Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 111 of 189
Found at i:31043340 original size:41 final size:40
Alignment explanation
Indices: 31043273--31043554 Score: 305
Period size: 41 Copynumber: 6.9 Consensus size: 40
31043263 GCTAAAAATA
*
31043273 GAGCATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAAGCCAC
1 GAGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAAGCC-C
* *
31043315 GAGCATTAGCGGCGCTTCCTCAAAAACACTGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAG-CCC
* *
31043356 AAGCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
*
31043396 GAGCATTAGCGGCGCCTCCTCAAAAACGCCGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAG-CCC
* * *
31043437 GAGCATTAGCGGCGCCTCCTCAAAAGCGCCGCTATAGCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
* * * * * **
31043477 TAAGCATTAGCGGTGCTT-TTCTAAAAATGCCGCTAAATCGTT
1 -GAGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAAGC-CC
* ** * *
31043519 GAGCATTAGTGGCGCTTTATTAAAAATGCCGCTAAA
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA
31043555 TCCCCGAAAG
Statistics
Matches: 207, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
40 42 0.20
41 142 0.69
42 23 0.11
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
Found at i:31043419 original size:81 final size:81
Alignment explanation
Indices: 31043274--31043489 Score: 315
Period size: 81 Copynumber: 2.6 Consensus size: 81
31043264 CTAAAAATAG
* *
31043274 AGCATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTCCTCAAA
1 AGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAAGCC-CGAGCATTAGCGGCGCCTCCTCAAA
*
31043339 AACACTGCTAAAGCCCCA
64 AACACCGCTAAAGCCCCA
*
31043357 AGCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGCCCGAGCATTAGCGGCGCCTCCTCAAAAA
1 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCGAGCATTAGCGGCGCCTCCTCAAAAA
* *
31043422 CGCCGCTAAAGCCCCG
66 CACCGCTAAAGCCCCA
* * * *
31043438 AGCATTAGCGGCGCCTCCTCAAAAGCGCCGCTATAGCCCTAAGCATTAGCGG
1 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC-GAGCATTAGCGG
31043490 TGCTTTTCTA
Statistics
Matches: 121, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
81 74 0.61
82 28 0.23
83 19 0.16
ACGTcount: A:0.28, C:0.34, G:0.22, T:0.16
Consensus pattern (81 bp):
AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCGAGCATTAGCGGCGCCTCCTCAAAAA
CACCGCTAAAGCCCCA
Found at i:31043482 original size:122 final size:123
Alignment explanation
Indices: 31043273--31043513 Score: 360
Period size: 122 Copynumber: 2.0 Consensus size: 123
31043263 GCTAAAAATA
* * *
31043273 GAGCATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTCCTCAA
1 GAGCATTAGCGGCGCCTCCTCAAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCCTCCTCAA
*
31043338 AAACACTGCTAAAGCCCCAAGCATTAGCGGCGCTTC-CTCAAAAATGCCGCTAAAGCCC
66 AAACACCGCTAAAGCCCCAAGCATTAGCGGCGCTTCTCT-AAAAATGCCGCTAAAGCCC
*
31043396 GAGCATTAGCGGCGCCTCCTC-AAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCCTCCTCAA
1 GAGCATTAGCGGCGCCTCCTCAAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCCTCCTCAA
* * * * * *
31043460 AAGCGCCGCTATAGCCCTAAGCATTAGCGGTGCTTTTCTAAAAATGCCGCTAAA
66 AAACACCGCTAAAGCCCCAAGCATTAGCGGCGCTTCTCTAAAAATGCCGCTAAA
31043514 TCGTTGAGCA
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
122 85 0.80
123 21 0.20
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (123 bp):
GAGCATTAGCGGCGCCTCCTCAAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCCTCCTCAA
AAACACCGCTAAAGCCCCAAGCATTAGCGGCGCTTCTCTAAAAATGCCGCTAAAGCCC
Found at i:31043550 original size:82 final size:81
Alignment explanation
Indices: 31043273--31043554 Score: 305
Period size: 81 Copynumber: 3.4 Consensus size: 81
31043263 GCTAAAAATA
* * * *
31043273 GAGCATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAAGCCACGAGCATTAGCGGCGCTTCCTCAA
1 GAGCATTAGCGGCGCTTCCTC-AAAAATGCCGCTAAAGCC-CAAGCATTAGCGGCGCCTCCTCAA
* *
31043338 AAACACTGCTAAAGCCCC
64 AAACGCCGCTAAAGCCCC
* *
31043356 AAGCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGCCCGAGCATTAGCGGCGCCTCCTCAAAA
1 GAGCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGCCCAAGCATTAGCGGCGCCTCCTCAAAA
31043421 ACGCCGCTAAAGCCCC
66 ACGCCGCTAAAGCCCC
* ** * * **
31043437 GAGCATTAGCGGCGCCTCCTCAAAAGCGCCGCTATAGCCCTAAGCATTAGCGGTG-CTTTTCTAA
1 GAGCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGCCC-AAGCATTAGCGGCGCCTCCTC-AA
* * ***
31043501 AAATGCCGCTAAATCGTT
64 AAACGCCGCTAAAGCCCC
* ** *
31043519 GAGCATTAGTGGCGCTTTATTAAAAATGCCGCTAAA
1 GAGCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAA
31043555 TCCCCGAAAG
Statistics
Matches: 169, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
81 78 0.46
82 72 0.43
83 19 0.11
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (81 bp):
GAGCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGCCCAAGCATTAGCGGCGCCTCCTCAAAA
ACGCCGCTAAAGCCCC
Found at i:31043555 original size:41 final size:41
Alignment explanation
Indices: 31043232--31043556 Score: 153
Period size: 41 Copynumber: 8.0 Consensus size: 41
31043222 TTTAAATCCC
* * **
31043232 TGAGCATTAGTGGCGCTTTT-TAGAAAATGTCGCTAAA-AAT
1 TGAGCATTAGCGGCGCTTTTCTA-AAAATGCCGCTAAATCGT
* * * * **
31043272 AGAGCATTAGCGGCGCTTTCTCAAAAAACGCCGCTAAAGCCA
1 TGAGCATTAGCGGCGCTTT-TCTAAAAATGCCGCTAAATCGT
* * ** * * **
31043314 CGAGCATTAGCGGCGC-TTCCTCAAAAACACTGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTTTCT-AAAAATGCCGCTAAATCGT
** * * *
31043355 CAAGCATTAGCGGCGC-TTCCTCAAAAATGCCGCTAAAGC-C
1 TGAGCATTAGCGGCGCTTTTCT-AAAAATGCCGCTAAATCGT
* * * * * **
31043395 CGAGCATTAGCGGCGC-CTCCTCAAAAACGCCGCTAAAGCCC
1 TGAGCATTAGCGGCGCTTTTCT-AAAAATGCCGCTAAATCGT
* * * ** * * **
31043436 CGAGCATTAGCGGCGC-CTCCTCAAAAGCGCCGCTATAGCCC
1 TGAGCATTAGCGGCGCTTTTCT-AAAAATGCCGCTAAATCGT
* *
31043477 TAAGCATTAGCGGTGCTTTTCTAAAAATGCCGCTAAATCGT
1 TGAGCATTAGCGGCGCTTTTCTAAAAATGCCGCTAAATCGT
*
31043518 TGAGCATTAGTGGCGCTTTAT-TAAAAATGCCGCTAAATC
1 TGAGCATTAGCGGCGCTTT-TCTAAAAATGCCGCTAAATC
31043557 CCCGAAAGCT
Statistics
Matches: 241, Mismatches: 37, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
40 55 0.23
41 166 0.69
42 20 0.08
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
TGAGCATTAGCGGCGCTTTTCTAAAAATGCCGCTAAATCGT
Found at i:31043687 original size:39 final size:40
Alignment explanation
Indices: 31043639--31043725 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 40
31043629 TTATTTTTGG
*
31043639 CGGCGTTTTTCATAATA-CGCCACTAATGCT-AGATCTTTAA
1 CGGCGTTTTTCA-AAAAGCGCCACTAATGCTCA-ATCTTTAA
* **
31043679 CGGC-TTTTTCAAAAAGCGCCGCTAATGCTCAATCTTTTG
1 CGGCGTTTTTCAAAAAGCGCCACTAATGCTCAATCTTTAA
31043718 CGGCGTTT
1 CGGCGTTT
31043726 GGAATCCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
38 3 0.08
39 29 0.73
40 8 0.20
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (40 bp):
CGGCGTTTTTCAAAAAGCGCCACTAATGCTCAATCTTTAA
Found at i:31049305 original size:44 final size:44
Alignment explanation
Indices: 31049229--31049336 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
31049219 AATCTGCTCT
*
31049229 CTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCTATGGTTTTAATCCGCTCCA
* * * * * *
31049273 TTGCAACTTCAGGGAGATAGGAT-TAATTGTTTTCATCTGCTCCG
1 CTGCAACTTCAGGGAGATAAGATCT-ATGGTTTTAATCCGCTCCA
*
31049317 CTGCGACTTCAGGGAGATAA
1 CTGCAACTTCAGGGAGATAA
31049337 AACTTACCAT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATCTATGGTTTTAATCCGCTCCA
Found at i:31049650 original size:50 final size:49
Alignment explanation
Indices: 31049545--31049650 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 49
31049535 TGCTAGGGAG
* * *
31049545 ATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACACAAGGGA
1 ATAAGATTCGCCGTCGTGGCTTCAATCTACTCCACTACAACACAAGGCA
* * * * *
31049594 AGTAAGATTCGCCGTTGTGGCTTCAATCTATTCCATTGCAACGTCAAGGCA
1 A-TAAGATTCGCCGTCGTGGCTTCAATCTACTCCACTACAAC-ACAAGGCA
31049645 ATAAGA
1 ATAAGA
31049651 CTGATGTCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
49 1 0.02
50 39 0.83
51 7 0.15
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (49 bp):
ATAAGATTCGCCGTCGTGGCTTCAATCTACTCCACTACAACACAAGGCA
Found at i:31062289 original size:3 final size:3
Alignment explanation
Indices: 31062281--31062332 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
31062271 ATATGTAGGT
* *
31062281 ATA ATA ATA ATA ATA ATA TATA AT- ATA ATA ATG ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
31062326 TTA ATA A
1 ATA ATA A
31062333 AAAACTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:31063019 original size:17 final size:19
Alignment explanation
Indices: 31062993--31063039 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
31062983 CACCTTCAAA
*
31062993 CTTTTGCTTTTC-TGATT-
1 CTTTTACTTTTCGTGATTC
*
31063010 CTTTTAC-TTTCGTGTTTC
1 CTTTTACTTTTCGTGATTC
31063028 CTTTTACTTTTC
1 CTTTTACTTTTC
31063040 AATATAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 4 0.16
17 10 0.40
18 7 0.28
19 4 0.16
ACGTcount: A:0.06, C:0.21, G:0.09, T:0.64
Consensus pattern (19 bp):
CTTTTACTTTTCGTGATTC
Found at i:31065679 original size:20 final size:21
Alignment explanation
Indices: 31065654--31065694 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
31065644 GGTATGCAAT
31065654 TTTTAG-TTGATTTA-AATGTG
1 TTTTAGTTTG-TTTATAATGTG
31065674 TTTTAGTTTGTTTATAATGTG
1 TTTTAGTTTGTTTATAATGTG
31065695 CTTGTAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (21 bp):
TTTTAGTTTGTTTATAATGTG
Found at i:31066316 original size:17 final size:16
Alignment explanation
Indices: 31066264--31066318 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
31066254 CTGCAATAAA
31066264 TATTATAAATATTTTAT
1 TATTA-AAATATTTTAT
** *
31066281 TAGGAATATATTTTAAT
1 TATTAAAATATTTT-AT
31066298 TATTAAAATAATTTTAT
1 TATTAAAAT-ATTTTAT
31066315 TATT
1 TATT
31066319 TTAATTAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 8 0.27
17 17 0.57
18 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (16 bp):
TATTAAAATATTTTAT
Found at i:31067690 original size:32 final size:33
Alignment explanation
Indices: 31067652--31067776 Score: 134
Period size: 32 Copynumber: 3.9 Consensus size: 33
31067642 ATAAGTATAT
* *
31067652 TAATATGATTGGCACAAAGTCATCAGTAGTAA-
1 TAATATGATCGGCACAAAGCCATCAGTAGTAAG
* *
31067684 TAATATGATCGGCAGAAAGCCATCAATAG-AAG
1 TAATATGATCGGCACAAAGCCATCAGTAGTAAG
* * *
31067716 TGATATGATTGGCACATAGCC-T--GTAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAGTAA--G
31067748 TAATATGATCGGCACAAAGCCATCAGTAG
1 TAATATGATCGGCACAAAGCCATCAGTAG
31067777 CATCGCAGCA
Statistics
Matches: 74, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
29 3 0.04
30 2 0.03
31 3 0.04
32 61 0.82
33 1 0.01
35 4 0.05
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (33 bp):
TAATATGATCGGCACAAAGCCATCAGTAGTAAG
Found at i:31067978 original size:24 final size:24
Alignment explanation
Indices: 31067946--31068004 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
31067936 GCCATGCTTA
* * *
31067946 AAATTAGTCATACAATTCATAGAC
1 AAATCAGTCATACAAATCACAGAC
** *
31067970 AAATCAGTCATTTAAATCACAGAT
1 AAATCAGTCATACAAATCACAGAC
31067994 AAATCAGTCAT
1 AAATCAGTCAT
31068005 TTACATCTCG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (24 bp):
AAATCAGTCATACAAATCACAGAC
Found at i:31068005 original size:24 final size:24
Alignment explanation
Indices: 31067970--31068056 Score: 102
Period size: 24 Copynumber: 3.6 Consensus size: 24
31067960 ATTCATAGAC
*
31067970 AAATCAGTCATTTAAATCACAGAT
1 AAATCAATCATTTAAATCACAGAT
* * * * *
31067994 AAATCAGTCATTTACATCTCGGAC
1 AAATCAATCATTTAAATCACAGAT
* *
31068018 AAATCAATCACTTACATCACAGAT
1 AAATCAATCATTTAAATCACAGAT
31068042 AAATCAATCATTTAA
1 AAATCAATCATTTAA
31068057 CCTTGAGGGC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.29
Consensus pattern (24 bp):
AAATCAATCATTTAAATCACAGAT
Found at i:31068217 original size:27 final size:27
Alignment explanation
Indices: 31068127--31068217 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
31068117 AGGTATTATA
*
31068127 ATCATTTTAC-CTACAGGGGCATCACG
1 ATCATTTTACACTACAGGGGCATTACG
* * * *
31068153 GTTATTTTACCCTACAGGGGCATTATG
1 ATCATTTTACACTACAGGGGCATTACG
31068180 ATCATTTTACACTACAGGGGCATTACG
1 ATCATTTTACACTACAGGGGCATTACG
31068207 ATCATTTTACA
1 ATCATTTTACA
31068218 AATATTGAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 8 0.14
27 48 0.86
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
ATCATTTTACACTACAGGGGCATTACG
Found at i:31069463 original size:16 final size:15
Alignment explanation
Indices: 31069430--31069467 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
31069420 ATGATGTGTA
31069430 AATATAA-TATAAAT
1 AATATAATTATAAAT
*
31069444 AATATAATTAATATAT
1 AATATAATT-ATAAAT
31069460 AATATAAT
1 AATATAAT
31069468 AAGTGATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 1 0.05
16 13 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATAATTATAAAT
Found at i:31071500 original size:21 final size:21
Alignment explanation
Indices: 31071474--31071516 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31071464 GTGAGATTCT
*
31071474 AACTTTTTATTGATTAAACTA
1 AACTTTTTATTCATTAAACTA
31071495 AACTTTTTATTCATTAAACTA
1 AACTTTTTATTCATTAAACTA
31071516 A
1 A
31071517 GTGAGTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (21 bp):
AACTTTTTATTCATTAAACTA
Found at i:31074926 original size:14 final size:16
Alignment explanation
Indices: 31074907--31074938 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31074897 CTTTAATAAA
31074907 TATTA-GAA-ATATTT
1 TATTAGGAATATATTT
31074921 TATTAGGAATATATTT
1 TATTAGGAATATATTT
31074937 TA
1 TA
31074939 ATTATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 3 0.19
16 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TATTAGGAATATATTT
Found at i:31075124 original size:399 final size:398
Alignment explanation
Indices: 31074383--31075187 Score: 1448
Period size: 399 Copynumber: 2.0 Consensus size: 398
31074373 TTTATATTAA
** *
31074383 TTATATATTATCTATGTATTATTATCGTCAATTATTTACTTTTAAGAAAAAAACAAATATTTAAT
1 TTATATATTATCTACATATTATTATCGTCAATTATTTACATTTAAGAAAAAAACAAATATTTAAT
31074448 AATGTAAGGTTTAATTTACAATATGTCAATTTTTATATTTTTCATAAATACTTCAATAAATATTA
66 AATGTAAGGTTTAATTTACAATATGTCAATTTTTATATTTTTCATAAATACTTCAATAAATATTA
*
31074513 TAAATATTTTATTAGGAATATATTTTAATTATTAAAATAATTTATTTATTTTAATTAAGTTAATT
131 GAAATATTTTATTAGGAATATATTTTAATTATTAAAATAATTTATTTATTTTAATTAAGTTAATT
* *
31074578 ACTTATTATTTTGAACAATGCTACTTTGTATTAATTAGATGAAGTAACACTATATTCCTCAATGA
196 ACTTATTATTTTGAACAATGCTACTTTGTATTAATCAGATGAAGTAAAACTATATTCCTCAATGA
*
31074643 ATATGTTATTAATGCTTTAATATGCTATATGTTTTTAATAATATTCAACAATGCCTAAAATCACT
261 ATATATTATTAATGCTTTAATATGCTATATGTTTTTAATAATATTCAACAATGCCTAAAATCACT
31074708 TGCTTCACATCGGCATTAAAAAATAATTATATATGATGGTAGGGGTAATAATAAAAATATATAAA
326 TGCTTCACATCGGCATTAAAAAATAATTATATATGATGGTAGGGGTAATAATAAAAATATATAAA
31074773 TATGTTTT
391 TATGTTTT
31074781 TTATATATTATCTACATATTATTATCGTCAATTATTTACATTTAAGAAAAAAAACAAATATTTAA
1 TTATATATTATCTACATATTATTATCGTCAATTATTTACATTTAAG-AAAAAAACAAATATTTAA
* * * *
31074846 TAATGTAAGGTTTAATTTATAGTATGTCATTTTTTATATTTTTCATAAATACTTTAATAAATATT
65 TAATGTAAGGTTTAATTTACAATATGTCAATTTTTATATTTTTCATAAATACTTCAATAAATATT
* *
31074911 AGAAATATTTTATTAGGAATATATTTTAATTATTAAAATAATTTATTTATTTTCATTAATTTAAT
130 AGAAATATTTTATTAGGAATATATTTTAATTATTAAAATAATTTATTTATTTTAATTAAGTTAAT
31074976 TACTTATTATTTTGAACAATGCTACTTTGTATTAATCAGATGAAGTAAAACTATATTCCTCAATG
195 TACTTATTATTTTGAACAATGCTACTTTGTATTAATCAGATGAAGTAAAACTATATTCCTCAATG
* * *
31075041 AATATATTATTAATGCTTTAATATGCTATCTTTTTTTAATAATATTCAACAATGCCTGAAATCAC
260 AATATATTATTAATGCTTTAATATGCTATATGTTTTTAATAATATTCAACAATGCCTAAAATCAC
*
31075106 TTGCTTCACATTGGCATTAAAAAATAATTATATATGATGGTAGGGGTAATAATAAAAATATATAA
325 TTGCTTCACATCGGCATTAAAAAATAATTATATATGATGGTAGGGGTAATAATAAAAATATATAA
31075171 ATATGTTTT
390 ATATGTTTT
31075180 TTATATAT
1 TTATATAT
31075188 AAACAAAAAA
Statistics
Matches: 389, Mismatches: 17, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
398 43 0.11
399 346 0.89
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (398 bp):
TTATATATTATCTACATATTATTATCGTCAATTATTTACATTTAAGAAAAAAACAAATATTTAAT
AATGTAAGGTTTAATTTACAATATGTCAATTTTTATATTTTTCATAAATACTTCAATAAATATTA
GAAATATTTTATTAGGAATATATTTTAATTATTAAAATAATTTATTTATTTTAATTAAGTTAATT
ACTTATTATTTTGAACAATGCTACTTTGTATTAATCAGATGAAGTAAAACTATATTCCTCAATGA
ATATATTATTAATGCTTTAATATGCTATATGTTTTTAATAATATTCAACAATGCCTAAAATCACT
TGCTTCACATCGGCATTAAAAAATAATTATATATGATGGTAGGGGTAATAATAAAAATATATAAA
TATGTTTT
Found at i:31076286 original size:32 final size:32
Alignment explanation
Indices: 31076238--31076376 Score: 165
Period size: 32 Copynumber: 4.4 Consensus size: 32
31076228 AATAGCTACT
* *
31076238 AGCCATAAGTA-TAGTAATATGATTGGCACAA
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
*
31076269 AGCCATCAGTAGTAGTAATATGATTGGCACAA
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
* * *
31076301 AGCCATCAGTAGAAGTGATATGATCGGCACAC
1 AGCCATCAGTAGTAGTAATATGATCGGCACAA
*** *
31076333 AGCCTAT-AGTAACGGTAATATAATCGGCACAA
1 AGCC-ATCAGTAGTAGTAATATGATCGGCACAA
31076365 AGCCATCAGTAG
1 AGCCATCAGTAG
31076377 CATCGAAACA
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
31 12 0.13
32 79 0.85
33 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (32 bp):
AGCCATCAGTAGTAGTAATATGATCGGCACAA
Found at i:31076579 original size:24 final size:23
Alignment explanation
Indices: 31076546--31076676 Score: 97
Period size: 24 Copynumber: 5.5 Consensus size: 23
31076536 GCCATGCTCA
* *
31076546 AAATCTGTCATACAATTCATAGAC
1 AAATCAGTCATACAA-TCACAGAC
*
31076570 AAATAAGTCATACCAATCACAGAC
1 AAATCAGTCATA-CAATCACAGAC
31076594 AAATCAGTCATTTA-AATCACAGAC
1 AAATCAGTCA--TACAATCACAGAC
* *
31076618 AAATCAGTCATTTAC-ATCTCGGAC
1 AAATCAGTCA--TACAATCACAGAC
* *
31076642 AAATCAATCACTTAC-ATCACAGAT
1 AAATCAGTCA--TACAATCACAGAC
*
31076666 AAATCAATCAT
1 AAATCAGTCAT
31076677 TTAACCTCGA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
22 1 0.01
24 86 0.93
25 3 0.03
26 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (23 bp):
AAATCAGTCATACAATCACAGAC
Found at i:31076841 original size:27 final size:27
Alignment explanation
Indices: 31076745--31076841 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
31076735 TAACAGAGGT
* *
31076745 ATTACAATAATTTTAC-CTACAGGGGC
1 ATTACGATCATTTTACACTACAGGGGC
* * * *
31076771 ATCACGGTTATTTTACCCTACAGGGGC
1 ATTACGATCATTTTACACTACAGGGGC
* *
31076798 ATTATGATCATTTTACACTACAAGGGC
1 ATTACGATCATTTTACACTACAGGGGC
31076825 ATTACGATCATTTTACA
1 ATTACGATCATTTTACA
31076842 AATATTGATG
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
26 12 0.20
27 47 0.80
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (27 bp):
ATTACGATCATTTTACACTACAGGGGC
Found at i:31080922 original size:17 final size:17
Alignment explanation
Indices: 31080897--31080946 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
31080887 ATAAAAAGTC
*
31080897 AAAGATATGAGTATCAG
1 AAAGATATGGGTATCAG
*
31080914 AAAGTTATGGGTATCAG
1 AAAGATATGGGTATCAG
31080931 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
31080947 AAATCTGGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:31085966 original size:14 final size:16
Alignment explanation
Indices: 31085947--31085985 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
31085937 TAGCCACCAG
*
31085947 ATTGAGATTGTCT-A-
1 ATTGAGATTGTATCAT
31085961 ATTGAGATTGTATCAT
1 ATTGAGATTGTATCAT
31085977 ATTGAGATT
1 ATTGAGATT
31085986 AGAGCTCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.55
15 1 0.05
16 9 0.41
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.44
Consensus pattern (16 bp):
ATTGAGATTGTATCAT
Found at i:31095067 original size:19 final size:21
Alignment explanation
Indices: 31095029--31095067 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
31095019 CCTTTTTTAA
*
31095029 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
31095050 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
31095068 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:31095296 original size:21 final size:21
Alignment explanation
Indices: 31095270--31095324 Score: 87
Period size: 19 Copynumber: 2.7 Consensus size: 21
31095260 AATCATATCT
31095270 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
31095291 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
31095310 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
31095325 CCTCGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:31095310 original size:24 final size:22
Alignment explanation
Indices: 31095247--31095312 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
31095237 AAATTAAATC
* *
31095247 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTGC-ATATCATATCT
31095270 TCTAAGATTG--TAT-ATATCAT
1 TCTAAGATTGCATATCATATC-T
31095290 ATCTAAGATTGCATATCATATCT
1 -TCTAAGATTGCATATCATATCT
31095313 AAGATTGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
19 5 0.14
20 3 0.08
21 10 0.28
23 13 0.36
24 5 0.14
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (22 bp):
TCTAAGATTGCATATCATATCT
Found at i:31096092 original size:132 final size:132
Alignment explanation
Indices: 31095855--31097474 Score: 2469
Period size: 132 Copynumber: 12.3 Consensus size: 132
31095845 TTCACTGCAA
* * *
31095855 CTTCAACCTACTCCGCTGCTGCTCAG-GTAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA
1 CTTCAACCTTCTCCGCTGCTGCTCAGAG-AGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTA
* *
31095919 TCTTGGAAAGATAAGATTTGCCGA-CTTTGATTTGCTCCACTACTGCTTAGGGAAATAAGATCTA
65 TCTTGGAAAGATAAGATTTGCC-ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
31095983 CAAT
129 CAAT
*
31095987 CTTCAACCTTCTCCGTTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
31096052 CTTCGAAAGATAAGATTTGCAATCTTTAATCTGCTCCACTACTGCTTATGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31096117 AT
131 AT
* * * *
31096119 C-TCAACCTACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * * *
31096183 CTTGGAAAGATAAGATTTGTCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATGTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31096248 AT
131 AT
*
31096250 CTTCAACCTTCCCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
31096315 CTTGGGAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTCA-GGAGATAAGATCTAC
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTAC
31096379 AAT
130 AAT
* * *
31096382 CTTCAACCTTATCCGCTACTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATTTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
31096447 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAAATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31096512 AT
131 AT
* * * * *
31096514 CTTCAACCTACTCCGCTGCTGTTCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * * *
31096579 CTTGGAAA-ATAAGATTTTCCGTCTTTGATCTACTCCACTCCTGCATAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31096643 AT
131 AT
* * *
31096645 CTTCAACCTTCTCCACTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCATTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
31096710 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGGTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31096775 AT
131 AT
* *
31096777 CTTCAACCTTCTCCACTGCTGCCCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
31096842 CTTGGAAAGATAAGATTTTCCATCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31096907 AT
131 AT
* * * * *
31096909 CTTCAACCTACTCCGCTGTTGTTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
31096974 GTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCATAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31097039 AT
131 AT
* *
31097041 CTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATTTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
31097106 CTTGGAAAGATAAGATTTGTCATTTTTGATCTGCTCCACTATTGGTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31097171 AT
131 AT
* **
31097173 CTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTAACTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * *
31097238 CTTAGAAAGATAAGATTTGCCATCTTTGATTTGCTCCACTACTGCTTAGGGAGAAAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31097303 AT
131 AT
** ** * * *
31097305 CTTCAACCAACTCCGCTATTGCTCAGGGAGGCAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * * *
31097370 CTTGGAAAG-TAAGATTTGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
31097434 AT
131 AT
*
31097436 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAGGGCTT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTT
31097475 GGTGTTTCAC
Statistics
Matches: 1342, Mismatches: 140, Indels: 13
0.90 0.09 0.01
Matches are distributed among these distances:
131 317 0.24
132 1023 0.76
133 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
AT
Found at i:31096593 original size:395 final size:396
Alignment explanation
Indices: 31095855--31097474 Score: 2599
Period size: 395 Copynumber: 4.1 Consensus size: 396
31095845 TTCACTGCAA
* * *
31095855 CTTCAACCTACTCCGCTGCTGCTCAG-GTAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA
1 CTTCAACCTTCTCCGCTGCTGCTCAGAG-AGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTA
* *
31095919 TCTTGGAAAGATAAGATTTGCCGA-CTTTGATTTGCTCCACTACTGCTTAGGGAAATAAGATCTA
65 TCTTGGAAAGATAAGATTTGCC-ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
**
31095983 CAATCTTCAACCTTCTCCGTTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCA
129 CAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCA
* * * * *
31096048 CTATCTTCGAAAGATAAGATTTGCAATCTTTAATCTGCTCCACTACTGCTTATGGAGATAAGATC
194 CTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATC
*
31096113 TACAATC-TCAACCTACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCC
259 TACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCC
** *
31096177 CACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGA
324 CACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCATAGGGAGATAAGA
*
31096242 TGTACAAT
389 TCTACAAT
*
31096250 CTTCAACCTTCCCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
31096315 CTTGGGAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTCA-GGAGATAAGATCTAC
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTAC
* * * *
31096379 AATCTTCAACCTTATCCGCTACTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATTTGCTTCCCAC
130 AATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCAC
*
31096444 TATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAAATCT
195 TATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATCT
* *
31096509 ACAATCTTCAACCTACTCCGCTGCTGTTCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCC
260 ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCC
* *
31096574 ACTATCTTGGAAA-ATAAGATTT-TCCGTCTTTGATCTACTCCACTCCTGCATAGGGAGATAAGA
325 ACTATCTTGGAAAGATAAGATTTGT-CGTCTTCGATCTACTCCACTACTGCATAGGGAGATAAGA
31096637 TCTACAAT
389 TCTACAAT
* * *
31096645 CTTCAACCTTCTCCACTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCATTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
31096710 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGGTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
*
31096775 ATCTTCAACCTTCTCCACTGCTGCCCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
131 ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
* * *
31096840 ATCTTGGAAAGATAAGATTTTCCATCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTA
196 ATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTA
* *
31096905 CAATCTTCAACCTACTCCGCTGTTGTTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
261 CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
* * *
31096970 CTATGTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCATAGGGAGATAAGATC
326 CTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCATAGGGAGATAAGATC
31097035 TACAAT
391 TACAAT
* *
31097041 CTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATTTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
31097106 CTTGGAAAGATAAGATTTGTCATTTTTGATCTGCTCCACTATTGGTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
**
31097171 ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTAACTTAAATCTGCTTCCCACT
131 ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
* *
31097236 ATCTTAGAAAGATAAGATTTGCCATCTTTGATTTGCTCCACTACTGCTTAGGGAGA-AAAGATCT
196 ATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAA-ATCT
* ** *
31097300 ACAATCTTCAACCAACTCCGCTATTGCTCAGGGAGGCAAGGCTTGGTGGCTTAAATCTGCTTCCC
260 ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCC
* * *
31097365 ACTATCTTGGAAAG-TAAGATTTGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGAT
325 ACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCATAGGGAGATAAGAT
*
31097429 CTGCAAT
390 CTACAAT
*
31097436 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAGGGCTT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTT
31097475 GGTGTTTCAC
Statistics
Matches: 1145, Mismatches: 71, Indels: 18
0.93 0.06 0.01
Matches are distributed among these distances:
394 3 0.00
395 701 0.61
396 441 0.39
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (396 bp):
CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
ATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTA
CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
CTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCATAGGGAGATAAGATC
TACAAT
Found at i:31096854 original size:527 final size:528
Alignment explanation
Indices: 31095855--31097478 Score: 2490
Period size: 527 Copynumber: 3.1 Consensus size: 528
31095845 TTCACTGCAA
*
31095855 CTTCAACCTACTCCGCTGCTGCTCAG-GTAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA
1 CTTCAACCTACTCCGCTGCTGCTCAGAG-AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA
* *
31095919 TCTTGGAAAGATAAGATTTGCCGA-CTTTGATTTGCTCCACTACTGCTTAGGGAAATAAGATCTA
65 TCTTGGAAAGATAAGATTTGCC-ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
*
31095983 CAATCTTCAACCTTCTCCGTTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCA
129 CAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCA
* * * * *
31096048 CTATCTTCGAAAGATAAGATTTGCAATCTTTAATCTGCTCCACTACTGCTTATGGAGATAAGATC
194 CTATCTTGGAAAGATAAGATTTTCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
* * * * *
31096113 TACAATC-TCAACCTACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCC
259 TACAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCC
* * * *
31096177 CACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGA
324 CACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* *
31096242 TGTACAATCTTCAACCTTCCCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTT
389 TCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTT
*
31096307 CCCACTATCTTGGGAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTCA-GGAGATA
454 CCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTT-AGGGAGATA
31096371 AGATCTACAAT
518 AGATCTACAAT
* * *
31096382 CTTCAACCTTA-TCCGCTACTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATTTGCTTCCCACTA
1 CTTCAACC-TACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA
* *
31096446 TCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAAATCTAC
65 TCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
* * * * *
31096511 AATCTTCAACCTACTCCGCTGCTGTTCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCAC
130 AATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCAC
* * * *
31096576 TATCTTGGAAA-ATAAGATTTTCCGTCTTTGATCTACTCCACTCCTGCATAGGGAGATAAGATCT
195 TATCTTGGAAAGATAAGATTTTCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
*
31096640 ACAATCTTCAACCTTCTCCACTGCTACTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCC
260 ACAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCC
* *
31096705 ATTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGGTTAGGGAGATAAGAT
325 ACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
* *
31096770 CTACAATCTTCAACCTTCTCCACTGCTGCCCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTC
390 CTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTC
* *
31096835 CCACTATCTTGGAAAGATAAGATTTTCCATCTTTGATCTGCTTCACTACTGCTTAGGGAGATAAG
455 CCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAG
31096900 ATCTACAAT
520 ATCTACAAT
* * *
31096909 CTTCAACCTACTCCGCTGTTGTTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * * *
31096974 GTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCATAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
* *
31097039 ATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATTTGCTTCCCACT
131 ATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
* * *
31097104 ATCTTGGAAAGATAAGATTTGT-CATTTTTGATCTGCTCCACTATTGGTTAGGGAGATAAGATCT
196 ATCTTGGAAAGATAAGATTT-TCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
**
31097168 ACAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTAACTTAAATCTGCTTCCC
260 ACAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCC
* * *
31097233 ACTATCTTAGAAAGATAAGATTTGCCATCTTTGATTTGCTCCACTACTGCTTAGGGAGAAAAGAT
325 ACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
** ** * * *
31097298 CTACAATCTTCAACCAACTCCGCTATTGCTCAGGGAGGCAAGGCTTGGTGGCTTAAATCTGCTTC
390 CTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTC
* * * *
31097363 CCACTATCTTGGAAAG-TAAGATTTGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAG
455 CCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
31097427 ATCTGCAAT
520 ATCTACAAT
* *
31097436 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAGGGCTTGGTG
1 CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTG
31097479 TTTCACTTGT
Statistics
Matches: 992, Mismatches: 97, Indels: 16
0.90 0.09 0.01
Matches are distributed among these distances:
526 55 0.06
527 695 0.70
528 241 0.24
529 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (528 bp):
CTTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
ATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
ATCTTGGAAAGATAAGATTTTCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
CAATCTTCAACCTTCTCCACTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCA
CTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCC
CACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTACAAT
Found at i:31101283 original size:20 final size:19
Alignment explanation
Indices: 31101233--31101283 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
31101223 TATATATGGT
*
31101233 TTGTTTTGAGGGTACATTG
1 TTGTTTTGAGGGTAAATTG
* *
31101252 TTGGTGTCGAGGGTAAATTAG
1 TT-GTTTTGAGGGTAAATT-G
31101273 TTGTTTTGAGG
1 TTGTTTTGAGG
31101284 CTATGTTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.18, C:0.04, G:0.35, T:0.43
Consensus pattern (19 bp):
TTGTTTTGAGGGTAAATTG
Found at i:31105093 original size:23 final size:23
Alignment explanation
Indices: 31105047--31105210 Score: 138
Period size: 23 Copynumber: 7.2 Consensus size: 23
31105037 GATATGTTGA
*
31105047 AGGGTAT-ATTGATTGTGTTTGG
1 AGGGTATAATTGGTTGTGTTTGG
* *
31105069 AGGGTATAGTTGGTTGTGTTCGG
1 AGGGTATAATTGGTTGTGTTTGG
* * *
31105092 AGGTTATATATATGGTT-TTTTTTG
1 AGGGTATA-AT-TGGTTGTGTTTGG
* * *
31105116 AGGGTACATTTGGTTGTGTTCGG
1 AGGGTATAATTGGTTGTGTTTGG
*
31105139 AGGGTA-AATTAGTTGTGTTTGG
1 AGGGTATAATTGGTTGTGTTTGG
* ** *
31105161 AGGCTATGTTTTGTTGTGTTTGG
1 AGGGTATAATTGGTTGTGTTTGG
*
31105184 AGGGTA-AATTGGTTGTATTTGG
1 AGGGTATAATTGGTTGTGTTTGG
*
31105206 TGGGT
1 AGGGT
31105211 GATAGATTTA
Statistics
Matches: 110, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
22 46 0.42
23 48 0.44
24 11 0.10
25 5 0.05
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.45
Consensus pattern (23 bp):
AGGGTATAATTGGTTGTGTTTGG
Found at i:31108266 original size:27 final size:27
Alignment explanation
Indices: 31108230--31108508 Score: 353
Period size: 27 Copynumber: 10.3 Consensus size: 27
31108220 GCGATTTGTA
* *
31108230 GGTAAAATGATCAAAATACCCTTGAAG
1 GGTAAAATGATCGAAATACCCTCGAAG
* * *
31108257 GTTAAAATGACCGAAATACGCTCGAAG
1 GGTAAAATGATCGAAATACCCTCGAAG
* *
31108284 GGTAAAATAACCGAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCTCGAAG
* *
31108311 GGTAAAATAACCGAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCTCGAAG
*
31108338 GGTAAAATGATCGAAATACCCTCCAAG
1 GGTAAAATGATCGAAATACCCTCGAAG
* *
31108365 GGTAAAATGAAT-AAAACACCCTCGAAG
1 GGTAAAATG-ATCGAAATACCCTCGAAG
*
31108392 GGTAAAATGACCGAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCTCGAAG
*
31108419 GGTAAAATGATTGAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCTCGAAG
* * * *
31108446 AGTAAAATGATAGAAATACCCCCGATG
1 GGTAAAATGATCGAAATACCCTCGAAG
* * *
31108473 TGTAAAATGATCGAAATACCCCCAAAG
1 GGTAAAATGATCGAAATACCCTCGAAG
31108500 GGTAAAATG
1 GGTAAAATG
31108509 TCTGTTATAC
Statistics
Matches: 222, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 219 0.99
28 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
GGTAAAATGATCGAAATACCCTCGAAG
Found at i:31108756 original size:25 final size:25
Alignment explanation
Indices: 31108697--31108792 Score: 113
Period size: 25 Copynumber: 3.8 Consensus size: 25
31108687 TACTGTTACC
* * * *
31108697 GGCAGCTTTACTGCGTTACTGTTATT
1 GGCAGCTTTGCTGCGTTATTATT-CT
31108723 GGCAGCTTTGCTGCGTTATTATTCT
1 GGCAGCTTTGCTGCGTTATTATTCT
31108748 GGCAGCTTT-CTTGCGTTATTATTCT
1 GGCAGCTTTGC-TGCGTTATTATTCT
* *
31108773 GGTAGCTTTGCTGCGATATT
1 GGCAGCTTTGCTGCGTTATT
31108793 GGTGTGTTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.65
26 21 0.34
ACGTcount: A:0.14, C:0.19, G:0.24, T:0.44
Consensus pattern (25 bp):
GGCAGCTTTGCTGCGTTATTATTCT
Found at i:31109157 original size:20 final size:21
Alignment explanation
Indices: 31109132--31109180 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
31109122 ACAACTAAAC
*
31109132 TAAACTAAAC-TTTTATTGAT
1 TAAACTAAACTTTTTATTCAT
31109152 TAAACTAAACTTTTTATTCAT
1 TAAACTAAACTTTTTATTCAT
31109173 TAAACTAA
1 TAAACTAA
31109181 GTGAGTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAACTAAACTTTTTATTCAT
Found at i:31111418 original size:5 final size:5
Alignment explanation
Indices: 31111408--31111515 Score: 50
Period size: 5 Copynumber: 21.6 Consensus size: 5
31111398 ATGATGTGTA
*
31111408 AATAT AATAT AAT-T AATAT AATCA- ACATAT AATAT AATA- AGACAT
1 AATAT AATAT AATAT AATAT AAT-AT A-ATAT AATAT AATAT A-ATAT
* * * * *
31111453 AAGA- AA-AT AATGCA- AATAG AATAT TATAT GAAATAT ACTAA AAT-T
1 AATAT AATAT AAT--AT AATAT AATAT AATAT --AATAT AATAT AATAT
31111498 AATAT AATAT AATAT AAT
1 AATAT AATAT AATAT AAT
31111516 TATTTTTTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
3 1 0.01
4 13 0.16
5 53 0.66
6 8 0.10
7 5 0.06
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (5 bp):
AATAT
Found at i:31113494 original size:20 final size:21
Alignment explanation
Indices: 31113471--31113515 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
31113461 AGGTGAGATT
* *
31113471 CTAAA-TTTTTATTGATTAAA
1 CTAAACTTTGTATTCATTAAA
31113491 CTAAACTTTGTATTCATTAAA
1 CTAAACTTTGTATTCATTAAA
31113512 CTAA
1 CTAA
31113516 GTGAGTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.44
Consensus pattern (21 bp):
CTAAACTTTGTATTCATTAAA
Found at i:31128908 original size:21 final size:21
Alignment explanation
Indices: 31128882--31128924 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31128872 GTAGGATTCT
31128882 AACTTTTTATTAATTAAACTA
1 AACTTTTTATTAATTAAACTA
*
31128903 AACTTTTTATTCATTAAACTA
1 AACTTTTTATTAATTAAACTA
31128924 A
1 A
31128925 GTGAGTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.47
Consensus pattern (21 bp):
AACTTTTTATTAATTAAACTA
Found at i:31132777 original size:21 final size:21
Alignment explanation
Indices: 31132751--31132793 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31132741 GTGAGATTCT
*
31132751 AACTTTTTATTGATTAAACTA
1 AACTTTTTATTCATTAAACTA
31132772 AACTTTTTATTCATTAAACTA
1 AACTTTTTATTCATTAAACTA
31132793 A
1 A
31132794 GTGAGTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (21 bp):
AACTTTTTATTCATTAAACTA
Found at i:31133977 original size:21 final size:22
Alignment explanation
Indices: 31133953--31134001 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
31133943 GTGGTATGCA
31133953 GTTTTTA-GATGATTTA-AATGT
1 GTTTTTAGGATG-TTTATAATGT
*
31133974 G-TTTTAGGTTGTTTATAATGT
1 GTTTTTAGGATGTTTATAATGT
31133995 GTTTTTA
1 GTTTTTA
31134002 AAGTAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 9 0.38
21 10 0.42
22 5 0.21
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.57
Consensus pattern (22 bp):
GTTTTTAGGATGTTTATAATGT
Found at i:31134507 original size:23 final size:23
Alignment explanation
Indices: 31134475--31134670 Score: 150
Period size: 23 Copynumber: 8.5 Consensus size: 23
31134465 TATGTAAAGA
31134475 GTAT-ATTGGTTGTGTTTGGAGG
1 GTATAATTGGTTGTGTTTGGAGG
* *
31134497 GTATAGTTGGTTGTGTTCGGAGG
1 GTATAATTGGTTGTGTTTGGAGG
* * * *
31134520 TTATATATATGGTGGTGTTTTGCA-A
1 GTATA-AT-TGGTTGTG-TTTGGAGG
* * * **
31134545 GTACATTTGGTTATGTTCAGAGG
1 GTATAATTGGTTGTGTTTGGAGG
*
31134568 GTA-AATTGGTTGTGTTTGGAAG
1 GTATAATTGGTTGTGTTTGGAGG
* *
31134590 GTATACTTGGTTGTGTTCGGAGG
1 GTATAATTGGTTGTGTTTGGAGG
*
31134613 TTATATATATGGTTGTGTTTGGAGG
1 GTATA-AT-TGGTTGTGTTTGGAGG
* * *
31134638 GTA-AATTGGCTGTGTTTCGAGA
1 GTATAATTGGTTGTGTTTGGAGG
31134660 GTA-AATTGGTT
1 GTATAATTGGTT
31134671 ACGTTTGGGG
Statistics
Matches: 133, Mismatches: 33, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
22 47 0.35
23 51 0.38
24 4 0.03
25 27 0.20
26 4 0.03
ACGTcount: A:0.19, C:0.04, G:0.34, T:0.42
Consensus pattern (23 bp):
GTATAATTGGTTGTGTTTGGAGG
Found at i:31134578 original size:22 final size:22
Alignment explanation
Indices: 31134551--31134670 Score: 107
Period size: 22 Copynumber: 5.3 Consensus size: 22
31134541 GCAAGTACAT
* *
31134551 TTGGTTATGTTCAGAGGGTAAA
1 TTGGTTGTGTTCGGAGGGTAAA
* * *
31134573 TTGGTTGTGTTTGGAAGGTATAC
1 TTGGTTGTGTTCGGAGGGTA-AA
*
31134596 TTGGTTGTGTTCGGAGGTTATATA
1 TTGGTTGTGTTCGGAGGGTA-A-A
*
31134620 TATGGTTGTGTTTGGAGGGTAAA
1 T-TGGTTGTGTTCGGAGGGTAAA
* *
31134643 TTGGCTGTGTTTC-GAGAGTAAA
1 TTGGTTGTG-TTCGGAGGGTAAA
31134665 TTGGTT
1 TTGGTT
31134671 ACGTTTGGGG
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
22 36 0.46
23 24 0.30
24 2 0.03
25 17 0.22
ACGTcount: A:0.20, C:0.04, G:0.34, T:0.42
Consensus pattern (22 bp):
TTGGTTGTGTTCGGAGGGTAAA
Found at i:31141014 original size:17 final size:17
Alignment explanation
Indices: 31140966--31141015 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
31140956 ATCAATATAT
* *
31140966 AATATTATAAGAGATAAG
1 AATATTATATGAAAT-AG
31140984 AA-ATTA-ATGAAAATAG
1 AATATTATATG-AAATAG
31141000 AATATTATATGAAATA
1 AATATTATATGAAATA
31141016 TACTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 6 0.22
17 16 0.59
18 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (17 bp):
AATATTATATGAAATAG
Found at i:31142763 original size:18 final size:18
Alignment explanation
Indices: 31142742--31142778 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31142732 TGAGTTTTCG
31142742 AATTTGAATAACTCGAAT
1 AATTTGAATAACTCGAAT
*
31142760 AATTTGAATAATTCGAAT
1 AATTTGAATAACTCGAAT
31142778 A
1 A
31142779 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTTGAATAACTCGAAT
Found at i:31143016 original size:30 final size:31
Alignment explanation
Indices: 31142982--31143041 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
31142972 AAACCTTTTA
*
31142982 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
31143012 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
31143042 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:31143311 original size:9 final size:9
Alignment explanation
Indices: 31143297--31143325 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
31143287 AATTTCACAT
31143297 TTTATATTA
1 TTTATATTA
31143306 TTTATATTA
1 TTTATATTA
31143315 TTTATATTA
1 TTTATATTA
31143324 TT
1 TT
31143326 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:31143481 original size:18 final size:18
Alignment explanation
Indices: 31143460--31143494 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31143450 AAAAATCATA
31143460 TTTTTACATT-TAAAATAT
1 TTTTTA-ATTCTAAAATAT
31143478 TTTTTAATTCTAAAATA
1 TTTTTAATTCTAAAATA
31143495 CATAGTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTAATTCTAAAATAT
Found at i:31146994 original size:26 final size:25
Alignment explanation
Indices: 31146957--31147005 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
31146947 TATATATTTT
31146957 TATATTTTATAATCT-AACATAATTA
1 TATATTTTATAATCTGAA-ATAATTA
31146982 TATATTTTTATAATCTGAAATAAT
1 TATA-TTTTATAATCTGAAATAAT
31147006 AAACATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.18
26 16 0.73
27 2 0.09
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (25 bp):
TATATTTTATAATCTGAAATAATTA
Found at i:31148374 original size:16 final size:15
Alignment explanation
Indices: 31148340--31148386 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
31148330 ATGATGTGTA
* *
31148340 AATATACTATAAT-T
1 AATATAATAAAATAT
*
31148354 AATATAATGAATATAT
1 AATATAAT-AAAATAT
31148370 AATATAATAAAATAT
1 AATATAATAAAATAT
31148385 AA
1 AA
31148387 GAAAATAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 7 0.26
15 11 0.41
16 9 0.33
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
AATATAATAAAATAT
Found at i:31152879 original size:32 final size:32
Alignment explanation
Indices: 31152842--31152967 Score: 164
Period size: 32 Copynumber: 3.9 Consensus size: 32
31152832 CCATAAGTAC
* **
31152842 AGTAATATGATTGGCACAAAGCCATCAGTAGT
1 AGTAATATGATCGGCACAAAGCCATCAGTAAA
31152874 AGTAATATGATCGGCACAAAGCCATCAGTAAA
1 AGTAATATGATCGGCACAAAGCCATCAGTAAA
* * *
31152906 AGTGATATGATCGGCACACAGCCTAT-AGTAAC
1 AGTAATATGATCGGCACAAAGCC-ATCAGTAAA
* *
31152938 GGTAATATGATCGGCACAAAGCCGTCAGTA
1 AGTAATATGATCGGCACAAAGCCATCAGTA
31152968 GCATCGCAGG
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
31 1 0.01
32 79 0.96
33 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (32 bp):
AGTAATATGATCGGCACAAAGCCATCAGTAAA
Found at i:31153007 original size:26 final size:26
Alignment explanation
Indices: 31152978--31153037 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
31152968 GCATCGCAGG
31152978 AAAGCTACCAACAATAGTACCGTAGC
1 AAAGCTACCAACAATAGTACCGTAGC
*
31153004 AAAGCTGCCAACAATAGTACCGTAGC
1 AAAGCTACCAACAATAGTACCGTAGC
31153030 AAAGCTAC
1 AAAGCTAC
31153038 TAGTACAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.42, C:0.27, G:0.17, T:0.15
Consensus pattern (26 bp):
AAAGCTACCAACAATAGTACCGTAGC
Found at i:31153138 original size:24 final size:23
Alignment explanation
Indices: 31153110--31153240 Score: 106
Period size: 24 Copynumber: 5.5 Consensus size: 23
31153100 GCCATGCACA
31153110 AAATCAGTCATACAATTCACAGAC
1 AAATCAGTCATACAA-TCACAGAC
*
31153134 AAATCAGTCATACCAATCACAAAC
1 AAATCAGTCATA-CAATCACAGAC
31153158 AAATCAGTCATTTA-AATCACAGAC
1 AAATCAGTCA--TACAATCACAGAC
* * *
31153182 AAATCTGTCATTTAC-ATCTCGGAC
1 AAATCAGTCA--TACAATCACAGAC
* *
31153206 AAATCAATCACTTAC-ATCACAGAT
1 AAATCAGTCA--TACAATCACAGAC
*
31153230 AAATCAATCAT
1 AAATCAGTCAT
31153241 TTAACCTCGA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
22 1 0.01
24 86 0.93
25 3 0.03
26 2 0.02
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.24
Consensus pattern (23 bp):
AAATCAGTCATACAATCACAGAC
Found at i:31153369 original size:27 final size:27
Alignment explanation
Indices: 31153323--31153386 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
31153313 CAATCAACGG
* * * *
31153323 TCATTTTACCCTATAGGGGCATTGCGA
1 TCATTTTACACTACACGGGCATTACGA
31153350 TCATTTTACACTACACGGGCATTACGA
1 TCATTTTACACTACACGGGCATTACGA
*
31153377 TTATTTTACA
1 TCATTTTACA
31153387 AATATTGAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (27 bp):
TCATTTTACACTACACGGGCATTACGA
Found at i:31153775 original size:19 final size:17
Alignment explanation
Indices: 31153735--31153777 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
31153725 TTTATCCATG
31153735 TGGCCCACAAGCCCACT
1 TGGCCCACAAGCCCACT
* *
31153752 GGGCCCACACAGCCCATTT
1 TGGCCCACA-AGCCCA-CT
31153771 TGGCCCA
1 TGGCCCA
31153778 ACGAGGCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 6 0.29
19 7 0.33
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.14
Consensus pattern (17 bp):
TGGCCCACAAGCCCACT
Found at i:31155753 original size:9 final size:9
Alignment explanation
Indices: 31155739--31155772 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
31155729 TGTGTAAATA
31155739 TAATATAAT
1 TAATATAAT
31155748 TAATATAAT
1 TAATATAAT
31155757 TAATAT-A-
1 TAATATAAT
31155764 TAATATAAT
1 TAATATAAT
31155773 AAGTCATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.26
8 2 0.09
9 15 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATATAAT
Found at i:31157610 original size:19 final size:19
Alignment explanation
Indices: 31157586--31157623 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
31157576 CCCATTATTC
31157586 ATTCAAAAATTTGCAAACA
1 ATTCAAAAATTTGCAAACA
31157605 ATTCAAAAATTTGCAAACA
1 ATTCAAAAATTTGCAAACA
31157624 CCAAATTTCT
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:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (19 bp):
ATTCAAAAATTTGCAAACA
Found at i:31162742 original size:22 final size:22
Alignment explanation
Indices: 31162700--31162743 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
31162690 TATATTTTAA
*
31162700 TTATTTAAATAATTTATTTATT
1 TTATTTAAATAATTTACTTATT
*
31162722 TTATTTAAGTTAA-TTACTTATT
1 TTATTTAA-ATAATTTACTTATT
31162744 ATTTTGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TTATTTAAATAATTTACTTATT
Found at i:31164750 original size:23 final size:23
Alignment explanation
Indices: 31164720--31164768 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
31164710 GTTGAAAAAA
31164720 AAAAAATAATTATA-TATATTTTT
1 AAAAAAT-ATTATATTATATTTTT
* *
31164743 AAAAAATATTCTATTTTATTTTT
1 AAAAAATATTATATTATATTTTT
31164766 AAA
1 AAA
31164769 TGTTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAAAATATTATATTATATTTTT
Found at i:31166262 original size:20 final size:21
Alignment explanation
Indices: 31166239--31166285 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
31166229 GTGGTATGCA
31166239 GTTTTTAGATGATT-TAATGT
1 GTTTTTAGATGATTATAATGT
* *
31166259 G-TTTTAGTTGTTTATAATGT
1 GTTTTTAGATGATTATAATGT
31166279 GTTTTTA
1 GTTTTTA
31166286 AAGTAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (21 bp):
GTTTTTAGATGATTATAATGT
Found at i:31166265 original size:19 final size:20
Alignment explanation
Indices: 31166241--31166283 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
31166231 GGTATGCAGT
31166241 TTTTAGATGATT-TAATGTG
1 TTTTAGATGATTATAATGTG
* *
31166260 TTTTAGTTGTTTATAATGTG
1 TTTTAGATGATTATAATGTG
31166280 TTTT
1 TTTT
31166284 TAAAGTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (20 bp):
TTTTAGATGATTATAATGTG
Found at i:31166792 original size:22 final size:22
Alignment explanation
Indices: 31166749--31166954 Score: 125
Period size: 22 Copynumber: 9.1 Consensus size: 22
31166739 TATGTAAAGA
31166749 GTAT-ATTGGTTGTGTTTGGAGG
1 GTATAATTGGTTGTGTTT-GAGG
*
31166771 GTATAGTTGGTTGTGTTTGAGG
1 GTATAATTGGTTGTGTTTGAGG
* * * *
31166793 TTATATATATGGTGGTATTTTGCA-A
1 GTATA-AT-TGGTTGT-GTTTG-AGG
* * * * **
31166818 GTACATTTGATTATGTTCAAGG
1 GTATAATTGGTTGTGTTTGAGG
*
31166840 GTA-AATTGGTTGTGTTTGGAAG
1 GTATAATTGGTTGTGTTT-GAGG
* *
31166862 GTATACTTGGTTGTGTTCGGAGG
1 GTATAATTGGTTGTGTT-TGAGG
*
31166885 TTATATATATGGTTGTGTTTGGAGG
1 GTATA-AT-TGGTTGTGTTT-GAGG
*
31166910 GTA-AATTGGTTGTGTTTCGAGA
1 GTATAATTGGTTGTGTTT-GAGG
*
31166932 GTA-AATTGGTTGTGTTTGGGG
1 GTATAATTGGTTGTGTTTGAGG
31166953 GT
1 GT
31166955 GATAGCTTTA
Statistics
Matches: 139, Mismatches: 33, Indels: 25
0.71 0.17 0.13
Matches are distributed among these distances:
21 15 0.11
22 53 0.38
23 38 0.27
24 9 0.06
25 23 0.17
26 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.34, T:0.44
Consensus pattern (22 bp):
GTATAATTGGTTGTGTTTGAGG
Found at i:31166947 original size:92 final size:91
Alignment explanation
Indices: 31166745--31166950 Score: 254
Period size: 91 Copynumber: 2.3 Consensus size: 91
31166735 TGGATATGTA
* * * *
31166745 AAGAGTATATTGGTTGTGTTTGGAGGGTATAGTTGGTTGTGTTTGAGGTTATATATATGGTGGTA
1 AAGAGTAAATTGGTTGTGTTTGGAAGGTATACTTGGTTGTGTTGGAGGTTATATATATGGTGGTA
* *
31166810 TTTTGCAAGTACATTTGATTATGTTC
66 GTTTGCAAGTACAATTGATTATGTTC
* *
31166836 AAGGGTAAATTGGTTGTGTTTGGAAGGTATACTTGGTTGTGTTCGGAGGTTATATATATGGTTGT
1 AAGAGTAAATTGGTTGTGTTTGGAAGGTATACTTGGTTGTGTT-GGAGGTTATATATATGGTGGT
* * * *
31166901 -GTTTGGAGGGTA-AATTGGTTGTGTTTC
65 AGTTTGCA-AGTACAATTGATTATG-TTC
*
31166928 GAGAGTAAATTGGTTGTGTTTGG
1 AAGAGTAAATTGGTTGTGTTTGG
31166951 GGGTGATAGC
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
91 52 0.53
92 46 0.47
ACGTcount: A:0.21, C:0.03, G:0.33, T:0.43
Consensus pattern (91 bp):
AAGAGTAAATTGGTTGTGTTTGGAAGGTATACTTGGTTGTGTTGGAGGTTATATATATGGTGGTA
GTTTGCAAGTACAATTGATTATGTTC
Found at i:31171112 original size:21 final size:21
Alignment explanation
Indices: 31171082--31171236 Score: 98
Period size: 21 Copynumber: 7.0 Consensus size: 21
31171072 TAAGTGGATA
* *
31171082 TGTTGAAGGGTATATTGATTG
1 TGTTGGAGGGTATATTGGTTG
31171103 TGTTGGAGGGTATAGTTGGTTG
1 TGTTGGAGGGTATA-TTGGTTG
**
31171125 TGTTCGGAGTTATATATATGGTT-
1 TGTT-GGAG-GGTATAT-TGGTTG
* * *
31171148 TTTTTGAGGGTACATTTGGTTG
1 TGTTGGAGGGTATA-TTGGTTG
* *
31171170 TGTTCGGAGGGTAAATT-ATTG
1 TGTT-GGAGGGTATATTGGTTG
* * *
31171191 TGTTTGGAGGCTATGTTTTGTTG
1 TG-TTGGAGGGTAT-ATTGGTTG
*
31171214 TGTTTGGAGGGTAAATTGGTTG
1 TG-TTGGAGGGTATATTGGTTG
31171236 T
1 T
31171237 ATTTGGTGGG
Statistics
Matches: 103, Mismatches: 21, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
21 33 0.32
22 30 0.29
23 31 0.30
24 9 0.09
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.45
Consensus pattern (21 bp):
TGTTGGAGGGTATATTGGTTG
Found at i:31171180 original size:23 final size:23
Alignment explanation
Indices: 31171088--31171247 Score: 111
Period size: 22 Copynumber: 7.2 Consensus size: 23
31171078 GATATGTTGA
*
31171088 AGGGTATA-TTGATTGTG-TTGG
1 AGGGTATATTTGGTTGTGTTTGG
* *
31171109 AGGGTATAGTTGGTTGTGTTCGG
1 AGGGTATATTTGGTTGTGTTTGG
* *
31171132 A-GTTATATATATGGTT-T-TTTTG
1 AGGGTATAT-T-TGGTTGTGTTTGG
* *
31171154 AGGGTACATTTGGTTGTGTTCGG
1 AGGGTATATTTGGTTGTGTTTGG
* *
31171177 AGGGTA-AATT-ATTGTGTTTGG
1 AGGGTATATTTGGTTGTGTTTGG
* * *
31171198 AGGCTATGTTTTGTTGTGTTTGG
1 AGGGTATATTTGGTTGTGTTTGG
* *
31171221 AGGGTA-AATTGGTTGTATTTGG
1 AGGGTATATTTGGTTGTGTTTGG
*
31171243 TGGGT
1 AGGGT
31171248 GATAGATTTA
Statistics
Matches: 107, Mismatches: 23, Indels: 17
0.73 0.16 0.12
Matches are distributed among these distances:
21 27 0.25
22 40 0.37
23 35 0.33
24 5 0.05
ACGTcount: A:0.17, C:0.03, G:0.36, T:0.45
Consensus pattern (23 bp):
AGGGTATATTTGGTTGTGTTTGG
Found at i:31174741 original size:31 final size:32
Alignment explanation
Indices: 31174651--31174791 Score: 93
Period size: 31 Copynumber: 4.4 Consensus size: 32
31174641 GAATGCTACT
* *
31174651 AGCCATAAGTACAGTA--ATATGATTGGCACAA
1 AGCCATCAGTA-AGTAGTATATGATCGGCACAA
31174682 AGCCATCAGTAAGTAGTACTATGA-CGGCACAA
1 AGCCATCAGTAAGTAGTA-TATGATCGGCACAA
*
31174714 AG-CATCAGTAA--AGATGATATGATCGGCACAC
1 AGCCATCAGTAAGTAG-T-ATATGATCGGCACAA
*
31174745 AGCCTAT-AGGAACG--GTAATATGATCGGGCAACAA
1 AGCC-ATCAGTAA-GTAGT-ATATGATC-GGC-ACAA
*
31174779 AGCCGTCAGTAAG
1 AGCCATCAGTAAG
31174792 CATCGCGAGA
Statistics
Matches: 89, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
29 2 0.02
30 10 0.11
31 29 0.33
32 24 0.27
33 13 0.15
34 11 0.12
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (32 bp):
AGCCATCAGTAAGTAGTATATGATCGGCACAA
Found at i:31174855 original size:25 final size:27
Alignment explanation
Indices: 31174811--31174861 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 27
31174801 AGAAGCTACC
31174811 CAACAATGAGTACCCGTAGCAAAGCTG
1 CAACAATGAGTACCCGTAGCAAAGCTG
31174838 CAACAAT-AGTA-CCGTAGCAAAGCT
1 CAACAATGAGTACCCGTAGCAAAGCT
31174862 AACTAGTACG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 13 0.54
26 4 0.17
27 7 0.29
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (27 bp):
CAACAATGAGTACCCGTAGCAAAGCTG
Found at i:31174996 original size:24 final size:23
Alignment explanation
Indices: 31174955--31175015 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
31174945 CACAACAACT
*
31174955 TCACAGACAAATCATCATATCAA
1 TCACAGACAAATCATCATATAAA
*
31174978 TCACA-ACACAATCAGTCATTTAAA
1 TCACAGACA-AATCA-TCATATAAA
31175002 TCACAGTACAAATC
1 TCACAG-ACAAATC
31175016 TGTCATTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 3 0.09
23 10 0.31
24 12 0.38
25 4 0.12
26 3 0.09
ACGTcount: A:0.46, C:0.26, G:0.05, T:0.23
Consensus pattern (23 bp):
TCACAGACAAATCATCATATAAA
Found at i:31179395 original size:17 final size:18
Alignment explanation
Indices: 31179367--31179403 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
31179357 TCCCATTATT
31179367 CATTCAAAAATTTGCAAA
1 CATTCAAAAATTTGCAAA
31179385 CATTC-AAAATTTGCAAA
1 CATTCAAAAATTTGCAAA
31179402 CA
1 CA
31179404 CCAAATTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (18 bp):
CATTCAAAAATTTGCAAA
Found at i:31184466 original size:25 final size:24
Alignment explanation
Indices: 31184419--31184468 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
31184409 ATATTTTTAA
* *
31184419 TTATTTAAATAATTATTTTTTATT
1 TTATTTAAATAATTACTTATTATT
*
31184443 TTATTTAAGTTAATTACTTATTATT
1 TTATTTAA-ATAATTACTTATTATT
31184468 T
1 T
31184469 GAACAATGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TTATTTAAATAATTACTTATTATT
Found at i:31186488 original size:23 final size:24
Alignment explanation
Indices: 31186446--31186491 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
31186436 GTTGAAATAA
31186446 AAAAAATAATTATATATATTTTTT
1 AAAAAATAATTATATATATTTTTT
* *
31186470 AAAAAAT-ATTCTATTTATTTTT
1 AAAAAATAATTATATATATTTTT
31186492 AAATGTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
AAAAAATAATTATATATATTTTTT
Found at i:31187978 original size:20 final size:21
Alignment explanation
Indices: 31187955--31187999 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
31187945 GGTATGCGAT
31187955 TTTTA-GATGATTTA-AATGTG
1 TTTTAGGATG-TTTATAATGTG
*
31187975 TTTTAGGTTGTTTATAATGTG
1 TTTTAGGATGTTTATAATGTG
31187996 TTTT
1 TTTT
31188000 TAAAGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (21 bp):
TTTTAGGATGTTTATAATGTG
Found at i:31188518 original size:23 final size:22
Alignment explanation
Indices: 31188474--31188524 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
31188464 ATATGTAAGA
**
31188474 GTATATTGGTTGTGTTTGGAGG
1 GTATATTGGTTGTGTTCAGAGG
31188496 GTATAGTTGGTTGTGTTCAGAGG
1 GTATA-TTGGTTGTGTTCAGAGG
*
31188519 TTATAT
1 GTATAT
31188525 ATATGGTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.45
Consensus pattern (22 bp):
GTATATTGGTTGTGTTCAGAGG
Found at i:31188589 original size:23 final size:22
Alignment explanation
Indices: 31188564--31188680 Score: 80
Period size: 23 Copynumber: 5.2 Consensus size: 22
31188554 TATGTTTCAA
31188564 AGGGTAAATTGGTTGTGTTTGG
1 AGGGTAAATTGGTTGTGTTTGG
* * * *
31188586 AAGGTATACT--TTGTGTGTCGG
1 AGGGTAAATTGGTTGTGT-TTGG
*
31188607 AGGTTATATATATGGTTGTTGTTTGG
1 AGGGTA-A-AT-TGGTTG-TGTTTGG
* *
31188633 A-GGTAAATTGGCTGTGTTTCCG
1 AGGGTAAATTGGTTGTGTTT-GG
*
31188655 AGAGTAAATTGGTTGTGTTTGG
1 AGGGTAAATTGGTTGTGTTTGG
31188677 -GGGT
1 AGGGT
31188681 GATAGCTTTA
Statistics
Matches: 70, Mismatches: 16, Indels: 19
0.67 0.15 0.18
Matches are distributed among these distances:
20 6 0.09
21 15 0.21
22 15 0.21
23 19 0.27
24 2 0.03
25 3 0.04
26 7 0.10
27 3 0.04
ACGTcount: A:0.19, C:0.04, G:0.36, T:0.41
Consensus pattern (22 bp):
AGGGTAAATTGGTTGTGTTTGG
Found at i:31188663 original size:91 final size:93
Alignment explanation
Indices: 31188470--31188676 Score: 249
Period size: 91 Copynumber: 2.2 Consensus size: 93
31188460 GTGGATATGT
* * *
31188470 AAGAGTATATTGGTTGTGTTTGGAGGGTATAGTTGGTTGTGTTCAGAGGTTATATATATGGTGGT
1 AAGAGTAAATTGGTTGTGTTTGGAAGGTATACTTGGTTGTGTTCAGAGGTTATATATATGGTGGT
* * *
31188535 GTTTTGCAAGTACATTTGTTATGTTTCA
66 GTTTTGCAAGTAAATTGGCTATGTTTCA
* * * *
31188563 AAGGGTAAATTGGTTGTGTTTGGAAGGTATACTTTG-TGTG-TCGGAGGTTATATATATGGTTGT
1 AAGAGTAAATTGGTTGTGTTTGGAAGGTATACTTGGTTGTGTTCAGAGGTTATATATATGGTGGT
* * * *
31188626 -TGTTTGGAGGTAAATTGGCTGTGTTTCC
66 GT-TTTGCAAGTAAATTGGCTATGTTTCA
*
31188654 GAGAGTAAATTGGTTGTGTTTGG
1 AAGAGTAAATTGGTTGTGTTTGG
31188677 GGGTGATAGC
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
90 1 0.01
91 61 0.63
92 4 0.04
93 31 0.32
ACGTcount: A:0.21, C:0.04, G:0.32, T:0.43
Consensus pattern (93 bp):
AAGAGTAAATTGGTTGTGTTTGGAAGGTATACTTGGTTGTGTTCAGAGGTTATATATATGGTGGT
GTTTTGCAAGTAAATTGGCTATGTTTCA
Found at i:31191894 original size:5 final size:5
Alignment explanation
Indices: 31191884--31191990 Score: 57
Period size: 5 Copynumber: 21.6 Consensus size: 5
31191874 ATGATGTGTA
* *
31191884 AATAT AATAT AAT-T AATAT AATA- ACATAT AATAT AATA- AGACAT AAGA-
1 AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT AATAT A-ATAT AATAT
* * * *
31191932 AA-AT AATGCA- AATAG AATAT TATAT GAAATAT ACTAA AAT-T AATAT
1 AATAT AAT--AT AATAT AATAT AATAT --AATAT AATAT AATAT AATAT
31191978 AATAT AATAT AAT
1 AATAT AATAT AAT
31191991 TATTTTTTAA
Statistics
Matches: 80, Mismatches: 9, Indels: 26
0.70 0.08 0.23
Matches are distributed among these distances:
3 1 0.01
4 14 0.17
5 55 0.69
6 5 0.06
7 5 0.06
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.33
Consensus pattern (5 bp):
AATAT
Found at i:31193959 original size:20 final size:20
Alignment explanation
Indices: 31193936--31193979 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
31193926 AGGTGAGATT
* *
31193936 CTAAATTTTTATTGATTAAA
1 CTAAACTTTTATTCATTAAA
31193956 CTAAACTTTTATTCATTAAA
1 CTAAACTTTTATTCATTAAA
31193976 CTAA
1 CTAA
31193980 GTGAGTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (20 bp):
CTAAACTTTTATTCATTAAA
Found at i:31198077 original size:18 final size:19
Alignment explanation
Indices: 31198054--31198090 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
31198044 ATTTTATCTT
*
31198054 AATTTAA-CAAATTTAATG
1 AATTTAAGCAAATTGAATG
31198072 AATTTAAGCAAATTGAATG
1 AATTTAAGCAAATTGAATG
31198091 TTTTCCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (19 bp):
AATTTAAGCAAATTGAATG
Found at i:31198857 original size:43 final size:43
Alignment explanation
Indices: 31198498--31198856 Score: 414
Period size: 43 Copynumber: 8.3 Consensus size: 43
31198488 TTTTAGAAAT
* * * * * **
31198498 AAACGCCGCTAAAGAACAAGGCCTTTAGCGACGCTATTCTGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
31198541 AAACGCCGCTAATAG-CCATGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAA-AGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
31198584 AAGCGCCGCTAAAGACCATGACCTTTAACGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
31198627 AAACGTCACTAAAGACCATGACCTTTAGTGGCACTTTTCCAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
31198670 AAACGCCGCTAAAGACCATGACATTTAGCGACGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
31198713 AAACGCCGTTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
** * *
31198756 AAACAACGCTAAAGACTATGACCTTTAGCGGCGATTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * **
31198799 AAACGCCTCTAAAGAACATGTCCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
31198842 AAATGCCGCTAAAGA
1 AAACGCCGCTAAAGA
31198857 ATAAACCTTT
Statistics
Matches: 264, Mismatches: 50, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
42 2 0.01
43 260 0.98
44 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:31202996 original size:14 final size:15
Alignment explanation
Indices: 31202968--31202998 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
31202958 ACATAAATCG
31202968 TAAACCCCTAACCCT
1 TAAACCCCTAACCCT
31202983 TAAACCCC-AACCCT
1 TAAACCCCTAACCCT
31202997 TA
1 TA
31202999 TAATTGTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
TAAACCCCTAACCCT
Found at i:31204010 original size:41 final size:40
Alignment explanation
Indices: 31203935--31204118 Score: 224
Period size: 41 Copynumber: 4.5 Consensus size: 40
31203925 TATGATAAAT
* * *
31203935 CTGAGCATTAGCGGCCCTTTTCAACAAACACCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTTT-AAAAAACGCCGCTAAAGCC
* *
31203976 CTGAGCATTAGCGGCGCTTATTAAAAAATGCCGCTAAATCC
1 CTGAGCATTAGCGGCGCTT-TTAAAAAACGCCGCTAAAGCC
* * * *
31204017 CTAAACATTAGCGTCGCTTCTTTAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTT-TTAAAAAACGCCGCTAAAGCC
*
31204058 CTGAGCATTAGCGGCGCTTTTAAAAAACGCCGCTAAAACC
1 CTGAGCATTAGCGGCGCTTTTAAAAAACGCCGCTAAAGCC
** *
31204098 CAAAACATTAGCGGCGCTTTT
1 CTGAGCATTAGCGGCGCTTTT
31204119 TCAAAATCGC
Statistics
Matches: 122, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
40 37 0.30
41 83 0.68
42 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (40 bp):
CTGAGCATTAGCGGCGCTTTTAAAAAACGCCGCTAAAGCC
Found at i:31204051 original size:82 final size:81
Alignment explanation
Indices: 31203940--31204134 Score: 277
Period size: 81 Copynumber: 2.4 Consensus size: 81
31203930 TAAATCTGAG
* *
31203940 CATTAGCGGC-CCTTTTCAACAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTATTAAAAAA
1 CATTAGCGGCGCTTTTTCAA-AAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT-TTAAAAAA
* * *
31204004 TGCCGCTAAATCCCTAAA
64 CGCCGCTAAAACCCAAAA
*
31204022 CATTAGCGTCGCTTCTTT-AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTAAAAAAC
1 CATTAGCGGCGCTT-TTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTAAAAAAC
31204086 GCCGCTAAAACCCAAAA
65 GCCGCTAAAACCCAAAA
* *
31204103 CATTAGCGGCGCTTTTTCAAAATCGCCACTAA
1 CATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
31204135 TGCCTCAAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
80 3 0.03
81 48 0.48
82 43 0.43
83 4 0.04
84 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (81 bp):
CATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTAAAAAACG
CCGCTAAAACCCAAAA
Found at i:31204262 original size:39 final size:40
Alignment explanation
Indices: 31204213--31204295 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 40
31204203 CTAATGCTCA
* *
31204213 TTTAGAAAGCGCCGCTAATACTT-ATCTTTAGTGGCATTT
1 TTTAAAAAGCGCCGCTAATACTTGATCTTTAGCGGCATTT
* * * *
31204252 TTTAAAAAGCGCCGTTAATGCTTGATTTTTAGCGGCGTTT
1 TTTAAAAAGCGCCGCTAATACTTGATCTTTAGCGGCATTT
31204292 TTTA
1 TTTA
31204296 TCCAAGCGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 20 0.54
40 17 0.46
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (40 bp):
TTTAAAAAGCGCCGCTAATACTTGATCTTTAGCGGCATTT
Found at i:31206857 original size:9 final size:9
Alignment explanation
Indices: 31206843--31206867 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
31206833 TGTGTAAATG
31206843 TAATATAAT
1 TAATATAAT
31206852 TAATATAAT
1 TAATATAAT
31206861 TAATATA
1 TAATATA
31206868 TAATTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATATAAT
Found at i:31208979 original size:19 final size:19
Alignment explanation
Indices: 31208955--31208994 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
31208945 ATGATTTATA
31208955 TAAGTACTTAGATGATATT
1 TAAGTACTTAGATGATATT
31208974 TAAGTACTTAGATGATATT
1 TAAGTACTTAGATGATATT
31208993 TA
1 TA
31208995 GGATGTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (19 bp):
TAAGTACTTAGATGATATT
Found at i:31215646 original size:20 final size:21
Alignment explanation
Indices: 31215623--31215666 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
31215613 GGTATGCAGT
31215623 TTTTAG-ATGATTTA-AATGTG
1 TTTTAGTATG-TTTATAATGTG
*
31215643 TTTTAGTTTGTTTATAATGTG
1 TTTTAGTATGTTTATAATGTG
31215664 TTT
1 TTT
31215667 GTAATGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (21 bp):
TTTTAGTATGTTTATAATGTG
Found at i:31217637 original size:32 final size:32
Alignment explanation
Indices: 31217600--31217726 Score: 168
Period size: 32 Copynumber: 4.0 Consensus size: 32
31217590 CCATAAGTAC
* *
31217600 AGTAATATGATTGGCACAAAGCCATCAGTAGT
1 AGTAATATGATCGGCACAAAGCCATCAGTAGA
31217632 AGTAATATGATCGGCACAAAGCCATCAGTAGA
1 AGTAATATGATCGGCACAAAGCCATCAGTAGA
* *
31217664 AGTGATATGATCGGCACACAGCCTAT-AGTA-A
1 AGTAATATGATCGGCACAAAGCC-ATCAGTAGA
* *
31217695 CGGTAATATGATCGGCACAAAGCCATTAGTAG
1 -AGTAATATGATCGGCACAAAGCCATCAGTAG
31217727 CATCGCAGCA
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
31 3 0.04
32 79 0.94
33 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (32 bp):
AGTAATATGATCGGCACAAAGCCATCAGTAGA
Found at i:31217757 original size:26 final size:26
Alignment explanation
Indices: 31217728--31217793 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
31217718 CATTAGTAGC
*
31217728 ATCGCAGCAAAGCTGCCAACAATAGT
1 ATCGTAGCAAAGCTGCCAACAATAGT
*
31217754 ATCGTAGAAAAGCTGCCAACAATAGT
1 ATCGTAGCAAAGCTGCCAACAATAGT
*
31217780 AACGTAGCAAAGCT
1 ATCGTAGCAAAGCT
31217794 AGCAGTAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
ATCGTAGCAAAGCTGCCAACAATAGT
Found at i:31217978 original size:24 final size:24
Alignment explanation
Indices: 31217895--31218029 Score: 117
Period size: 24 Copynumber: 5.6 Consensus size: 24
31217885 GCCATGCACA
** *
31217895 AAATCAGTCATACAATTCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
*** *
31217919 AAATCAGTCATACCAATCACAAAC
1 AAATCAGTCATTTAAATCACAGAC
*
31217943 AAATCAGTCATTTAAATCATAGAC
1 AAATCAGTCATTTAAATCACAGAC
* * *
31217967 AAATCAGTCATTTATATCTCGGAC
1 AAATCAGTCATTTAAATCACAGAC
* * * * *
31217991 AAATTAATCACTTACATCACAGAT
1 AAATCAGTCATTTAAATCACAGAC
*
31218015 AAATCAATCATTTAA
1 AAATCAGTCATTTAA
31218030 CCTCGAGGGC
Statistics
Matches: 89, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 89 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (24 bp):
AAATCAGTCATTTAAATCACAGAC
Found at i:31218190 original size:27 final size:27
Alignment explanation
Indices: 31218094--31218190 Score: 142
Period size: 27 Copynumber: 3.6 Consensus size: 27
31218084 TAACAGAGGT
*
31218094 ATTACAATCATTTTAC-CTACAGGGGC
1 ATTACGATCATTTTACACTACAGGGGC
* * *
31218120 ATCACGGTCATTTTACCCTACAGGGGC
1 ATTACGATCATTTTACACTACAGGGGC
*
31218147 ATTGCGATCATTTTACACTACAGGGGC
1 ATTACGATCATTTTACACTACAGGGGC
31218174 ATTACGATCATTTTACA
1 ATTACGATCATTTTACA
31218191 AATATTGAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
26 13 0.21
27 49 0.79
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (27 bp):
ATTACGATCATTTTACACTACAGGGGC
Found at i:31220374 original size:9 final size:9
Alignment explanation
Indices: 31220360--31220393 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
31220350 TGTGTAAATA
31220360 TAATATAAT
1 TAATATAAT
31220369 TAATATAAT
1 TAATATAAT
31220378 TAATAT-A-
1 TAATATAAT
31220385 TAATATAAT
1 TAATATAAT
31220394 AAGTGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.26
8 2 0.09
9 15 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATATAAT
Found at i:31233232 original size:17 final size:17
Alignment explanation
Indices: 31233207--31233256 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
31233197 ATAGAAAGTC
*
31233207 AAAGATATGAGTATCAG
1 AAAGATATGGGTATCAG
*
31233224 AAAGTTATGGGTATCAG
1 AAAGATATGGGTATCAG
31233241 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
31233257 AAATCTGGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:31236768 original size:17 final size:17
Alignment explanation
Indices: 31236746--31236778 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31236736 ATAGAAAGTC
31236746 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
31236763 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
31236779 AAATCTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:31247862 original size:46 final size:46
Alignment explanation
Indices: 31247795--31247882 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
31247785 AAAAGTGTAC
* *
31247795 TGTGGGCCTTAGCCCATTACAGT-ATCAGAATCAGAAATAGAATACA
1 TGTGGGCCTAAGCCCAATACAGTGA-CAGAATCAGAAATAGAATACA
*
31247841 TGTGGGCCTAAGCCCAATACAGTGACAGAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCAATACAGTGACAGAATCAGAAATAGAA
31247883 ATGCAACAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
46 37 0.97
47 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCAATACAGTGACAGAATCAGAAATAGAATACA
Found at i:31248120 original size:32 final size:32
Alignment explanation
Indices: 31248083--31248209 Score: 159
Period size: 32 Copynumber: 4.0 Consensus size: 32
31248073 CCATAAGTAC
* *
31248083 AGTAATATGATTGGCACAAAGCCATCAGTAGT
1 AGTAATATGATCGGCACAAAGCCATCAGTAGA
**
31248115 AGTAATATGATCAACACAAAGCCATCAGTAGA
1 AGTAATATGATCGGCACAAAGCCATCAGTAGA
* *
31248147 AGTGATATGATCGGCACACAGCCTAT-AGTA-A
1 AGTAATATGATCGGCACAAAGCC-ATCAGTAGA
*
31248178 CAGTAATATGACCGGCACAAAGCCATCAGTAG
1 -AGTAATATGATCGGCACAAAGCCATCAGTAG
31248210 CATCGCAACA
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
31 3 0.04
32 75 0.94
33 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (32 bp):
AGTAATATGATCGGCACAAAGCCATCAGTAGA
Found at i:31248282 original size:27 final size:26
Alignment explanation
Indices: 31248252--31248318 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
31248242 AGCAAAGCTG
31248252 CCAGTAACAGTATATGTGGCCA-AGCCA
1 CCAGTAACAGTAT-TGT-GCCAGAGCCA
*
31248279 CCAGTAACAGTGATTGTGTCAGAGCCA
1 CCAGTAACAGT-ATTGTGCCAGAGCCA
31248306 CCAGT-ACAGTATT
1 CCAGTAACAGTATT
31248319 TCCTCCATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 3 0.08
26 8 0.22
27 24 0.65
28 2 0.05
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (26 bp):
CCAGTAACAGTATTGTGCCAGAGCCA
Found at i:31248462 original size:24 final size:24
Alignment explanation
Indices: 31248379--31248489 Score: 132
Period size: 24 Copynumber: 4.6 Consensus size: 24
31248369 GTCATGCTCA
** *
31248379 AAATCAGTCATACAATTCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
***
31248403 AAATCAGTCATACCAATCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
31248427 AAATCAGTCATTTAAATCACAGAC
1 AAATCAGTCATTTAAATCACAGAC
* * *
31248451 AAATCAGTCATTTACATCTCGGAC
1 AAATCAGTCATTTAAATCACAGAC
*
31248475 AAATCAATCATTTAA
1 AAATCAGTCATTTAA
31248490 CCTCGAGGAC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 77 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.24
Consensus pattern (24 bp):
AAATCAGTCATTTAAATCACAGAC
Found at i:31248603 original size:26 final size:27
Alignment explanation
Indices: 31248559--31248621 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
31248549 AGGTATTACA
31248559 ATCATTTTACCGCCAA-GGGCATCAC-
1 ATCATTTTACCGCCAAGGGGCATCACG
* *
31248584 AGTCATTTTACC-CTACAGGGGCATTACG
1 A-TCATTTTACCGCCA-AGGGGCATCACG
31248612 ATCATTTTAC
1 ATCATTTTAC
31248622 AAATATTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 3 0.09
26 11 0.34
27 17 0.53
28 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (27 bp):
ATCATTTTACCGCCAAGGGGCATCACG
Found at i:31250882 original size:9 final size:9
Alignment explanation
Indices: 31250868--31250901 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
31250858 TGTGTAAATA
31250868 TAATATAAT
1 TAATATAAT
31250877 TAATATAAT
1 TAATATAAT
31250886 TAATAT-A-
1 TAATATAAT
31250893 TAATATAAT
1 TAATATAAT
31250902 AAGAGATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.26
8 2 0.09
9 15 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATATAAT
Found at i:31250889 original size:4 final size:5
Alignment explanation
Indices: 31250864--31250971 Score: 50
Period size: 5 Copynumber: 21.6 Consensus size: 5
31250854 ATGATGTGTA
*
31250864 AATAT AATAT AAT-T AATAT AAT-T AATATAT AATAT AATA- AGAGAT
1 AATAT AATAT AATAT AATAT AATAT -A-ATAT AATAT AATAT A-ATAT
* * * * *
31250909 AAGA- AA-AT AATGCA- AATAG AATAT TATAT GAAATAT ACTAA AAT-T
1 AATAT AATAT AAT--AT AATAT AATAT AATAT --AATAT AATAT AATAT
31250954 AATAT AATAT AATAT AAT
1 AATAT AATAT AATAT AAT
31250972 TATTTTTTGA
Statistics
Matches: 81, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
3 1 0.01
4 14 0.17
5 53 0.65
6 7 0.09
7 6 0.07
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:31252433 original size:21 final size:20
Alignment explanation
Indices: 31252409--31252448 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
31252399 TTGGAAATCG
*
31252409 TAATTGGGATAGTAATTAAAA
1 TAATTAGGA-AGTAATTAAAA
*
31252430 TAATTAGGAATTAATTAAA
1 TAATTAGGAAGTAATTAAA
31252449 CAAAATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (20 bp):
TAATTAGGAAGTAATTAAAA
Found at i:31252931 original size:20 final size:19
Alignment explanation
Indices: 31252908--31252951 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
31252898 AGGTGATATT
*
31252908 CTAACTTTTTATTGATTAAA
1 CTAAC-TTTTATTCATTAAA
31252928 CTAAACTTTTATTCATTAAA
1 CT-AACTTTTATTCATTAAA
31252948 CTAA
1 CTAA
31252952 GTGAGTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 17 0.77
21 3 0.14
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (19 bp):
CTAACTTTTATTCATTAAA
Found at i:31252936 original size:21 final size:20
Alignment explanation
Indices: 31252914--31252951 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31252904 TATTCTAACT
*
31252914 TTTTATTGATTAAACTAAAC
1 TTTTATTCATTAAACTAAAC
31252934 TTTTATTCATTAAACTAA
1 TTTTATTCATTAAACTAA
31252952 GTGAGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTTATTCATTAAACTAAAC
Found at i:31255108 original size:18 final size:16
Alignment explanation
Indices: 31255081--31255118 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
31255071 ATGATGTGTA
*
31255081 AATATAA-T-ATATTT
1 AATATAATTAATATAT
31255095 AATATAATTAATATAT
1 AATATAATTAATATAT
31255111 AATATAAT
1 AATATAAT
31255119 AAGTGACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 1 0.05
16 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATAATTAATATAT
Found at i:31263670 original size:20 final size:20
Alignment explanation
Indices: 31263628--31263671 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
31263618 ATTTATTTTA
* *
31263628 AATT-TTTTAATTAATTCCT
1 AATTATTTTAATTAATACCC
*
31263647 AATTATTTTAATTACTACCC
1 AATTATTTTAATTAATACCC
31263667 AATTA
1 AATTA
31263672 CGATTTCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTATTTTAATTAATACCC
Found at i:31264307 original size:25 final size:25
Alignment explanation
Indices: 31264254--31264308 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
31264244 TAAATAAAAC
31264254 ATTTT-AAAATAAAATAGAATAGTT
1 ATTTTAAAAATAAAATAGAATAGTT
* * *
31264278 GTTTTAAAAATATAATATAATTA-TT
1 ATTTTAAAAATAAAATAGAA-TAGTT
31264303 ATTTTA
1 ATTTTA
31264309 TTTTTTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 4 0.16
25 19 0.76
26 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (25 bp):
ATTTTAAAAATAAAATAGAATAGTT
Found at i:31265168 original size:5 final size:5
Alignment explanation
Indices: 31265149--31265184 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
31265139 TCTTATCTCT
31265149 TATTA TATT- TA-TA TATTA TATTA -ATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT
31265185 TACACATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
3 1 0.04
4 8 0.29
5 19 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:31267415 original size:26 final size:26
Alignment explanation
Indices: 31267372--31267430 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
31267362 CTCAATATTT
*
31267372 GTAAAATGATCGTAATGCCCCTT-GTG
1 GTAAAATGATCGTAATG-CCCTTGGCG
*
31267398 GTAAAATGA-CTGTGATGCCCTTGGCG
1 GTAAAATGATC-GTAATGCCCTTGGCG
31267424 GTAAAAT
1 GTAAAAT
31267431 TGTATGATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (26 bp):
GTAAAATGATCGTAATGCCCTTGGCG
Found at i:31267564 original size:23 final size:24
Alignment explanation
Indices: 31267507--31267618 Score: 104
Period size: 24 Copynumber: 4.6 Consensus size: 24
31267497 GTCCTCGAGG
* * *
31267507 TTAAATGATTGATTATTGTCCGAGAT
1 TTAAATGACTGA-T-TTGTCTGTGAT
*
31267533 GTAAATGACTGATTTGTCT-TGAT
1 TTAAATGACTGATTTGTCTGTGAT
31267556 TTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
***
31267580 TGGTATGACTGATTTGTCTGTGAAT
1 TTAAATGACTGATTTGTCTGTG-AT
31267605 GTT--ATGACTGATTT
1 -TTAAATGACTGATTT
31267619 TGAGCATGAC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
23 21 0.28
24 39 0.53
25 3 0.04
26 11 0.15
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:31267587 original size:24 final size:24
Alignment explanation
Indices: 31267537--31267618 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
31267527 CGAGATGTAA
* *
31267537 ATGACTGATTTGTCT-TGATTTAA
1 ATGACTGATTTGTCTGTGATTGAT
*
31267560 ATGACTGATTTGTCTGTGATTGGT
1 ATGACTGATTTGTCTGTGATTGAT
* *
31267584 ATGACTGATTTGTCTGTGAATGTT
1 ATGACTGATTTGTCTGTGATTGAT
31267608 ATGACTGATTT
1 ATGACTGATTT
31267619 TGAGCATGAC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 15 0.28
24 38 0.72
ACGTcount: A:0.22, C:0.09, G:0.23, T:0.46
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTGATTGAT
Found at i:31267719 original size:27 final size:27
Alignment explanation
Indices: 31267680--31267745 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
31267670 TATGGAGGAA
31267680 ATACTG-TACTGGTGGCTCT-GACACA-
1 ATACTGTTACTGGTGGCT-TGGACACAT
*
31267705 ATCACTGTTACTGGTGGCTTGGCCACAT
1 AT-ACTGTTACTGGTGGCTTGGACACAT
31267733 ATACTGTTACTGG
1 ATACTGTTACTGG
31267746 CAGCTTTGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 2 0.06
26 5 0.14
27 27 0.75
28 2 0.06
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (27 bp):
ATACTGTTACTGGTGGCTTGGACACAT
Found at i:31267907 original size:32 final size:32
Alignment explanation
Indices: 31267788--31267913 Score: 148
Period size: 32 Copynumber: 4.0 Consensus size: 32
31267778 TGTTGCGATG
* *
31267788 CTACTGATGGCTTTGTGCCGGTCATATTACTG
1 CTACTGATGGCTTTGTGCCGATCATATTACTA
* * * *
31267820 TTACT-ATAGGCTGT-TGCCGATCATATCACTT
1 CTACTGAT-GGCTTTGTGCCGATCATATTACTA
**
31267851 CTACTGATGGCTTTGTGTTGATCATATTACTA
1 CTACTGATGGCTTTGTGCCGATCATATTACTA
*
31267883 CTACTGATGGCTTTGTGCCAATCATATTACT
1 CTACTGATGGCTTTGTGCCGATCATATTACT
31267914 GTACTTATGG
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
31 25 0.32
32 52 0.68
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (32 bp):
CTACTGATGGCTTTGTGCCGATCATATTACTA
Found at i:31267925 original size:63 final size:63
Alignment explanation
Indices: 31267788--31267909 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
31267778 TGTTGCGATG
* ** *
31267788 CTACTGATGGCTTTGTGCCGGTCATATTACTGTTACTATAGGCTGTTGCCGATCATATCACTT
1 CTACTGATGGCTTTGTGCCGATCATATTACTACTACTATAGGCTGTTGCCAATCATATCACTT
** *
31267851 CTACTGATGGCTTTGTGTTGATCATATTACTACTACTGAT-GGCTTTGTGCCAATCATAT
1 CTACTGATGGCTTTGTGCCGATCATATTACTACTACT-ATAGGCTGT-TGCCAATCATAT
31267910 TACTGTACTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 37 0.74
64 13 0.26
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (63 bp):
CTACTGATGGCTTTGTGCCGATCATATTACTACTACTATAGGCTGTTGCCAATCATATCACTT
Found at i:31269258 original size:17 final size:19
Alignment explanation
Indices: 31269232--31269273 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
31269222 ACTAATTAAA
*
31269232 AATAAAT-AAAT-TATTTT
1 AATAAATAAAATATATTCT
*
31269249 AATAATTAAAATATATTCT
1 AATAAATAAAATATATTCT
31269268 AATAAA
1 AATAAA
31269274 ATATTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 4 0.20
19 10 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AATAAATAAAATATATTCT
Found at i:31285551 original size:9 final size:9
Alignment explanation
Indices: 31285534--31285567 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
31285524 AATTAGGTGA
*
31285534 TATTGTTTT
1 TATTTTTTT
31285543 TATTTTTTT
1 TATTTTTTT
31285552 TATTTTTTT
1 TATTTTTTT
31285561 TAATTTT
1 T-ATTTT
31285568 CTTGTTGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (9 bp):
TATTTTTTT
Found at i:31304326 original size:51 final size:51
Alignment explanation
Indices: 31304159--31304397 Score: 230
Period size: 50 Copynumber: 4.7 Consensus size: 51
31304149 GATAATAACA
* * * * * * * **
31304159 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATTTTAG
1 TGCCAACGCCATGTCCCACACATGCTCTTACATGGGATCTTCTCATCTCGG
* * * * * *
31304210 TGCCCATGCCATGTCTCACACATGCTCTTACAGGGGACCTT-TTATCTCGG
1 TGCCAACGCCATGTCCCACACATGCTCTTACATGGGATCTTCTCATCTCGG
* * *
31304260 TGCCAACACCATGTCCCACACATGCTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCACACATGCTCTTACATGGGATCTTCTCATCTCGG
* ** *
31304311 TGCCCACGCCATGTCCCACACATGCTCTTACGGGGGA-CCTCTCATCTCGG
1 TGCCAACGCCATGTCCCACACATGCTCTTACATGGGATCTTCTCATCTCGG
* * * *
31304361 AGCCAACGCCATTTCCCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCACACATGCTCTTACATGGGA
31304398 CCTCTTTACC
Statistics
Matches: 150, Mismatches: 37, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 79 0.53
51 71 0.47
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (51 bp):
TGCCAACGCCATGTCCCACACATGCTCTTACATGGGATCTTCTCATCTCGG
Found at i:31304395 original size:101 final size:101
Alignment explanation
Indices: 31304168--31304397 Score: 334
Period size: 101 Copynumber: 2.3 Consensus size: 101
31304158 ATGCCAAAGT
* * * * *
31304168 CATGTCCCAGACATGGTCTTACATGAGATGTTCTCATTTTAGTGCCCATGCCATGTCTCACACAT
1 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCACGCCATGTCCCACACAT
* * *
31304233 GCTCTTACAGGGGACCTTTTATCTCGGTGCCAACAC
66 GCTCTTACAGGGGACCTCTCATCTCGGAGCCAACAC
* * *
31304269 CATGTCCCACACATGCTCTTACATGGGATGTTCTCATATCGGTGCCCACGCCATGTCCCACACAT
1 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCACGCCATGTCCCACACAT
* *
31304334 GCTCTTACGGGGGACCTCTCATCTCGGAGCCAACGC
66 GCTCTTACAGGGGACCTCTCATCTCGGAGCCAACAC
*
31304370 CATTTCCCAGACATGGTCTTACATGGGA
1 CATGTCCCAGACATGGTCTTACATGGGA
31304398 CCTCTTTACC
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 113 1.00
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.27
Consensus pattern (101 bp):
CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCACGCCATGTCCCACACAT
GCTCTTACAGGGGACCTCTCATCTCGGAGCCAACAC
Found at i:31309069 original size:29 final size:30
Alignment explanation
Indices: 31309033--31309108 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 30
31309023 ATATGTGTGT
*
31309033 TATATATAATATATACGAGTGG-GGTTGTA-
1 TATATATAATATATACGAG-GGTGGTTATAC
31309062 TATATATACATAGATATACGAGGGTGGTTATAC
1 TATATATA-AT--ATATACGAGGGTGGTTATAC
*
31309095 T-TATATTATATATA
1 TATATATAATATATA
31309109 TGCATGACTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
29 13 0.32
30 2 0.05
31 4 0.10
32 20 0.50
33 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (30 bp):
TATATATAATATATACGAGGGTGGTTATAC
Found at i:31310948 original size:12 final size:12
Alignment explanation
Indices: 31310923--31310961 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
31310913 ACTCGCTTCT
* *
31310923 TTACTTACTCAC
1 TTACTTGCTTAC
*
31310935 TTACTTGTTTAC
1 TTACTTGCTTAC
31310947 TTACTTGCTTAC
1 TTACTTGCTTAC
31310959 TTA
1 TTA
31310962 AATAACACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:31311241 original size:49 final size:49
Alignment explanation
Indices: 31311178--31311355 Score: 162
Period size: 50 Copynumber: 3.6 Consensus size: 49
31311168 GCTATGTCCT
* * *
31311178 AGACATAGTCTTACATGGGATGTTTTC-TGTAC-TGCCAATGCCATATCCC
1 AGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAATGCCATATCCC
* * *
31311227 AGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCC
1 AGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATATCCC
** ** * * * *
31311277 AGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCC
1 AGACATGGTCTTACATGGGAGTTCTCAT-ATCGTGCCAATGCCATATCCC
**
31311327 AGACATGGTCTTACATGGGACCTCTCATA
1 AGACATGGTCTTACATGGGAGTTCTCATA
31311356 ATCTCAATAA
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
48 6 0.06
49 20 0.19
50 80 0.75
51 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (49 bp):
AGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAATGCCATATCCC
Done.