Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 4 of 228
Found at i:1220556 original size:30 final size:30
Alignment explanation
Indices: 1220512--1220574 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
1220502 ACTTAACAAG
1220512 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
1220542 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
1220572 CAA
1 CAA
1220575 TAAAATAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:1222659 original size:29 final size:27
Alignment explanation
Indices: 1222593--1222659 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 27
1222583 AAATTTAAGG
1222593 TGTATAATTGCACAAAATCAAAGTTCA
1 TGTATAATTGCACAAAATCAAAGTTCA
*
1222620 TGTATCAAATTGCACATTATATCAAAGTTCA
1 TGTAT--AATTGCACA--AAATCAAAGTTCA
1222651 TGTATAATT
1 TGTATAATT
1222660 ATGATATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
27 5 0.14
29 13 0.37
31 17 0.49
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (27 bp):
TGTATAATTGCACAAAATCAAAGTTCA
Found at i:1241976 original size:30 final size:30
Alignment explanation
Indices: 1241942--1241998 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
1241932 ATATTTAGAC
1241942 TTAAATAT-TAAAAATTAAAAA-ATAAAAGAA
1 TTAAAT-TCTAAAAA-TAAAAATATAAAAGAA
1241972 TTAAATTCTAAAAATAAAAATATAAAA
1 TTAAATTCTAAAAATAAAAATATAAAA
1241999 ACATATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (30 bp):
TTAAATTCTAAAAATAAAAATATAAAAGAA
Found at i:1246534 original size:75 final size:75
Alignment explanation
Indices: 1246450--1246597 Score: 287
Period size: 75 Copynumber: 2.0 Consensus size: 75
1246440 AATATCAATC
1246450 CATTTTTAACTGTAAAAATAGATAGAATTTTTTAAATAATAATTAATTAATTAATAAACATAAAT
1 CATTTTTAACTGTAAAAATAGATAGAATTTTTTAAATAATAATTAATTAATTAATAAACATAAAT
1246515 ATTAACCATT
66 ATTAACCATT
*
1246525 CATTTTTAACTGTAAAAATAGATAGAATTTTTTAAATAATAATTAATTAATTAATAAATATAAAT
1 CATTTTTAACTGTAAAAATAGATAGAATTTTTTAAATAATAATTAATTAATTAATAAACATAAAT
1246590 ATTAACCA
66 ATTAACCA
1246598 AAGGTGAATT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (75 bp):
CATTTTTAACTGTAAAAATAGATAGAATTTTTTAAATAATAATTAATTAATTAATAAACATAAAT
ATTAACCATT
Found at i:1247411 original size:30 final size:29
Alignment explanation
Indices: 1247352--1247412 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
1247342 AACCGTCATC
* * *
1247352 AACTTTAATAAAATAACAAACAGTCATTA
1 AACTTTAAAAAAATAAAAAACAATCATTA
1247381 AACTTTAAAAAAATAATAAAACAAAT-ATTA
1 AACTTTAAAAAAATAA-AAAAC-AATCATTA
1247411 AA
1 AA
1247413 AAATTAATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.56
30 10 0.37
31 2 0.07
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.26
Consensus pattern (29 bp):
AACTTTAAAAAAATAAAAAACAATCATTA
Found at i:1249279 original size:228 final size:229
Alignment explanation
Indices: 1248822--1249734 Score: 1010
Period size: 228 Copynumber: 4.0 Consensus size: 229
1248812 AGGCTTAGAA
* * * * * * * * *
1248822 CCCACCACGAAGACGAAGAACAAGGTGAAGAGTGGACTCCTTTTGAATATTGTAATCAGCCAAAG
1 CCCACCGCGAAGACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAATCGGCCAAGG
** * * * * * * * * * * * * *
1248887 TCCTTCCATCTTCCAGCTGTTTCCCAGCAAAAATCA-ACCTTTGCTGATCTGGTGGAATTCCTTC
66 TCCGGCCGTCTTCGAGTTGTTTTCCGGCGAAGATGAGA-CGTTGCTGGTCTGGAGGGATGCCTTC
* * * * * * * * * * * * * *
1248951 TTTGTCCTGAATCTTCGCTTTCACGTTATCAATCGTATCCGAGCTCTCCACTTCTAAAGTAATGG
130 CTTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTATCGGAGCTCTCGACCTCGAGAGTGATCG
* *
1249016 TCTTACCGGTCAA-AGTCTTGACGAAGATCTGCAT
195 TCTTGCCGGTCAAGAGTCTTAACGAAGATCTGCAT
* * * * * * * * * * *
1249050 CCCACCTCGAAGACGTAGAACCAGATGAAGAGTCGATTCCTTCTGGATATTGTAATCGGCTAAAG
1 CCCACCGCGAAGACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAATCGGCCAAGG
* * * *
1249115 TCCGCCCGTCCTCGAGTTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGCGGGATGCCTTCC
66 TCCGGCCGTCTTCGAGTTGTTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGAGGGATGCCTTCC
* *
1249180 TTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTGTCAGAGCTCTCGACCTCGAGAGTGATCGT
131 TTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTATCGGAGCTCTCGACCTCGAGAGTGATCGT
* * *
1249245 CTTTCCGGT-AAGCGTCTTAACGAAGATTTGCAT
196 CTTGCCGGTCAAGAGTCTTAACGAAGATCTGCAT
* *
1249278 CCCGCCGCGCAA-ACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAGTCGGCCAAG
1 CCCACCGCG-AAGACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAATCGGCCAAG
* * *
1249342 GTACGGCCGTCTTCGAGTTGTTTTCCGGCAAAGATGAGACGTTGCTGGTCTGGGGGGATGCCTTC
65 GTCCGGCCGTCTTCGAGTTGTTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGAGGGATGCCTTC
* * * * *
1249407 CTTGTCTTGGATCTTCGCTTTAACGTTGTCGATCGTGTCGGAGCTCTCGACCTCGAGAGTGATTG
130 CTTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTATCGGAGCTCTCGACCTCGAGAGTGATCG
* * * *
1249472 TCTTGCCAGTCAAG-GTTTTCACGAAGATTTGCAT
195 TCTTGCCGGTCAAGAGTCTTAACGAAGATCTGCAT
* * * *
1249506 CCCACCGCGCAGACGGAGGACGAGGTGGAGAGTTGACTCCTTTTGGATGTTGTAATCGGCCAAGG
1 CCCACCGCGAAGACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAATCGGCCAAGG
* * *
1249571 TCCGGCCGTCTTCGAGCTGTTTTCCGGCGAAGATCAGACGCTGCTGGTCTGGAGGGATGCCTTCC
66 TCCGGCCGTCTTCGAGTTGTTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGAGGGATGCCTTCC
* *
1249636 TTATCTTGGATTTTGGCCTTCACGTTGTCGATCGTATCGGAGCTCTCGACCTCGAGAGTGATCGT
131 TTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTATCGGAGCTCTCGACCTCGAGAGTGATCGT
*
1249701 CTTGCCGGT-TAGAGTCTTAACGAAGATCTGCAT
196 CTTGCCGGTCAAGAGTCTTAACGAAGATCTGCAT
1249734 C
1 C
1249735 TTGTTTGGCT
Statistics
Matches: 581, Mismatches: 98, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
227 5 0.01
228 570 0.98
229 6 0.01
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.29
Consensus pattern (229 bp):
CCCACCGCGAAGACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAATCGGCCAAGG
TCCGGCCGTCTTCGAGTTGTTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGAGGGATGCCTTCC
TTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTATCGGAGCTCTCGACCTCGAGAGTGATCGT
CTTGCCGGTCAAGAGTCTTAACGAAGATCTGCAT
Found at i:1265530 original size:28 final size:29
Alignment explanation
Indices: 1265497--1265556 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
1265487 CCCATTTTCT
1265497 TAATTAATT-TTTTTCAA-ATCTATTTTTA
1 TAATTAATTATTTTTCAATAT-TATTTTTA
*
1265525 TAATTAATTATTTTTTAATATTATTTTTA
1 TAATTAATTATTTTTCAATATTATTTTTA
1265554 TAA
1 TAA
1265557 GAAAACCTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 9 0.31
29 18 0.62
30 2 0.07
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TAATTAATTATTTTTCAATATTATTTTTA
Found at i:1265549 original size:13 final size:16
Alignment explanation
Indices: 1265517--1265556 Score: 59
Period size: 13 Copynumber: 2.7 Consensus size: 16
1265507 TTTTCAAATC
1265517 TATTTTTATAATTAAT
1 TATTTTTATAATTAAT
1265533 TATTTTT-TAA-T-AT
1 TATTTTTATAATTAAT
1265546 TATTTTTATAA
1 TATTTTTATAA
1265557 GAAAACCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 3 0.13
16 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTATAATTAAT
Found at i:1268516 original size:13 final size:13
Alignment explanation
Indices: 1268498--1268522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1268488 AAATTTCAAT
1268498 TTTTTATAATTTA
1 TTTTTATAATTTA
1268511 TTTTTATAATTT
1 TTTTTATAATTT
1268523 TTAAAAGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATAATTTA
Found at i:1273546 original size:17 final size:18
Alignment explanation
Indices: 1273512--1273548 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1273502 AAATTTAAAA
1273512 TTTAATTTTTCTATTTTT
1 TTTAATTTTTCTATTTTT
1273530 TTTAATTTTTCTATTTTT
1 TTTAATTTTTCTATTTTT
1273548 T
1 T
1273549 AAATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTAATTTTTCTATTTTT
Found at i:1273556 original size:18 final size:18
Alignment explanation
Indices: 1273515--1273556 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
1273505 TTTAAAATTT
*
1273515 AATTTTTCTATTTTTTTT
1 AATTTTTCTATTTTTTTA
1273533 AATTTTTCTA-TTTTTTA
1 AATTTTTCTATTTTTTTA
1273550 AATTTTT
1 AATTTTT
1273557 AACTATCGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
AATTTTTCTATTTTTTTA
Found at i:1280626 original size:14 final size:14
Alignment explanation
Indices: 1280591--1280629 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1280581 AATTTAATCC
1280591 TTTTATTTTTATTT
1 TTTTATTTTTATTT
***
1280605 TAAAATTTTTATTT
1 TTTTATTTTTATTT
1280619 TTTTATTTTTA
1 TTTTATTTTTA
1280630 AATTTTAAGT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:1286983 original size:20 final size:20
Alignment explanation
Indices: 1286940--1286997 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
1286930 TTATGAAGCA
*
1286940 AAATTTAAAAT-TTTCTATAC
1 AAATTTAAAATATTT-TAAAC
*
1286960 AAATTTAAAATATTTTAAAT
1 AAATTTAAAATATTTTAAAC
*
1286980 AAATCTTTAAA-ATTTTAA
1 AAAT-TTAAAATATTTTAA
1286998 TATTATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 25 0.76
21 8 0.24
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTTAAAATATTTTAAAC
Found at i:1287367 original size:4 final size:4
Alignment explanation
Indices: 1287358--1287386 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
1287348 GAAAATAATG
1287358 CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA C
1287387 CTTTAGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:1291140 original size:23 final size:25
Alignment explanation
Indices: 1291113--1291162 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
1291103 GCCTTGAATA
*
1291113 TTCAATTTAGTAT-CT-GAATTTTT
1 TTCAATTTAATATACTCGAATTTTT
*
1291136 TTCAATTTAATATACTCGAGTTTTT
1 TTCAATTTAATATACTCGAATTTTT
1291161 TT
1 TT
1291163 GTCCTAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 2 0.09
25 9 0.39
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (25 bp):
TTCAATTTAATATACTCGAATTTTT
Found at i:1300492 original size:6 final size:7
Alignment explanation
Indices: 1300464--1300490 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1300454 TAAAAAAGTT
1300464 TAAAAAA
1 TAAAAAA
1300471 TAAAAAA
1 TAAAAAA
1300478 TAAAAAA
1 TAAAAAA
1300485 TAAAAA
1 TAAAAA
1300491 TATTGGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:1305639 original size:18 final size:18
Alignment explanation
Indices: 1305616--1305708 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
1305606 CCCAACTACT
*
1305616 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
1305634 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
1305652 GTATATGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
1305670 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
1305688 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
1305706 GTA
1 GTA
1305709 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:1305668 original size:36 final size:36
Alignment explanation
Indices: 1305616--1305708 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
1305606 CCCAACTACT
* *
1305616 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
* *
1305652 GTATATGTGAATAGTACTGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
1305688 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
1305709 AACGGTCGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:1308920 original size:30 final size:31
Alignment explanation
Indices: 1308871--1308930 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
1308861 TTTTGTTTAA
*
1308871 TTTGGTACCTAAACTTGACACTTTTTCTTAT
1 TTTGGTACCTAAACTTGACACTTTCTCTTAT
*
1308902 TTTGGTA-CTAATCTTGACACTTTCTCTTA
1 TTTGGTACCTAAACTTGACACTTTCTCTTA
1308931 AATTGTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (31 bp):
TTTGGTACCTAAACTTGACACTTTCTCTTAT
Found at i:1309523 original size:60 final size:60
Alignment explanation
Indices: 1309407--1309521 Score: 162
Period size: 59 Copynumber: 1.9 Consensus size: 60
1309397 AGATATAAAA
* * * *
1309407 TTTAGGCACTAAATTAGGAAAAAATGTCAAGTTCATGTACCAAATTGGGTCCAAAAAGGG
1 TTTAGGCACCAAATTAGGAAAAAATATCAAGTTCAAGTACCAAATTGGGTCAAAAAAGGG
* *
1309467 TTTAGGTACCAAATTAGG-AAAAGTATCAAGTTCAAGTACCAAATTGGG-CAAAAAA
1 TTTAGGCACCAAATTAGGAAAAAATATCAAGTTCAAGTACCAAATTGGGTCAAAAAA
1309522 AAAAGAGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
58 6 0.12
59 27 0.55
60 16 0.33
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (60 bp):
TTTAGGCACCAAATTAGGAAAAAATATCAAGTTCAAGTACCAAATTGGGTCAAAAAAGGG
Found at i:1319399 original size:5 final size:5
Alignment explanation
Indices: 1319389--1319415 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1319379 CTTAGCTAGA
1319389 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1319416 TATTAGGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:1320505 original size:12 final size:12
Alignment explanation
Indices: 1320488--1320512 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1320478 GGTGTTCATT
1320488 CGGTTAACCGAC
1 CGGTTAACCGAC
1320500 CGGTTAACCGAC
1 CGGTTAACCGAC
1320512 C
1 C
1320513 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:1320686 original size:9 final size:9
Alignment explanation
Indices: 1320672--1320725 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
1320662 TTTGGTTAAA
1320672 AATTACCCG
1 AATTACCCG
1320681 AATTACCCG
1 AATTACCCG
*
1320690 AATTAACCG
1 AATTACCCG
1320699 AATTA-CCG
1 AATTACCCG
*
1320707 AAAAATACCCG
1 --AATTACCCG
1320718 AATTACCC
1 AATTACCC
1320726 AAAATTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
8 3 0.08
9 29 0.74
10 4 0.10
11 3 0.08
ACGTcount: A:0.41, C:0.30, G:0.09, T:0.20
Consensus pattern (9 bp):
AATTACCCG
Found at i:1320888 original size:13 final size:13
Alignment explanation
Indices: 1320870--1320899 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1320860 TTTTAGTTTT
1320870 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
1320883 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
1320896 ATTG
1 ATTG
1320900 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:1327063 original size:49 final size:49
Alignment explanation
Indices: 1326953--1327391 Score: 655
Period size: 47 Copynumber: 9.1 Consensus size: 49
1326943 GAAATGATAG
1326953 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
1327004 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
1327053 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
*
1327104 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
1327151 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
1327198 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
1327247 TAGGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1327294 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
1327341 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1327388 TAAG
1 TAAG
1327392 TCCCGAAGGG
Statistics
Matches: 361, Mismatches: 21, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
47 183 0.51
48 1 0.00
49 93 0.26
51 84 0.23
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:1327294 original size:143 final size:143
Alignment explanation
Indices: 1326953--1327380 Score: 676
Period size: 143 Copynumber: 2.9 Consensus size: 143
1326943 GAAATGATAG
1326953 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGC
1327018 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTG
62 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTG
*
1327083 AAAGTGTATATATATATGTGA
125 AAAGTG--TATATATATGTAA
*
1327104 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
1327169 GTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1327234 TATATATATGTAA
131 TATATATATGTAA
* *
1327247 TAGGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * * * *
1327312 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1327377 TATA
131 TATA
1327381 AATGTGATAA
Statistics
Matches: 262, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
143 135 0.52
145 45 0.17
147 46 0.18
151 36 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTAA
Found at i:1327566 original size:37 final size:37
Alignment explanation
Indices: 1327510--1327588 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
1327500 CCGAGCTCTA
* * *
1327510 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
1327547 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
1327584 AAGAC
1 AAGAC
1327589 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:1329501 original size:43 final size:43
Alignment explanation
Indices: 1329453--1329555 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
1329443 TTGGTTTTCA
1329453 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1329496 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1329539 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
1329556 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:1329572 original size:29 final size:29
Alignment explanation
Indices: 1329537--1329610 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
1329527 GTTGTGAGAT
* *
1329537 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
1329566 TGGCACTAAGTGTACGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
1329595 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
1329611 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:1330044 original size:40 final size:40
Alignment explanation
Indices: 1330000--1330276 Score: 419
Period size: 40 Copynumber: 6.9 Consensus size: 40
1329990 GAGATACTAA
1330000 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1330040 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
1330080 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
1330120 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
1330160 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* ** * * * *
1330200 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
1330240 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
1330277 CGTGTATTCG
Statistics
Matches: 221, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:1330058 original size:80 final size:80
Alignment explanation
Indices: 1329921--1330276 Score: 382
Period size: 80 Copynumber: 4.5 Consensus size: 80
1329911 TCGAATGATG
** * * *
1329921 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATTCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATATCCGGGCTAAG-TCCCGAAGAGC
** *
1329982 ATTTGTGCGAGAT-ACTAAA
63 ATTCATGCGAG-TGA-TATA
*
1330001 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
* *
1330066 CATGCTAGTGATGTA
66 CATGCGAGTGATATA
* * *
1330081 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
* *
1330146 CATGCTAGTGATGTA
66 CATGCGAGTGATATA
* * * **
1330161 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
* *
1330226 CGTGCTG-GTGTTATA
66 CATGC-GAGTGATATA
* * *
1330241 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
1330277 CGTGTATTCG
Statistics
Matches: 242, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
79 1 0.00
80 217 0.90
81 18 0.07
82 6 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
CATGCGAGTGATATA
Found at i:1333843 original size:49 final size:49
Alignment explanation
Indices: 1333733--1334173 Score: 650
Period size: 47 Copynumber: 9.1 Consensus size: 49
1333723 GAAATGATAG
1333733 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
1333784 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
1333833 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATATGTGA
*
1333886 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
1333933 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
1333980 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
1334029 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1334076 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
1334123 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1334170 TAAG
1 TAAG
1334174 TCCCGAAGGG
Statistics
Matches: 363, Mismatches: 19, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
47 184 0.51
48 1 0.00
49 94 0.26
51 36 0.10
53 48 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:1334076 original size:143 final size:143
Alignment explanation
Indices: 1333733--1334162 Score: 671
Period size: 143 Copynumber: 2.9 Consensus size: 143
1333723 GAAATGATAG
1333733 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGC
1333798 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTG
62 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTG
*
1333863 AAAGTGTATATATATATATGTGA
125 AAAGTG----TATATATATGTAA
*
1333886 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
1333951 GTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1334016 TATATATATGTAA
131 TATATATATGTAA
*
1334029 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * * * *
1334094 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1334159 TATA
131 TATA
1334163 AATGTGATAA
Statistics
Matches: 263, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
143 136 0.52
147 45 0.17
149 46 0.17
153 36 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTAA
Found at i:1334348 original size:37 final size:37
Alignment explanation
Indices: 1334292--1334370 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
1334282 CCGAGCTCTA
* * *
1334292 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
1334329 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
1334366 AAGAC
1 AAGAC
1334371 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:1343930 original size:21 final size:21
Alignment explanation
Indices: 1343892--1343931 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1343882 TAACTCGAAC
* *
1343892 AATTTCACTTGACTCGACTTG
1 AATTTCACTTCACCCGACTTG
*
1343913 AATTTCATTTCACCCGACT
1 AATTTCACTTCACCCGACT
1343932 CAATTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.38
Consensus pattern (21 bp):
AATTTCACTTCACCCGACTTG
Found at i:1345001 original size:8 final size:8
Alignment explanation
Indices: 1344988--1345014 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1344978 TGCCTTTTAA
1344988 AAAATTTT
1 AAAATTTT
1344996 AAAATTTT
1 AAAATTTT
1345004 AAAATTTT
1 AAAATTTT
1345012 AAA
1 AAA
1345015 TTAGTAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:1350103 original size:18 final size:18
Alignment explanation
Indices: 1350080--1350172 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
1350070 CCCAACTACT
*
1350080 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
1350098 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
1350116 GTATACGTAAATAGTACT
1 GTATACGTGAATAGTACC
* * *
1350134 GTATACATAAATAGTGCC
1 GTATACGTGAATAGTACC
1350152 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
1350170 GTA
1 GTA
1350173 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:1350132 original size:36 final size:36
Alignment explanation
Indices: 1350080--1350172 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
1350070 CCCAACTACT
* * *
1350080 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATAAATAGTGCC
* *
1350116 GTATACGTAAATAGTACTGTATACATAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATAAATAGTGCC
1350152 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
1350173 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACATAAATAGTGCC
Found at i:1353147 original size:21 final size:20
Alignment explanation
Indices: 1353114--1353152 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1353104 TTACCTTTAT
1353114 TAATTTAAAATTTGTAAGGAG
1 TAATTTAAAATTT-TAAGGAG
* *
1353135 TAATTTTAGATTTTAAGG
1 TAATTTAAAATTTTAAGG
1353153 GTCTGAAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (20 bp):
TAATTTAAAATTTTAAGGAG
Found at i:1364697 original size:29 final size:28
Alignment explanation
Indices: 1364665--1364725 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
1364655 AAAAGCCATT
1364665 TTTTTTCAAAATTTACCGAAATGGACCGA
1 TTTTTTCAAAATTTACCGAAATGGACC-A
* ** * *
1364694 TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTCAAAATTTACCGAAATGGACCA
1364722 TTTT
1 TTTT
1364726 CCGCGAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGACCA
Found at i:1364819 original size:40 final size:41
Alignment explanation
Indices: 1364731--1364820 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
1364721 ATTTTCCGCG
* * *
1364731 AAATCGCGTCCACGTCAGCGCGATTTCAGAATACGTGTCAGG
1 AAATCGCATCCACGTCAGCGCGATTT-AGAATACGTGACAGC
* **
1364773 ACATCGCATCCACGTCAGCGCGATTT-GCTTACGTGGACA-C
1 AAATCGCATCCACGTCAGCGCGATTTAGAATACGT-GACAGC
1364813 AAATCGCA
1 AAATCGCA
1364821 CCTACGAGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
40 13 0.32
41 3 0.08
42 24 0.60
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (41 bp):
AAATCGCATCCACGTCAGCGCGATTTAGAATACGTGACAGC
Found at i:1368158 original size:18 final size:19
Alignment explanation
Indices: 1368126--1368164 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1368116 ATTATAAAAT
*
1368126 AATTAAAAATAATTTTTAA
1 AATTAAAAATAATTTATAA
*
1368145 AATTAAAAA-CATTTATAA
1 AATTAAAAATAATTTATAA
1368163 AA
1 AA
1368165 ATTTCAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTAAAAATAATTTATAA
Found at i:1371077 original size:21 final size:21
Alignment explanation
Indices: 1371051--1371106 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
1371041 AACAGCGGTG
*
1371051 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
1371072 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
1371093 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
1371107 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:1371537 original size:17 final size:17
Alignment explanation
Indices: 1371517--1371561 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1371507 TATTACTAGA
1371517 AATTTTTAATTATAAAT
1 AATTTTTAATTATAAAT
** *
1371534 AATTTAAAATAATAAAT
1 AATTTTTAATTATAAAT
1371551 AATTTTTAATT
1 AATTTTTAATT
1371562 TTTAATTATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTTAATTATAAAT
Found at i:1372223 original size:15 final size:15
Alignment explanation
Indices: 1372203--1372237 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1372193 AAGTCATTCA
1372203 TCTGCTGCTGCAACT
1 TCTGCTGCTGCAACT
1372218 TCTGCTGCTGCAACT
1 TCTGCTGCTGCAACT
1372233 TCTGC
1 TCTGC
1372238 CATTTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.34, G:0.20, T:0.34
Consensus pattern (15 bp):
TCTGCTGCTGCAACT
Found at i:1372927 original size:13 final size:13
Alignment explanation
Indices: 1372909--1372933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1372899 GAAACCTGAA
1372909 GAAGATGATAGAT
1 GAAGATGATAGAT
1372922 GAAGATGATAGA
1 GAAGATGATAGA
1372934 GGTGTTAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (13 bp):
GAAGATGATAGAT
Found at i:1375667 original size:97 final size:95
Alignment explanation
Indices: 1375500--1375675 Score: 316
Period size: 97 Copynumber: 1.8 Consensus size: 95
1375490 GACGAAACCA
1375500 CAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTG
1 CAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTG
*
1375565 GCAGTGGAATAGATTGAAGATCAAATATGG
66 ACAGTGGAATAGATTGAAGATCAAATATGG
*
1375595 CAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCTGATAACTCTATCTCCCTGTATT
1 CAGATTTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATT
1375660 TGACAGTGGAATAGAT
64 TGACAGTGGAATAGAT
1375676 CGGAGATTAC
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
95 15 0.19
97 62 0.81
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (95 bp):
CAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTG
ACAGTGGAATAGATTGAAGATCAAATATGG
Found at i:1377842 original size:38 final size:38
Alignment explanation
Indices: 1377758--1377852 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 38
1377748 TATACGTACT
*
1377758 TATACATACTTAAATATATTTTTCATATTTCTTAATTC
1 TATACATACTTAAATATATTTTGCATATTTCTTAATTC
* *
1377796 T-TATATACTTACATATATTTATGCATA-TT-TT-ATATC
1 TATACATACTTAAATATATTT-TGCATATTTCTTAAT-TC
*
1377832 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
1377853 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
35 2 0.04
36 4 0.08
37 20 0.42
38 22 0.46
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.52
Consensus pattern (38 bp):
TATACATACTTAAATATATTTTGCATATTTCTTAATTC
Found at i:1393905 original size:21 final size:21
Alignment explanation
Indices: 1393879--1393919 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1393869 ATCTGCTCAA
* *
1393879 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1393900 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1393920 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1400601 original size:19 final size:19
Alignment explanation
Indices: 1400579--1400634 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
1400569 TTCTTTTTCC
1400579 CTTTCTTTTTTTCTGTTAT
1 CTTTCTTTTTTTCTGTTAT
**
1400598 CTTTCCCTTTTTCTGTTAT
1 CTTTCTTTTTTTCTGTTAT
*
1400617 -TTGCTTTTCTTTGCTGTT
1 CTTTCTTTT-TTT-CTGTT
1400635 GCTTGTGTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 5 0.17
19 20 0.67
20 5 0.17
ACGTcount: A:0.04, C:0.20, G:0.09, T:0.68
Consensus pattern (19 bp):
CTTTCTTTTTTTCTGTTAT
Found at i:1406412 original size:21 final size:21
Alignment explanation
Indices: 1406386--1406426 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1406376 AGACGAGCAA
* *
1406386 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1406407 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1406427 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1410204 original size:18 final size:20
Alignment explanation
Indices: 1410164--1410205 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
1410154 AAAAATTACA
*
1410164 AAAACTTCAAAATAATTTTT
1 AAAACTTCAAAATAATTTAT
*
1410184 AAAA-TTCAAAA-CATTTAT
1 AAAACTTCAAAATAATTTAT
1410202 AAAA
1 AAAA
1410206 ATTTCAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAACTTCAAAATAATTTAT
Found at i:1410250 original size:13 final size:13
Alignment explanation
Indices: 1410232--1410258 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1410222 TTTTTTAAAG
1410232 AATTGTAAAAAAA
1 AATTGTAAAAAAA
1410245 AATTGTAAAAAAA
1 AATTGTAAAAAAA
1410258 A
1 A
1410259 TTCTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (13 bp):
AATTGTAAAAAAA
Found at i:1410256 original size:12 final size:12
Alignment explanation
Indices: 1410232--1410265 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1410222 TTTTTTAAAG
1410232 AATTGTAAAAAAA
1 AATTGT-AAAAAA
1410245 AATTGTAAAAAA
1 AATTGTAAAAAA
*
1410257 AATTCTAAA
1 AATTGTAAA
1410266 TAATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (12 bp):
AATTGTAAAAAA
Found at i:1410340 original size:17 final size:18
Alignment explanation
Indices: 1410320--1410358 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1410310 AATTTTAGGG
1410320 AATTAAAT-AATTTAATT
1 AATTAAATCAATTTAATT
*
1410337 AATT-ATTCAATTTAATT
1 AATTAAATCAATTTAATT
1410354 AATTA
1 AATTA
1410359 TTCAAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTAAATCAATTTAATT
Found at i:1410359 original size:17 final size:17
Alignment explanation
Indices: 1410328--1410368 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
1410318 GGAATTAAAT
1410328 AATTTAATTAATTATTC
1 AATTTAATTAATTATTC
1410345 AATTTAATTAATTATTC
1 AATTTAATTAATTATTC
1410362 AAGTTTA
1 AA-TTTA
1410369 TCATAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (17 bp):
AATTTAATTAATTATTC
Found at i:1417025 original size:19 final size:20
Alignment explanation
Indices: 1417003--1417040 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
1416993 ATTAATAAAT
1417003 AAACTGAAAA-AA-GCATTAG
1 AAACT-AAAACAATGCATTAG
1417022 AAACTAAAACAATGCATTA
1 AAACTAAAACAATGCATTA
1417041 AAAATAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.58, C:0.13, G:0.11, T:0.18
Consensus pattern (20 bp):
AAACTAAAACAATGCATTAG
Found at i:1419646 original size:79 final size:80
Alignment explanation
Indices: 1419545--1419691 Score: 190
Period size: 79 Copynumber: 1.9 Consensus size: 80
1419535 CTATTAAAAA
** * * *
1419545 TATATTAAAATTTTCAAATTGGTTATACAT-AAAATATT-TTTAATACGTTTAAAATATTAATAT
1 TATATTAAAAAATTAAAATTGGTTATAC-TCAAAATATTCTTTAACACATTTAAAATATTAATAT
1419608 ATTTTAATGTATTAAG
65 ATTTTAATGTATTAAG
* * * *
1419624 TATATTAAAAAATTAAAATTGGTTATACTCAACATTTTCTTTAACATATTTAAAATTTTAATATA
1 TATATTAAAAAATTAAAATTGGTTATACTCAAAATATTCTTTAACACATTTAAAATATTAATATA
1419689 TTT
66 TTT
1419692 AAAAAATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
78 1 0.02
79 31 0.54
80 25 0.44
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (80 bp):
TATATTAAAAAATTAAAATTGGTTATACTCAAAATATTCTTTAACACATTTAAAATATTAATATA
TTTTAATGTATTAAG
Found at i:1419689 original size:17 final size:17
Alignment explanation
Indices: 1419663--1419727 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
1419653 CAACATTTTC
*
1419663 TTTAACATATTTAAAAT
1 TTTAATATATTTAAAAT
1419680 TTTAATATATTTAAAAAAT
1 TTTAATATATTT--AAAAT
* *
1419699 TTTAAGT-TTTTTGAAAT
1 TTTAA-TATATTTAAAAT
1419716 TTTAAATATATT
1 TTT-AATATATT
1419728 AAACTATCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 19 0.49
18 5 0.13
19 14 0.36
20 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTAATATATTTAAAAT
Found at i:1424260 original size:21 final size:21
Alignment explanation
Indices: 1424234--1424274 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1424224 ATCTGCTCAA
* *
1424234 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1424255 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1424275 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1428903 original size:20 final size:21
Alignment explanation
Indices: 1428880--1428919 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1428870 TTAGTTTTCT
*
1428880 AAAATTTTAAATAT-ATTAAA
1 AAAATGTTAAATATAATTAAA
*
1428900 AAAATGTTAAGTATAATTAA
1 AAAATGTTAAATATAATTAA
1428920 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATGTTAAATATAATTAAA
Found at i:1429087 original size:64 final size:64
Alignment explanation
Indices: 1429016--1429139 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 64
1429006 TAAAAAACTT
* *
1429016 AAAAAATTAAATATA-TTAAAAATTGTTAAATATAACCAATTTTAATATATTTAATATATTTTTA
1 AAAAAATTAAATATATTTAAAAAATGTTAAATATAACCAATTTTAAAAT-TTTAATATATTTTTA
*
1429080 AAAAAATTAAATATATTTAAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATATATT
1 AAAAAATTAAATATATTTAAAAAATGTTAAATATAACCAATTTTAAAATTTTAATATATT
1429140 CAATATACTT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 26 0.46
65 30 0.54
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (64 bp):
AAAAAATTAAATATATTTAAAAAATGTTAAATATAACCAATTTTAAAATTTTAATATATTTTTA
Found at i:1429093 original size:19 final size:20
Alignment explanation
Indices: 1429066--1429103 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1429056 TTTAATATAT
*
1429066 TTAATATATTTTTAAAAAAA
1 TTAATATATATTTAAAAAAA
1429086 TTAA-ATATATTTAAAAAA
1 TTAATATATATTTAAAAAA
1429104 TGTTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATATATATTTAAAAAAA
Found at i:1429194 original size:21 final size:21
Alignment explanation
Indices: 1429128--1429198 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 21
1429118 AATTTTAAAA
*
1429128 TTTTAATATATTCAATATACTT
1 TTTTAATATATTTAATATA-TT
*
1429150 TTTAAAAATATATGTTAA-A-A--
1 TTT--TAATATAT-TTAATATATT
1429170 TTTTAATATATTTAATATATT
1 TTTTAATATATTTAATATATT
1429191 TTTTAATA
1 TTTTAATA
1429199 GGTAAAGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
17 4 0.10
18 8 0.21
19 1 0.03
20 3 0.08
21 8 0.21
22 3 0.08
23 1 0.03
24 8 0.21
25 3 0.08
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (21 bp):
TTTTAATATATTTAATATATT
Found at i:1429343 original size:79 final size:80
Alignment explanation
Indices: 1429259--1429405 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 80
1429249 TAAAAAATTT
* *
1429259 AAATATATTAAAATTTTAAACAT-GTAAAGAAAATGTCGAGTAT-A-ACCAATTTTAAATTTTTA
1 AAATATATTAAAATTTTAAACATAGTAAA-AAAAT-TCAAGTATAATACCAATTTTAAAATTTTA
1429321 ATATACTTAATATATTA
64 ATATACTTAATATATTA
* *
1429338 AAATATATTAAAATTTTAAACATATTAAAAAAATTTAAGTATAATACCAATTTTAAAATTTTAAT
1 AAATATATTAAAATTTTAAACATAGTAAAAAAATTCAAGTATAATACCAATTTTAAAATTTTAAT
1429403 ATA
66 ATA
1429406 TTTTTTAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
78 6 0.10
79 29 0.48
80 26 0.43
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (80 bp):
AAATATATTAAAATTTTAAACATAGTAAAAAAATTCAAGTATAATACCAATTTTAAAATTTTAAT
ATACTTAATATATTA
Found at i:1429344 original size:19 final size:18
Alignment explanation
Indices: 1429320--1429367 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
1429310 TTAAATTTTT
*
1429320 AATATACTTAATATATTAA
1 AATATA-TTAAAATATTAA
*
1429339 AATATATTAAAAT-TTTA
1 AATATATTAAAATATTAA
*
1429356 AACATATTAAAA
1 AATATATTAAAA
1429368 AAATTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 14 0.54
18 6 0.23
19 6 0.23
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATATTAAAATATTAA
Found at i:1432411 original size:17 final size:17
Alignment explanation
Indices: 1432389--1432449 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
1432379 TTTTTAAATG
1432389 ATATTTTATAATTTTTA
1 ATATTTTATAATTTTTA
* *
1432406 ATATTTTTTATATGTTT-
1 ATATTTTATA-ATTTTTA
*
1432423 AGATTTTATTAATATTTTA
1 ATATTTTA-TAAT-TTTTA
*
1432442 ATTTTTTA
1 ATATTTTA
1432450 AGAGACGAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 17 0.52
18 10 0.30
19 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
ATATTTTATAATTTTTA
Found at i:1432423 original size:18 final size:16
Alignment explanation
Indices: 1432401--1432448 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
1432391 ATTTTATAAT
1432401 TTTTAATATTTTTTATA
1 TTTTAAT-TTTTTTATA
*
1432418 TGTTTAGATTTTATTAATA
1 T-TTTA-ATTTT-TTTATA
1432437 TTTTAATTTTTT
1 TTTTAATTTTTT
1432449 AAGAGACGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 2 0.07
17 6 0.22
18 11 0.41
19 8 0.30
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (16 bp):
TTTTAATTTTTTTATA
Found at i:1433307 original size:22 final size:22
Alignment explanation
Indices: 1433273--1433314 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1433263 AGTTTTGATA
* *
1433273 TTCACTTTGATACTTAAATTCT
1 TTCAATTTAATACTTAAATTCT
*
1433295 TTCAATTTAATACTTGAATT
1 TTCAATTTAATACTTAAATT
1433315 TTTTTTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (22 bp):
TTCAATTTAATACTTAAATTCT
Found at i:1436238 original size:29 final size:30
Alignment explanation
Indices: 1436187--1436251 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
1436177 TCACATATTT
*
1436187 AGAATTTAGTCGTTGTACATTT-ATTTTTA
1 AGAATTTAGTCATTGTACATTTAATTTTTA
*
1436216 AGAATTTAGTCCATT-TACTTTTAAATTTTTA
1 AGAATTTAGT-CATTGTACATTT-AATTTTTA
1436247 A-AATT
1 AGAATT
1436252 CAAGTCCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 16 0.52
30 7 0.23
31 8 0.26
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (30 bp):
AGAATTTAGTCATTGTACATTTAATTTTTA
Found at i:1447422 original size:14 final size:14
Alignment explanation
Indices: 1447403--1447449 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
1447393 AAGGTGCAGA
1447403 TTTAATTTTTGTAT
1 TTTAATTTTTGTAT
*
1447417 TTTAATTTGAT-TATT
1 TTTAATTT-TTGTA-T
1447432 TTTAATTTTTAGTAT
1 TTTAATTTTT-GTAT
1447447 TTT
1 TTT
1447450 TTTTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 11 0.41
15 14 0.52
16 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (14 bp):
TTTAATTTTTGTAT
Found at i:1448757 original size:19 final size:19
Alignment explanation
Indices: 1448729--1448768 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1448719 TGTAGATTAA
1448729 ATACACTAAATCAAAATTT
1 ATACACTAAATCAAAATTT
* *
1448748 ATACATTAAATTAAAATTT
1 ATACACTAAATCAAAATTT
1448767 AT
1 AT
1448769 TTATAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
ATACACTAAATCAAAATTT
Found at i:1458579 original size:18 final size:18
Alignment explanation
Indices: 1458556--1458648 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
1458546 CCCAACTACT
*
1458556 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
1458574 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
1458592 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
1458610 GTATACATGAATAGTGCC
1 GTATACGTGAATAGTACC
1458628 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
1458646 GTA
1 GTA
1458649 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:1458608 original size:36 final size:36
Alignment explanation
Indices: 1458556--1458648 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
1458546 CCCAACTACT
* *
1458556 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
*
1458592 GTATATGTGAATAGTACCGTATACATGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
1458628 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
1458649 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACATGAATAGTGCC
Found at i:1466032 original size:18 final size:18
Alignment explanation
Indices: 1466009--1466043 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1465999 CAATATATTA
1466009 TTTGAGTTATTCAAATTT
1 TTTGAGTTATTCAAATTT
1466027 TTTGAGTTATTCAAATT
1 TTTGAGTTATTCAAATT
1466044 GTAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (18 bp):
TTTGAGTTATTCAAATTT
Found at i:1469578 original size:44 final size:44
Alignment explanation
Indices: 1469502--1469676 Score: 199
Period size: 44 Copynumber: 4.0 Consensus size: 44
1469492 CGACTACTGT
* *
1469502 TACTGTTACTGATTCGACACTTTGTGTATCGAATACTGTTACCG
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGTTACCG
* * * * *
1469546 TATTATTATAGATTCGGCACTTTGTGTGTCGAATACTGTTATCG
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGTTACCG
* * *
1469590 TTACTGTTACCA-ATTTGACACTTTGTATGTCGAATACTATTACCG
1 -TACTGTTA-CAGATTCGACACTTTGTGTGTCGAATACTGTTACCG
* * * *
1469635 TACTGTTACAGATTCGGCACTTTATCTGTTGAATACTGTTAC
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGTTAC
1469677 TGTTACTATT
Statistics
Matches: 107, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
43 2 0.02
44 70 0.65
45 34 0.32
46 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (44 bp):
TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGTTACCG
Found at i:1469623 original size:89 final size:89
Alignment explanation
Indices: 1469496--1469688 Score: 253
Period size: 89 Copynumber: 2.2 Consensus size: 89
1469486 ATGTGCCGAC
** * * * *
1469496 TACTGTTACTGTTACTGATTCGACACTTTGTGTATCGAATACTGTTACCGTATTATTATAGATTC
1 TACTGTTACTGTTACCAATTCGACACTTTGTATATCGAATACTATTACCGTACTATTACAGATTC
* *
1469561 GGCACTTTGTGTGTCGAATACTGT
66 GGCACTTTATCTGTCGAATACTGT
* * *
1469585 TA-TCGTTACTGTTACCAATTTGACACTTTGTATGTCGAATACTATTACCGTACTGTTACAGATT
1 TACT-GTTACTGTTACCAATTCGACACTTTGTATATCGAATACTATTACCGTACTATTACAGATT
*
1469649 CGGCACTTTATCTGTTGAATACTGT
65 CGGCACTTTATCTGTCGAATACTGT
*
1469674 TACTGTTACTATTAC
1 TACTGTTACTGTTAC
1469689 TGCTACCGTT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
88 1 0.01
89 87 0.98
90 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (89 bp):
TACTGTTACTGTTACCAATTCGACACTTTGTATATCGAATACTATTACCGTACTATTACAGATTC
GGCACTTTATCTGTCGAATACTGT
Found at i:1472802 original size:50 final size:50
Alignment explanation
Indices: 1472724--1472912 Score: 261
Period size: 50 Copynumber: 3.8 Consensus size: 50
1472714 TTGGGTAAAT
*
1472724 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAG
*
1472774 AGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAG
** * * * *
1472824 AGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAG
1 AGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAG
** * *
1472874 AACATCTCATGTAAGACCATGTCTAGGACATGGCTTTGG
1 -AGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGG
1472913 GATGTTATGA
Statistics
Matches: 121, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 91 0.75
51 30 0.25
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAG
Found at i:1475223 original size:56 final size:56
Alignment explanation
Indices: 1475139--1475247 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
1475129 TGTATTTTGG
*
1475139 AGGAGGTGTAGTCCATATACATGTGTAAGTTACAACATTCATTAGCCTATAAATTC
1 AGGAGGTGTAGTCCATATACATGGGTAAGTTACAACATTCATTAGCCTATAAATTC
* * *
1475195 AGGATGTGTGGTCCATATACGTGGGTAAGTTACAACATTCATTAGCCTATAAA
1 AGGAGGTGTAGTCCATATACATGGGTAAGTTACAACATTCATTAGCCTATAAA
1475248 ATCCATTAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (56 bp):
AGGAGGTGTAGTCCATATACATGGGTAAGTTACAACATTCATTAGCCTATAAATTC
Found at i:1476389 original size:4 final size:4
Alignment explanation
Indices: 1476380--1476405 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1476370 GGAACTTATA
1476380 TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TA
1476406 CGCATGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:1479804 original size:21 final size:21
Alignment explanation
Indices: 1479746--1479832 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
1479736 CCTCATCAGT
1479746 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
1479766 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
1479787 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
*
1479810 ATACGACACGTAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
1479831 AT
1 AT
1479833 GGGCAAAGCC
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
20 9 0.16
21 27 0.48
23 20 0.36
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:1479831 original size:44 final size:41
Alignment explanation
Indices: 1479746--1479832 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
1479736 CCTCATCAGT
* *
1479746 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
**
1479787 ATACGACACATAAAGTGCCTGAGATACGACACGTAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
1479831 AT
1 AT
1479833 GGGCAAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 11 0.28
42 10 0.26
43 1 0.03
44 17 0.44
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:1480069 original size:36 final size:36
Alignment explanation
Indices: 1480022--1480112 Score: 105
Period size: 36 Copynumber: 2.5 Consensus size: 36
1480012 CTTTTCAAAT
* *
1480022 TCACATTTCAATTCAATTTCACTTTTTTACTTTCAA-
1 TCACAATTCAATTCAATTT-ACTTTTCTACTTTCAAG
*
1480058 TCACAATTCAATTCAAATTTACTTTTCTATTTTCAAG
1 TCACAATTCAATTC-AATTTACTTTTCTACTTTCAAG
*
1480095 TCA-ATATTCATTTCAATT
1 TCACA-ATTCAATTCAATT
1480113 CCACACATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
36 32 0.67
37 16 0.33
ACGTcount: A:0.31, C:0.20, G:0.01, T:0.48
Consensus pattern (36 bp):
TCACAATTCAATTCAATTTACTTTTCTACTTTCAAG
Found at i:1480181 original size:16 final size:16
Alignment explanation
Indices: 1480159--1480198 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
1480149 AATTTAATAA
1480159 TACTTACCTTA-TATT
1 TACTTACCTTATTATT
1480174 TCACTTACCTTATTATT
1 T-ACTTACCTTATTATT
1480191 TACTTACC
1 TACTTACC
1480199 ATACACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 17 0.74
17 5 0.22
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (16 bp):
TACTTACCTTATTATT
Found at i:1481288 original size:21 final size:20
Alignment explanation
Indices: 1481264--1481302 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1481254 ATCTGTAAAC
1481264 TACAAATATATATATTTTAAT
1 TACAAATATAT-TATTTTAAT
* *
1481285 TACACATGTATTATTTTA
1 TACAAATATATTATTTTA
1481303 TCACCATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (20 bp):
TACAAATATATTATTTTAAT
Found at i:1481399 original size:25 final size:27
Alignment explanation
Indices: 1481362--1481421 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
1481352 ATAATATAGT
*
1481362 TATTTTGAATTAATTTAATATAATTTATAA
1 TATTTT-AATTAA-ATAATAT-ATTTATAA
*
1481392 TATTTTAATTAAATAATATTTTTATAA
1 TATTTTAATTAAATAATATATTTATAA
1481419 TAT
1 TAT
1481422 AAATCAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 6 0.21
29 6 0.21
30 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTTTAATTAAATAATATATTTATAA
Found at i:1481423 original size:16 final size:17
Alignment explanation
Indices: 1481387--1481423 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1481377 TAATATAATT
1481387 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
1481404 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
1481419 TATAA
1 TATAA
1481424 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:1483472 original size:20 final size:21
Alignment explanation
Indices: 1483419--1483464 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
1483409 TTGATATGTT
1483419 AGTGAAGAAAAATAAGAGAAA
1 AGTGAAGAAAAATAAGAGAAA
1483440 AGTGAAGAAAAATAAGAG-AA
1 AGTGAAGAAAAATAAGAGAAA
1483460 AGTGA
1 AGTGA
1483465 TGGGAAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.11
Consensus pattern (21 bp):
AGTGAAGAAAAATAAGAGAAA
Found at i:1493901 original size:15 final size:17
Alignment explanation
Indices: 1493869--1493901 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1493859 CATACCAGCT
1493869 TCAGCTTCTTCATACTA
1 TCAGCTTCTTCATACTA
1493886 TCAGCTT-TTC-TACTA
1 TCAGCTTCTTCATACTA
1493901 T
1 T
1493902 TCTTTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.21, C:0.27, G:0.06, T:0.45
Consensus pattern (17 bp):
TCAGCTTCTTCATACTA
Found at i:1498245 original size:28 final size:28
Alignment explanation
Indices: 1498213--1498268 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
1498203 AGAGAGACAG
1498213 GCTGAGTCTTTGGAGATGCATATAAGAA
1 GCTGAGTCTTTGGAGATGCATATAAGAA
1498241 GCTGAGTCTTTGGAGATGCATATAAGAA
1 GCTGAGTCTTTGGAGATGCATATAAGAA
1498269 AGAATGGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.29
Consensus pattern (28 bp):
GCTGAGTCTTTGGAGATGCATATAAGAA
Found at i:1506570 original size:8 final size:8
Alignment explanation
Indices: 1506553--1506581 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1506543 TCCCTATATT
1506553 TTTC-AAA
1 TTTCAAAA
1506560 TTTCAAAA
1 TTTCAAAA
1506568 TTTCAAAA
1 TTTCAAAA
1506576 TTTCAA
1 TTTCAA
1506582 TCTTAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (8 bp):
TTTCAAAA
Found at i:1506869 original size:58 final size:57
Alignment explanation
Indices: 1506778--1506983 Score: 216
Period size: 58 Copynumber: 3.5 Consensus size: 57
1506768 TTGGGGTTCG
* * * *
1506778 AACTTTTTTTTGTTCAAGTTAGGCCATAAACTTGGAAATTGTTCCCACATTAGGGTCTA
1 AACTTTTTTTTATTCAAGTTAGTCC-TGAACTTGGCAATTGTTCCCACATTAGGG-CTA
*
1506837 AAC-TTTTTTTATTCAAGTTAGGTCCTGAACTTGGCAATTGTTCCCACATTGGGGCCTA
1 AACTTTTTTTTATTCAAGTTA-GTCCTGAACTTGGCAATTGTTCCCACATTAGGG-CTA
* * * * *
1506895 AACCTTTTTTTTTTGTTTAAGTTAGACTCTGAATTTGGCAATTGTTCCCACATTAGGGCTTG
1 AA-C--TTTTTTTTATTCAAGTTAGTC-CTGAACTTGGCAATTGTTCCCACATTAGGGC-TA
*
1506957 AACTTTTTTTTAGTCCAAGTTAGTCCT
1 AACTTTTTTTTA-TTCAAGTTAGTCCT
1506984 TGAAAATCCT
Statistics
Matches: 123, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
58 47 0.38
59 17 0.14
60 9 0.07
61 4 0.03
62 46 0.37
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (57 bp):
AACTTTTTTTTATTCAAGTTAGTCCTGAACTTGGCAATTGTTCCCACATTAGGGCTA
Found at i:1506936 original size:62 final size:60
Alignment explanation
Indices: 1506781--1506967 Score: 211
Period size: 62 Copynumber: 3.1 Consensus size: 60
1506771 GGGTTCGAAC
* * *
1506781 TTTTTTTTGTTCAAGTTAGGC-CATAAACTTGGAAATTGTTCCCACATTAGGGTCTAAAC--
1 TTTTTTTTGTTCAAGTTA-GCTC-TGAACTTGGCAATTGTTCCCACATTAGGGCCTAAACTT
* * *
1506840 -TTTTTTTATTCAAGTTAGGTCCTGAACTTGGCAATTGTTCCCACATTGGGGCCTAAACCTT
1 TTTTTTTTGTTCAAGTTAGCT-CTGAACTTGGCAATTGTTCCCACATTAGGGCCTAAA-CTT
* * * *
1506901 TTTTTTTTGTTTAAGTTAGACTCTGAATTTGGCAATTGTTCCCACATTAGGGCTTGAACTT
1 TTTTTTTTGTTCAAGTTAG-CTCTGAACTTGGCAATTGTTCCCACATTAGGGCCTAAACTT
1506962 TTTTTT
1 TTTTTT
1506968 AGTCCAAGTT
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
57 1 0.01
58 47 0.44
59 2 0.02
61 9 0.08
62 48 0.44
63 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (60 bp):
TTTTTTTTGTTCAAGTTAGCTCTGAACTTGGCAATTGTTCCCACATTAGGGCCTAAACTT
Found at i:1509965 original size:3 final size:3
Alignment explanation
Indices: 1509957--1510012 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
1509947 GAATTAGTCC
1509957 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1510005 TAT TAT TA
1 TAT TAT TA
1510013 CTACTACTAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1510528 original size:22 final size:23
Alignment explanation
Indices: 1510475--1510528 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
1510465 AAATATACTT
*
1510475 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
1510498 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
1510520 TATATATAT
1 TATATATAT
1510529 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:1522926 original size:93 final size:96
Alignment explanation
Indices: 1522738--1523337 Score: 954
Period size: 93 Copynumber: 6.4 Consensus size: 96
1522728 AAAACCATAG
1522738 TTGC-ATTTAAAAGATC-AAGCCACAACGGCGAATCTTACTTCAGGCGATGCAGGGACAGATTGA
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCAGGCGATGCAGGGACAGATTGA
1522801 AGCTACAACAGCGAATCTCACTT-CCCGACA
66 AGCTACAACAGCGAATCTCACTTCCCCGACA
1522831 TTGC-ATTTAAAAGATCGAAGCCACAA-GGCGAATC-TACTTC-GGCGATGCAGGGAACAGATTG
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCAGGCGATGCAGGG-ACAGATTG
1522892 AAGCTACAACAGCGAATCTCACTTCCCCGACA
65 AAGCTACAACAGCGAATCTCACTTCCCCGACA
1522924 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCAGGCGATGCAGTGGAACAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCAGGCGATGCAG-GG-ACAGATT
1522989 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
64 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
*
1523022 TTGCAATTTAAAAGATCGAAGCCAC-ACGGCGAATCTTACTTCCGGCGATGCAGGG-CAGA-TGA
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCAGGCGATGCAGGGACAGATTGA
1523084 AGCTACAACAGCGAATCTCACTTCCCCGACA
66 AGCTACAACAGCGAATCTCACTTCCCCGACA
1523115 TTGCAATTTAAAAGATCGAAGCCACAACGG-GAATC-TACTTCA-GCGATGCAGGGACAGATTGA
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCAGGCGATGCAGGGACAGATTGA
1523177 AGCTACAACAG-GAATCTCACTTCCCCGACA
66 AGCTACAACAGCGAATCTCACTTCCCCGACA
* *
1523207 TTGCAA-TT-AAAGATCGAAGCCACAACGG-GAATCTTACTTCTGGCAATGCAGTGGAACAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCAGGCGATGCAG-GG-ACAGATT
* *
1523269 AAAGCTACAACGGCGAATCTCACTTCCCCGACA
64 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
1523302 TTGCAATTT-AAAGATCGACAG-C-CAACGGCG-ATCTTA
1 TTGCAATTTAAAAGATCGA-AGCCACAACGGCGAATCTTA
1523338 TTTCCTCGGC
Statistics
Matches: 482, Mismatches: 6, Indels: 36
0.92 0.01 0.07
Matches are distributed among these distances:
90 25 0.05
91 31 0.06
92 81 0.17
93 115 0.24
94 57 0.12
95 45 0.09
96 21 0.04
97 39 0.08
98 68 0.14
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (96 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCAGGCGATGCAGGGACAGATTGA
AGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:1534236 original size:3 final size:3
Alignment explanation
Indices: 1534228--1534283 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
1534218 GAATTAGTCC
* * * *
1534228 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAC TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1534276 TAT TAT TA
1 TAT TAT TA
1534284 CCTATTTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:1534773 original size:22 final size:23
Alignment explanation
Indices: 1534720--1534773 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
1534710 AAATATACTT
*
1534720 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
1534743 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
1534765 TATATATAT
1 TATATATAT
1534774 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:1539181 original size:17 final size:17
Alignment explanation
Indices: 1539161--1539202 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1539151 ATTCCCCACC
*
1539161 AAATAAAAGTAGAAAGA
1 AAATAAAAGTAGAAAAA
*
1539178 AAAT-AATGTAGAAAAA
1 AAATAAAAGTAGAAAAA
1539194 AAATTAAAA
1 AAA-TAAAA
1539203 TTTAATCCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 13 0.65
17 5 0.25
18 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (17 bp):
AAATAAAAGTAGAAAAA
Found at i:1548185 original size:30 final size:30
Alignment explanation
Indices: 1548155--1548211 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
1548145 AATAAGATAT
1548155 TATTTTTTATA--TTT-AATTTAAATAAAA
1 TATTTTTTATAGTTTTAAATTTAAATAAAA
1548182 TATTTTTTATAGTTTTAAAATTTAAATAAA
1 TATTTTTTATAGTTTT-AAATTTAAATAAA
1548212 CGAAAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 11 0.42
29 3 0.12
31 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TATTTTTTATAGTTTTAAATTTAAATAAAA
Found at i:1548268 original size:10 final size:9
Alignment explanation
Indices: 1548253--1548278 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1548243 TTATGGTTTT
1548253 AAAAAAAGA
1 AAAAAAAGA
1548262 AAAAAAAGA
1 AAAAAAAGA
1548271 AAAAAAAG
1 AAAAAAAG
1548279 TACACTGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:1574380 original size:31 final size:32
Alignment explanation
Indices: 1574342--1574415 Score: 89
Period size: 34 Copynumber: 2.3 Consensus size: 32
1574332 TCTCAATACC
* *
1574342 ATACATGAA-TTATGGTTTAA-TGTGCAATTGT
1 ATACATGAACTT-TGATTTAATTGTGCAATTAT
1574373 ATACATGAACTTTGATTTAATTTTGTGCAATTAT
1 ATACATGAACTTTGATTTAA--TTGTGCAATTAT
1574407 ATACATGAA
1 ATACATGAA
1574416 GTTTTAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 16 0.43
32 2 0.05
34 19 0.51
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (32 bp):
ATACATGAACTTTGATTTAATTGTGCAATTAT
Found at i:1577565 original size:18 final size:18
Alignment explanation
Indices: 1577527--1577565 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1577517 TGTGTGTTCT
* *
1577527 AGTCAAATTAAACATTGA
1 AGTCAAATCAAACATTAA
*
1577545 AGTCAAATCAAATATTAA
1 AGTCAAATCAAACATTAA
1577563 AGT
1 AGT
1577566 ATCAAATAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (18 bp):
AGTCAAATCAAACATTAA
Found at i:1587979 original size:21 final size:20
Alignment explanation
Indices: 1587955--1587993 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1587945 TTAAGTTCAA
1587955 ATTATTTGAATTTAAAATTCG
1 ATTATTT-AATTTAAAATTCG
*
1587976 ATTATTTTATTTAAAATT
1 ATTATTTAATTTAAAATT
1587994 TTAAGATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTATTTAATTTAAAATTCG
Found at i:1588713 original size:2 final size:2
Alignment explanation
Indices: 1588708--1588757 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1588698 GCTAAAATGA
1588708 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1588750 CT CT CT CT
1 CT CT CT CT
1588758 TGTTTGTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1594120 original size:4 final size:4
Alignment explanation
Indices: 1594113--1594137 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1594103 TATCAATCAC
1594113 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
1594138 GAATAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:1597510 original size:25 final size:26
Alignment explanation
Indices: 1597482--1597530 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
1597472 TATGTGTACT
1597482 AGTTT-AATTTAAATTAAAT-AAAATA
1 AGTTTGAATTTAAA-TAAATCAAAATA
1597507 AGTTTGAATTTAAATAAATCAAAA
1 AGTTTGAATTTAAATAAATCAAAA
1597531 ATTAAATACC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (26 bp):
AGTTTGAATTTAAATAAATCAAAATA
Found at i:1601093 original size:37 final size:37
Alignment explanation
Indices: 1601032--1601178 Score: 253
Period size: 37 Copynumber: 4.0 Consensus size: 37
1601022 TACGTATGAT
*
1601032 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
1601067 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1601104 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1601141 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1601178 C
1 C
1601179 GAAGCTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
35 9 0.09
36 4 0.04
37 92 0.88
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:1601220 original size:52 final size:52
Alignment explanation
Indices: 1601141--1601357 Score: 302
Period size: 52 Copynumber: 4.2 Consensus size: 52
1601131 TAAGTGTAGC
* *
1601141 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1601194 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
1601246 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
1601292 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1601344 CACTTTGTCACTTG
1 CACTTT-TCACTTG
1601358 ATCAGAAGTA
Statistics
Matches: 146, Mismatches: 11, Indels: 14
0.85 0.06 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 87 0.60
53 15 0.10
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:1601307 original size:98 final size:98
Alignment explanation
Indices: 1601140--1601363 Score: 385
Period size: 98 Copynumber: 2.3 Consensus size: 98
1601130 ATAAGTGTAG
* * *
1601140 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
1601205 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* *
1601238 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
1601303 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
1601336 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
1601364 AGTACTCAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 118 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:1604542 original size:49 final size:50
Alignment explanation
Indices: 1604487--1604690 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
1604477 TTCGTTTTCT
*
1604487 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
1604536 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
1604585 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
1604643 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
1604691 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:1604657 original size:58 final size:59
Alignment explanation
Indices: 1604571--1604689 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
1604561 TACACGAAAT
1604571 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1604629 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1604688 CA
1 CA
1604690 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:1604670 original size:28 final size:28
Alignment explanation
Indices: 1604580--1604670 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
1604570 TCACATATCA
1604580 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
1604608 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
1604638 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
1604666 CTTAC
1 CTTAC
1604671 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:1606003 original size:37 final size:37
Alignment explanation
Indices: 1605942--1606087 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
1605932 TACGTATGAT
*
1605942 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
1605977 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1606014 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1606051 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1606088 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 4 0.04
37 91 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:1606130 original size:52 final size:52
Alignment explanation
Indices: 1606051--1606319 Score: 388
Period size: 52 Copynumber: 5.2 Consensus size: 52
1606041 TAAGTGTAGC
* * **
1606051 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1606104 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1606156 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
1606208 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
1606254 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1606306 CACTTTGTCACTTG
1 CACTTT-TCACTTG
1606320 ATCAGAAGTA
Statistics
Matches: 196, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
46 43 0.22
49 1 0.01
52 137 0.70
53 15 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:1606238 original size:98 final size:98
Alignment explanation
Indices: 1606051--1606325 Score: 415
Period size: 98 Copynumber: 2.7 Consensus size: 98
1606041 TAAGTGTAGC
* *
1606051 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC---T---TT
*
1606116 GTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
59 GTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
1606156 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
1606221 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
1606254 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
1606319 GATCAGA
66 GATCAGA
1606326 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
98 108 0.68
101 1 0.01
104 42 0.26
105 9 0.06
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:1609362 original size:64 final size:64
Alignment explanation
Indices: 1609236--1609362 Score: 155
Period size: 64 Copynumber: 2.0 Consensus size: 64
1609226 GAGCATCCCA
* * * * * **
1609236 ATCGGTATTAATCCTGCATGCATTGCGGACATACTGCAGCTTTTTTTGAGCGTCCTGTTATATG
1 ATCGGTATTAATCCTGCATGCATTGCGGACATACCGCAGCTCTTTATAAGCATCCTAATATATG
* * * *
1609300 ATCGGTATTGATCTTGCATGTATTGCTGACATACCGCAGCTCTTTATAAGCATCCTAATATAT
1 ATCGGTATTAATCCTGCATGCATTGCGGACATACCGCAGCTCTTTATAAGCATCCTAATATAT
1609363 ATCTCTTCAT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (64 bp):
ATCGGTATTAATCCTGCATGCATTGCGGACATACCGCAGCTCTTTATAAGCATCCTAATATATG
Found at i:1612558 original size:8 final size:8
Alignment explanation
Indices: 1612547--1612574 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1612537 TGTTATATAC
1612547 ATATAATA
1 ATATAATA
1612555 ATATAATA
1 ATATAATA
1612563 ATATAATA
1 ATATAATA
1612571 ATAT
1 ATAT
1612575 TTTTTAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:1623028 original size:10 final size:11
Alignment explanation
Indices: 1623001--1623028 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1622991 TGCAATTAAC
1623001 TGAAAAATTTA
1 TGAAAAATTTA
1623012 TGAAAAATTTA
1 TGAAAAATTTA
1623023 TGAAAA
1 TGAAAA
1623029 GAGATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (11 bp):
TGAAAAATTTA
Found at i:1623494 original size:2 final size:2
Alignment explanation
Indices: 1623487--1623511 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1623477 AATCACATTT
1623487 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
1623512 TTTTGCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Done.