG
63773877 AAAATGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.33
26 13 0.48
27 5 0.19
ACGTcount: A:0.62, C:0.03, G:0.28, T:0.07
Consensus pattern (26 bp):
AAAAGCTAAAGGAGGAAAAAAGAAAG
Found at i:63780230 original size:19 final size:16
Alignment explanation
Indices: 63780189--63780239 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
63780179 TTTACAAATT
63780189 AAAAATAATTATAAAA
1 AAAAATAATTATAAAA
*
63780205 AAGAATAATTATATTAAA
1 AAAAATAATTATA--AAA
63780223 AATAAATAA-TATAAAA
1 AA-AAATAATTATAAAA
63780239 A
1 A
63780240 TATAATATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 16 0.53
18 9 0.30
19 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAATAATTATAAAA
Found at i:63780246 original size:16 final size:17
Alignment explanation
Indices: 63780209--63780246 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
63780199 ATAAAAAAGA
*
63780209 ATAATTATATTAAAAAT
1 ATAATAATATTAAAAAT
63780226 A-AATAATA-TAAAAAT
1 ATAATAATATTAAAAAT
63780241 ATAATA
1 ATAATA
63780247 TGAATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 10 0.53
17 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATATTAAAAAT
Found at i:63782666 original size:24 final size:24
Alignment explanation
Indices: 63782639--63782684 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
63782629 AAGTTGAGAA
63782639 GCAAGTCTATGGAGTAAGTCCCCC
1 GCAAGTCTATGGAGTAAGTCCCCC
*
63782663 GCAAGTGTATGGAGTAAGTCCC
1 GCAAGTCTATGGAGTAAGTCCC
63782685 ACTCCCACGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (24 bp):
GCAAGTCTATGGAGTAAGTCCCCC
Found at i:63782858 original size:23 final size:24
Alignment explanation
Indices: 63782816--63782867 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
63782806 TTCGTATAAA
*
63782816 ATATCAAATTATTCACATGT-ATT
1 ATATCAAATTATTCAAATGTCATT
* *
63782839 ATATGAAATTATTTAAATGTCATT
1 ATATCAAATTATTCAAATGTCATT
63782863 A-ATCA
1 ATATCA
63782868 TTATTTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (24 bp):
ATATCAAATTATTCAAATGTCATT
Found at i:63784694 original size:18 final size:19
Alignment explanation
Indices: 63784671--63784706 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
63784661 CTATCTGATT
63784671 AAATAC-ATAAAATAAAAA
1 AAATACAATAAAATAAAAA
*
63784689 AAATACAATATAATAAAA
1 AAATACAATAAAATAAAA
63784707 GATCACTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (19 bp):
AAATACAATAAAATAAAAA
Found at i:63795440 original size:75 final size:75
Alignment explanation
Indices: 63795349--63795502 Score: 290
Period size: 75 Copynumber: 2.1 Consensus size: 75
63795339 TACCCAATCA
* *
63795349 TTTGCTTTATAAAGATCCGCAGAACTCAAATCAAGGTACTGCAAGGAAGAAAGTCCAGAAACCCA
1 TTTGCTTCAGAAAGATCCGCAGAACTCAAATCAAGGTACTGCAAGGAAGAAAGTCCAGAAACCCA
63795414 TTGAAGACTT
66 TTGAAGACTT
63795424 TTTGCTTCAGAAAGATCCGCAGAACTCAAATCAAGGTACTGCAAGGAAGAAAGTCCAGAAACCCA
1 TTTGCTTCAGAAAGATCCGCAGAACTCAAATCAAGGTACTGCAAGGAAGAAAGTCCAGAAACCCA
63795489 TTGAAGACTT
66 TTGAAGACTT
63795499 TTTG
1 TTTG
63795503 ATTTGAAATC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (75 bp):
TTTGCTTCAGAAAGATCCGCAGAACTCAAATCAAGGTACTGCAAGGAAGAAAGTCCAGAAACCCA
TTGAAGACTT
Found at i:63799921 original size:61 final size:60
Alignment explanation
Indices: 63799838--63799953 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 60
63799828 GGGAAAGTGT
* * * *
63799838 ACTATATTGTAATCACCATTCATTTGTAAAATCTTAATATTGTATCGGAATCACCATGAAA
1 ACTATATTGAAATCACCATTCATTTGCAAAATCATAATACTGTAT-GGAATCACCATGAAA
* * * * *
63799899 ACTATATTGAAATTATCGTTCATTTGCAAAATCATAGTACTGTATGGGATCACCA
1 ACTATATTGAAATCACCATTCATTTGCAAAATCATAATACTGTATGGAATCACCA
63799954 CAATAGTGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
60 9 0.20
61 37 0.80
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (60 bp):
ACTATATTGAAATCACCATTCATTTGCAAAATCATAATACTGTATGGAATCACCATGAAA
Found at i:63800592 original size:25 final size:25
Alignment explanation
Indices: 63800544--63800595 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
63800534 AATTTTATAT
*
63800544 TAATAATATTAATATTAGATAAAAA
1 TAATAATATTAATATTAGAAAAAAA
* *
63800569 TAATTATATTAATATT-TAAAAAAA
1 TAATAATATTAATATTAGAAAAAAA
63800593 TAA
1 TAA
63800596 AAAAACCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
TAATAATATTAATATTAGAAAAAAA
Found at i:63802386 original size:19 final size:21
Alignment explanation
Indices: 63802362--63802407 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
63802352 TTAGGGTTAA
63802362 TTTTGTCGCCGT-CCC-CTAG
1 TTTTGTCGCCGTGCCCTCTAG
**
63802381 TTTTGTCGTTGTGCCCTCTAG
1 TTTTGTCGCCGTGCCCTCTAG
63802402 TTTTGT
1 TTTTGT
63802408 GAATGCTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 3 0.13
21 10 0.43
ACGTcount: A:0.04, C:0.26, G:0.22, T:0.48
Consensus pattern (21 bp):
TTTTGTCGCCGTGCCCTCTAG
Found at i:63804569 original size:72 final size:72
Alignment explanation
Indices: 63804475--63804647 Score: 247
Period size: 72 Copynumber: 2.4 Consensus size: 72
63804465 GAGGAAAAGT
* * * **
63804475 ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGATAACTGCCCTATAGACATGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAAG
63804540 GAATTTG
66 GAATTTG
* * * * *
63804547 GCCGTTTAACTGATTTTTTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAAAG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAAG
63804612 GAATTTG
66 GAATTTG
*
63804619 ACCATTTAATTGATTTTCTGAAAGATCAA
1 ACCATTTAATTGATTTTCTGAAACATCAA
63804648 GGTGAGTAAC
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 86 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.31
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAAG
GAATTTG
Found at i:63805168 original size:72 final size:72
Alignment explanation
Indices: 63805081--63805239 Score: 282
Period size: 72 Copynumber: 2.2 Consensus size: 72
63805071 CATAACTCAA
* *
63805081 ATCAAGGTACTGCAAGGAAGAAAGTCCAGAAACCCATTGAAGACTTTTTAATTTGAGATTATTAC
1 ATCAAGATGCTGCAAGGAAGAAAGTCCAGAAACCCATTGAAGACTTTTTAATTTGAGATTATTAC
63805146 CTCCAAG
66 CTCCAAG
* *
63805153 ATCAAGATGCTGCAAGGAAGAAAGTCCAGAAACCCATTGAAGACTTTTTGATTTGAGATTTTTAC
1 ATCAAGATGCTGCAAGGAAGAAAGTCCAGAAACCCATTGAAGACTTTTTAATTTGAGATTATTAC
63805218 CTCCAAG
66 CTCCAAG
63805225 ATCAAGATGCTGCAA
1 ATCAAGATGCTGCAA
63805240 CTTTGAGAGA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 83 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (72 bp):
ATCAAGATGCTGCAAGGAAGAAAGTCCAGAAACCCATTGAAGACTTTTTAATTTGAGATTATTAC
CTCCAAG
Found at i:63817029 original size:16 final size:16
Alignment explanation
Indices: 63817010--63817043 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63817000 CGGCTTGCAA
63817010 TTCGAAAGGCTCACAC
1 TTCGAAAGGCTCACAC
* *
63817026 TTCGACAGGCTCGCAC
1 TTCGAAAGGCTCACAC
63817042 TT
1 TT
63817044 TGCTTACTGT
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:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (16 bp):
TTCGAAAGGCTCACAC
Found at i:63825571 original size:28 final size:27
Alignment explanation
Indices: 63825519--63825608 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 27
63825509 TTAAATTTTA
63825519 ATAAAATAA-TATAAAAA-CATTTAAAATT
1 ATAAAA-AATTATAAAAATCA--TAAAATT
* *
63825547 AAAAAAAAGTTATAAAAGTCATAAAATT
1 ATAAAAAA-TTATAAAAATCATAAAATT
* *
63825575 ATAAAAAATTGTAAAAATTATAAAAATT
1 ATAAAAAATTATAAAAATCAT-AAAATT
63825603 ATAAAA
1 ATAAAA
63825609 TATATAGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
27 12 0.23
28 31 0.60
29 7 0.13
30 2 0.04
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (27 bp):
ATAAAAAATTATAAAAATCATAAAATT
Found at i:63825581 original size:18 final size:17
Alignment explanation
Indices: 63825551--63825619 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 17
63825541 AAAATTAAAA
* *
63825551 AAAAGTTATAAAAGTCAT
1 AAAA-TTATAAAAATTAT
*
63825569 AAAATTATAAAAAATTGT
1 AAAATTAT-AAAAATTAT
63825587 AAAAATTATAAAAATTAT
1 -AAAATTATAAAAATTAT
*
63825605 AAAATATATAGAAAT
1 AAAAT-TATAAAAAT
63825620 ATAGAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 9 0.21
18 26 0.60
19 8 0.19
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.30
Consensus pattern (17 bp):
AAAATTATAAAAATTAT
Found at i:63825627 original size:28 final size:28
Alignment explanation
Indices: 63825541--63825628 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
63825531 AAAAACATTT
* * * *
63825541 AAAATTAAAAAAAAGTTATAAAAGTCA-T
1 AAAATTATAAAAAA-TTATAAAAATTAGA
* *
63825569 AAAATTATAAAAAATTGTAAAAATTATA
1 AAAATTATAAAAAATTATAAAAATTAGA
* *
63825597 AAAATTATAAAATA-TATAGAAATATAGA
1 AAAATTATAAAAAATTATAAAAAT-TAGA
63825625 AAAA
1 AAAA
63825629 AAATTTATAA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 16 0.33
28 33 0.67
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (28 bp):
AAAATTATAAAAAATTATAAAAATTAGA
Found at i:63825923 original size:31 final size:31
Alignment explanation
Indices: 63825888--63825947 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
63825878 TTTTTGATGC
63825888 ATTTTATAAAATT-TTTTATGATTTTTATAAA
1 ATTTTA-AAAATTCTTTTATGATTTTTATAAA
* *
63825919 ATTTTACAATTTCTTTTATGATTTTTATA
1 ATTTTAAAAATTCTTTTATGATTTTTATA
63825948 TTTTTCTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (31 bp):
ATTTTAAAAATTCTTTTATGATTTTTATAAA
Found at i:63828439 original size:27 final size:27
Alignment explanation
Indices: 63828397--63828463 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
63828387 AATCTCAAAG
* *
63828397 TTCAAGGTTT-GAGTTTGGGATTTAAGA
1 TTCAAGGTTTAG-GTTTGGGACTCAAGA
* * *
63828424 TTCAAGGTTTAGGTTTTGGACTCGAGG
1 TTCAAGGTTTAGGTTTGGGACTCAAGA
63828451 TTCAAGGTTTAGG
1 TTCAAGGTTTAGG
63828464 GTTTAAGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.07, G:0.31, T:0.39
Consensus pattern (27 bp):
TTCAAGGTTTAGGTTTGGGACTCAAGA
Found at i:63830871 original size:35 final size:35
Alignment explanation
Indices: 63830825--63830894 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
63830815 AGTAGCCCAA
* *
63830825 GACACATACAGCTTTCGACCAACATGGTCCAACTT
1 GACACATACAGCTCTCAACCAACATGGTCCAACTT
63830860 GACACATACAGCTCTCAACCAACATGGTCCAACTT
1 GACACATACAGCTCTCAACCAACATGGTCCAACTT
63830895 TCGATAGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.21
Consensus pattern (35 bp):
GACACATACAGCTCTCAACCAACATGGTCCAACTT
Found at i:63832988 original size:20 final size:20
Alignment explanation
Indices: 63832963--63833012 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
63832953 TGGCTTAAAA
63832963 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
63832983 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
63833000 GTGGTAGTGGATT
1 TTGGTAGTGGATT
63833013 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:63837626 original size:20 final size:20
Alignment explanation
Indices: 63837601--63837650 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
63837591 TGGCTTAAAA
63837601 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
63837621 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
63837638 GTGGTAGTGGATT
1 TTGGTAGTGGATT
63837651 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:63840859 original size:23 final size:23
Alignment explanation
Indices: 63840832--63840875 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
63840822 TTGGTAGCTA
* *
63840832 CATTAATGGAGCTAATTCAAAGG
1 CATTAAAGGAGCTAAATCAAAGG
*
63840855 CATTAAAGGTGCTAAATCAAA
1 CATTAAAGGAGCTAAATCAAA
63840876 AGGAAGTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (23 bp):
CATTAAAGGAGCTAAATCAAAGG
Found at i:63847017 original size:28 final size:28
Alignment explanation
Indices: 63846986--63847044 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
63846976 ATATTTAGAC
* * *
63846986 TTTAATTTCGTAT-TTTTAATTTTAAGAA
1 TTTAATTCCATATATTTTAA-TTTAAAAA
63847014 TTT-ATTCCATATATTTTAATTTAAAAA
1 TTTAATTCCATATATTTTAATTTAAAAA
63847041 TTTA
1 TTTA
63847045 GGTTCAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (28 bp):
TTTAATTCCATATATTTTAATTTAAAAA
Found at i:63853898 original size:12 final size:12
Alignment explanation
Indices: 63853877--63853983 Score: 60
Period size: 12 Copynumber: 8.8 Consensus size: 12
63853867 AAAAACGAAA
*
63853877 TGATTAAAAACT
1 TGATGAAAAACT
* *
63853889 TGATGGAAAATT
1 TGATGAAAAACT
*
63853901 TTATGAAAAGACT
1 TGATGAAAA-ACT
63853914 TGATGAAAAACT
1 TGATGAAAAACT
*
63853926 T-A-AAAAGAACT
1 TGATGAAA-AACT
*
63853937 TGCT-ACAAAACT
1 TGATGA-AAAACT
63853949 TGAT-AGAAAACT
1 TGATGA-AAAACT
*
63853961 TGATAAAAGAACT
1 TGATGAAA-AACT
**
63853974 AAATGAAAAA
1 TGATGAAAAA
63853984 TATTTGAAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
10 3 0.04
11 6 0.08
12 43 0.58
13 22 0.30
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.25
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:63859703 original size:20 final size:22
Alignment explanation
Indices: 63859678--63859724 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
63859668 ATACCTTGGG
*
63859678 AAATTA-AAATAAATT-TAAGA
1 AAATTATAAATAAATTATAAAA
*
63859698 AAATTATAATTAAATTATAAAA
1 AAATTATAAATAAATTATAAAA
63859720 AAATT
1 AAATT
63859725 TGTTGAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 8 0.35
22 9 0.39
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATTATAAATAAATTATAAAA
Found at i:63863387 original size:37 final size:37
Alignment explanation
Indices: 63863346--63863422 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
63863336 AATTAAGAAA
*
63863346 CTAAAAAAAATTAAAGAAACTTATAAGAAAATTTTAT
1 CTAAAAAAAATTAAAGAAAATTATAAGAAAATTTTAT
63863383 CTAAAAAAAATTAAAGAAAATTATAAGAAAATTTTAT
1 CTAAAAAAAATTAAAGAAAATTATAAGAAAATTTTAT
63863420 CTA
1 CTA
63863423 TTTTTATTTT
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:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (37 bp):
CTAAAAAAAATTAAAGAAAATTATAAGAAAATTTTAT
Found at i:63863410 original size:11 final size:11
Alignment explanation
Indices: 63863352--63863415 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 11
63863342 GAAACTAAAA
63863352 AAAATTA-AAG
1 AAAATTATAAG
*
63863362 AAACTTATAAG
1 AAAATTATAAG
*
63863373 AAAATTTTATCTAAAA
1 AAAA--TTA--T-AAG
63863389 AAAATTA-AAG
1 AAAATTATAAG
63863399 AAAATTATAAG
1 AAAATTATAAG
63863410 AAAATT
1 AAAATT
63863416 TTATCTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
10 15 0.35
11 15 0.35
13 3 0.07
14 3 0.07
15 1 0.02
16 6 0.14
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (11 bp):
AAAATTATAAG
Found at i:63863520 original size:9 final size:9
Alignment explanation
Indices: 63863485--63863550 Score: 62
Period size: 9 Copynumber: 7.3 Consensus size: 9
63863475 ATCTTTAAAA
63863485 TTTTAAA-T
1 TTTTAAATT
*
63863493 TTCTAAATT
1 TTTTAAATT
* *
63863502 TTATATATT
1 TTTTAAATT
*
63863511 TTTTTAATT
1 TTTTAAATT
*
63863520 TTTTAAAATA
1 TTTT-AAATT
*
63863530 TTTTAGATT
1 TTTTAAATT
63863539 TTTTAAATT
1 TTTTAAATT
63863548 TTT
1 TTT
63863551 AAAAAGTGGC
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
8 6 0.13
9 32 0.71
10 7 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTAAATT
Found at i:63863533 original size:45 final size:45
Alignment explanation
Indices: 63863455--63863549 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
63863445 AGCTTACTTT
63863455 TTTTATATATTTTTTTGAAAATCTTTAAAATTTTA-AATTTCTAAA
1 TTTTATATATTTTTTT-AAAATCTTTAAAATTTTAGAATTTCTAAA
* * * *
63863500 TTTTATATATTTTTTT-AATTTTTTAAAATATTTTAGATTTTTTAAA
1 TTTTATATATTTTTTTAAAATCTTT-AAA-ATTTTAGAATTTCTAAA
63863546 TTTT
1 TTTT
63863550 TAAAAAGTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
43 6 0.14
44 3 0.07
45 22 0.51
46 12 0.28
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (45 bp):
TTTTATATATTTTTTTAAAATCTTTAAAATTTTAGAATTTCTAAA
Found at i:63863551 original size:27 final size:28
Alignment explanation
Indices: 63863485--63863554 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
63863475 ATCTTTAAAA
* *
63863485 TTTTAAATTTCT-AAATTTTATATATTT
1 TTTTAAATTTTTAAAATTTTATAGATTT
*
63863512 TTTTAATTTTTTAAAATATTT-TAGA-TT
1 TTTTAAATTTTTAAAAT-TTTATAGATTT
63863539 TTTTAAATTTTTAAAA
1 TTTTAAATTTTTAAAA
63863555 AGTGGCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 27 0.73
28 7 0.19
29 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTTAAATTTTTAAAATTTTATAGATTT
Found at i:63863553 original size:8 final size:8
Alignment explanation
Indices: 63863473--63863553 Score: 54
Period size: 8 Copynumber: 9.4 Consensus size: 8
63863463 ATTTTTTTGA
*
63863473 AAATCTTT
1 AAATTTTT
*
63863481 AAAATTTT
1 AAATTTTT
*
63863489 AAATTTCT
1 AAATTTTT
63863497 AAATTTTAT
1 AAATTTT-T
*
63863506 ATATTTTTTT
1 A-A-ATTTTT
*
63863516 AATTTTTT
1 AAATTTTT
63863524 AAAATATTTT
1 -AAAT-TTTT
*
63863534 AGATTTTTT
1 A-AATTTTT
63863543 AAATTTTT
1 AAATTTTT
63863551 AAA
1 AAA
63863554 AAGTGGCATA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
8 33 0.57
9 12 0.21
10 9 0.16
11 4 0.07
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (8 bp):
AAATTTTT
Found at i:63870865 original size:14 final size:15
Alignment explanation
Indices: 63870846--63870874 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63870836 ATAAAGCCAA
63870846 TTCACT-TTACTTCC
1 TTCACTGTTACTTCC
63870860 TTCACTGTTACTTCC
1 TTCACTGTTACTTCC
63870875 ATTATTTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.14, C:0.34, G:0.03, T:0.48
Consensus pattern (15 bp):
TTCACTGTTACTTCC
Found at i:63876515 original size:18 final size:18
Alignment explanation
Indices: 63876492--63876528 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
63876482 ATTTTTTTTG
*
63876492 TTAAATATATAATTTATT
1 TTAAATAAATAATTTATT
*
63876510 TTAAATAAATTATTTATT
1 TTAAATAAATAATTTATT
63876528 T
1 T
63876529 ATTTTAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATAAATAATTTATT
Found at i:63876518 original size:22 final size:22
Alignment explanation
Indices: 63876493--63876535 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
63876483 TTTTTTTTGT
63876493 TAAA-TATATAATTTATTTTAAA
1 TAAATTAT-TAATTTATTTTAAA
*
63876515 TAAATTATTTATTTATTTTAA
1 TAAATTATTAATTTATTTTAA
63876536 TACCTTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TAAATTATTAATTTATTTTAAA
Found at i:63879587 original size:13 final size:13
Alignment explanation
Indices: 63879571--63879604 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
63879561 TATGCTTTTA
63879571 TTTATATTTATAT
1 TTTATATTTATAT
63879584 TTTA-ACTTTATAT
1 TTTATA-TTTATAT
63879597 TTTATATT
1 TTTATATT
63879605 AGTATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 17 0.89
14 1 0.05
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATATTTATAT
Done.