Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 337 of 352
Found at i:108045035 original size:9 final size:10
Alignment explanation
Indices: 108045012--108045037 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
108045002 TATGCTCAAT
108045012 TTTTTCTACA
1 TTTTTCTACA
108045022 TTTTTCTACA
1 TTTTTCTACA
108045032 TTTTTC
1 TTTTTC
108045038 GTACGTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTCTACA
Found at i:108049985 original size:30 final size:30
Alignment explanation
Indices: 108049949--108050005 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
108049939 ATAAAATAAG
108049949 AAGAATAAGATTAATCAACGT-ATATACGTC
1 AAGAATAAGATTAATCAAC-TCATATACGTC
108049979 AAGAATAAGATTAATCAACTCATATAC
1 AAGAATAAGATTAATCAACTCATATAC
108050006 TGATGATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (30 bp):
AAGAATAAGATTAATCAACTCATATACGTC
Found at i:108050569 original size:6 final size:7
Alignment explanation
Indices: 108050548--108050572 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
108050538 ATAATTGTAC
108050548 TTTGTTT
1 TTTGTTT
108050555 TTTGTTT
1 TTTGTTT
108050562 TTTGTTT
1 TTTGTTT
108050569 TTTG
1 TTTG
108050573 GAGTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (7 bp):
TTTGTTT
Found at i:108051559 original size:37 final size:37
Alignment explanation
Indices: 108051504--108051577 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
108051494 CGAATTGTGC
108051504 CTATAATATTTTGGTTGACCTAATGAAAGGTTTTCCT
1 CTATAATATTTTGGTTGACCTAATGAAAGGTTTTCCT
*
108051541 CTATGATATTTTGGTTGACCTAATGAAAGGTTTTCCT
1 CTATAATATTTTGGTTGACCTAATGAAAGGTTTTCCT
108051578 ATTGGTGTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.43
Consensus pattern (37 bp):
CTATAATATTTTGGTTGACCTAATGAAAGGTTTTCCT
Found at i:108053503 original size:21 final size:21
Alignment explanation
Indices: 108053479--108053526 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
108053469 GTATAATTAT
*
108053479 TTTAATAAATA-CATATTAAAA
1 TTTAATAAACATC-TATTAAAA
108053500 TTTAATAAACATCTATTAAAA
1 TTTAATAAACATCTATTAAAA
*
108053521 TATAAT
1 TTTAAT
108053527 TAAAACCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAATAAACATCTATTAAAA
Found at i:108057847 original size:10 final size:10
Alignment explanation
Indices: 108057832--108057856 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
108057822 AGAAATTGGC
108057832 GAGAGAGAGG
1 GAGAGAGAGG
108057842 GAGAGAGAGG
1 GAGAGAGAGG
108057852 GAGAG
1 GAGAG
108057857 CTAAACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (10 bp):
GAGAGAGAGG
Found at i:108059051 original size:16 final size:17
Alignment explanation
Indices: 108059019--108059051 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
108059009 AAATAATTGT
*
108059019 AATAATTATACATTTAA
1 AATAATTATAAATTTAA
108059036 AATAATT-TAAATTTAA
1 AATAATTATAAATTTAA
108059052 TTTACAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAATTATAAATTTAA
Found at i:108060276 original size:15 final size:16
Alignment explanation
Indices: 108060256--108060286 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108060246 ACCTTGTTTG
108060256 ATAAATC-ATTAAAAA
1 ATAAATCAATTAAAAA
108060271 ATAAATCAATTAAAAA
1 ATAAATCAATTAAAAA
108060287 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAATCAATTAAAAA
Found at i:108060309 original size:17 final size:18
Alignment explanation
Indices: 108060287--108060327 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
108060277 CAATTAAAAA
* *
108060287 TTAATATTTTTAGTA-AT
1 TTAATATTTTAAGCACAT
108060304 TTAATATTTTAAGCACAT
1 TTAATATTTTAAGCACAT
108060322 TTAATA
1 TTAATA
108060328 ATCTATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (18 bp):
TTAATATTTTAAGCACAT
Found at i:108070804 original size:100 final size:100
Alignment explanation
Indices: 108070631--108070831 Score: 305
Period size: 100 Copynumber: 2.0 Consensus size: 100
108070621 AAATAACGTG
* * * *
108070631 TAAGACAAATATTGTAATGTCAACATAAATTATAAGTGGATTGTCATGCGAGTTGCAACATCAAC
1 TAAGACAAATAATGTAATGTCAACATAAATTATAAGTGAATTATCATGCAAGTTGCAACATCAAC
108070696 ATCGTTAAAAATAATAATATTATTAATATTTTTGT
66 ATCGTTAAAAATAATAATATTATTAATATTTTTGT
* * * *
108070731 TAAGACAAATAATGTAACT-TCAACGTGAATTATACGTGAATTATTATGCAAGTTGCAACATCAA
1 TAAGACAAATAATGTAA-TGTCAACATAAATTATAAGTGAATTATCATGCAAGTTGCAACATCAA
*
108070795 TATCGTTAAAAATAATAATATTATTAATATTTTTGT
65 CATCGTTAAAAATAATAATATTATTAATATTTTTGT
108070831 T
1 T
108070832 TAAAAACAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 90 0.99
101 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (100 bp):
TAAGACAAATAATGTAATGTCAACATAAATTATAAGTGAATTATCATGCAAGTTGCAACATCAAC
ATCGTTAAAAATAATAATATTATTAATATTTTTGT
Found at i:108070902 original size:15 final size:16
Alignment explanation
Indices: 108070882--108070911 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108070872 TTGAATTAAA
108070882 AATAAAAAT-TAAATT
1 AATAAAAATGTAAATT
108070897 AATAAAAATGTAAAT
1 AATAAAAATGTAAAT
108070912 ATGAAGAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AATAAAAATGTAAATT
Found at i:108073830 original size:21 final size:20
Alignment explanation
Indices: 108073806--108073847 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
108073796 TAATGGCACA
*
108073806 TCAGTAATTTTATTCTGAATT
1 TCAGGAATTTTATT-TGAATT
*
108073827 TCAGGATTTTTATTTGAATT
1 TCAGGAATTTTATTTGAATT
108073847 T
1 T
108073848 AATTCTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (20 bp):
TCAGGAATTTTATTTGAATT
Found at i:108077344 original size:3 final size:3
Alignment explanation
Indices: 108077220--108077326 Score: 58
Period size: 3 Copynumber: 35.0 Consensus size: 3
108077210 TAATTTAATC
* * * *
108077220 TAT TAT TAT TATT TAT TA- TAG TAC TAT TAT TAT CT-T CTGT TAT CAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT
* * ** **
108077266 TAC TAT TAT TAT TCT TGC TAT TATT TAT TAT CGT TAT TAT TAT TCA-
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT
108077312 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
108077327 GTTTTACCAT
Statistics
Matches: 81, Mismatches: 16, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
2 3 0.04
3 69 0.85
4 9 0.11
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:108077356 original size:17 final size:18
Alignment explanation
Indices: 108077299--108077358 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
108077289 TTTATTATCG
**
108077299 TTATTATTAT-TCATATT
1 TTATTATTATGTTTTATT
*
108077316 ATTATTATTATGTTTTACCAT
1 -TTATTATTATGTTTTA--TT
108077337 TTATTATT-TGTTTTATT
1 TTATTATTATGTTTTATT
108077354 TTATT
1 TTATT
108077359 TTCAATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.17
18 10 0.29
19 10 0.29
20 8 0.23
21 1 0.03
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATTATTATGTTTTATT
Found at i:108077528 original size:3 final size:3
Alignment explanation
Indices: 108077504--108077612 Score: 62
Period size: 3 Copynumber: 36.7 Consensus size: 3
108077494 TCAAATTTTA
* * *
108077504 TAT TAT GAT TAT T-T TAAT TAT TAT TAT TAT TAT TAT TAG TAC TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
108077549 CT-T TAT TAC TAT TAT TTT TAT TAC TAT CAC TAT TAC TAC TAC TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
108077594 TAC TA- TAT TGT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
108077613 CTATCATATT
Statistics
Matches: 81, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
2 5 0.06
3 73 0.90
4 3 0.04
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:108077582 original size:27 final size:27
Alignment explanation
Indices: 108077525--108077595 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
108077515 TTTTAATTAT
* **
108077525 TATTATTATTATTATTAGTACTATCTT
1 TATTACTATTATTATTAGTACTATCAC
* *
108077552 TATTACTATTATTTTTATTACTATCAC
1 TATTACTATTATTATTAGTACTATCAC
* *
108077579 TATTACTACTACTATTA
1 TATTACTATTATTATTA
108077596 CTATATTGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.01, T:0.55
Consensus pattern (27 bp):
TATTACTATTATTATTAGTACTATCAC
Found at i:108077613 original size:17 final size:16
Alignment explanation
Indices: 108077591--108077644 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
108077581 TTACTACTAC
*
108077591 TATTACTATATTGTTAT
1 TATTACTATA-TATTAT
108077608 TATTACTATCATATTAT
1 TATTACTAT-ATATTAT
* *
108077625 CATTACTATACTATTTT
1 TATTACTATA-TATTAT
108077642 TAT
1 TAT
108077645 CTATTACTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 29 0.94
18 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (16 bp):
TATTACTATATATTAT
Found at i:108078939 original size:3 final size:3
Alignment explanation
Indices: 108078931--108078966 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
108078921 ATGTTTGCAA
108078931 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
108078967 GTGCATTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:108088417 original size:21 final size:22
Alignment explanation
Indices: 108088393--108088443 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
108088383 TTAAAAACGT
108088393 TTTAATTATTATTATTTTT-TA
1 TTTAATTATTATTATTTTTATA
**
108088414 TTTAAAAATTATTATTTTTATA
1 TTTAATTATTATTATTTTTATA
108088436 TTTAATTA
1 TTTAATTA
108088444 ATAAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTAATTATTATTATTTTTATA
Found at i:108088434 original size:27 final size:27
Alignment explanation
Indices: 108088396--108088451 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 27
108088386 AAAACGTTTT
*
108088396 AATTATTATTATT-T-TTTATTTAA-A
1 AATTATTATTATTATATTTAATTAATA
*
108088420 AATTATTATTTTTATATTTAATTAATA
1 AATTATTATTATTATATTTAATTAATA
108088447 AATTA
1 AATTA
108088452 AAAAAATCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 1 0.04
26 8 0.30
27 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
AATTATTATTATTATATTTAATTAATA
Found at i:108089194 original size:18 final size:19
Alignment explanation
Indices: 108089173--108089210 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
108089163 TTTAATAATT
*
108089173 TTTAAATATTTTA-TAAAA
1 TTTAAACATTTTATTAAAA
108089191 TTTAAACATTTTATTAAAA
1 TTTAAACATTTTATTAAAA
108089210 T
1 T
108089211 AACATCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAACATTTTATTAAAA
Found at i:108089866 original size:29 final size:27
Alignment explanation
Indices: 108089834--108089892 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
108089824 TAAATACAAA
*
108089834 AATTAAATCAAAATCAAAATTATATATAT
1 AATTAAACCAAAAT-AAAATTA-ATATAT
* *
108089863 AATTACACCAAAATAAAATTAATATCT
1 AATTAAACCAAAATAAAATTAATATAT
108089890 AAT
1 AAT
108089893 ATTACGTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 8 0.30
28 7 0.26
29 12 0.44
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (27 bp):
AATTAAACCAAAATAAAATTAATATAT
Found at i:108094028 original size:18 final size:18
Alignment explanation
Indices: 108093993--108094028 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
108093983 CATTTTCCTT
* *
108093993 CATTTGTTTAATGGAAAA
1 CATTTGATTAATGAAAAA
108094011 CATTTGATTAATGAAAAA
1 CATTTGATTAATGAAAAA
108094029 TGGTTTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (18 bp):
CATTTGATTAATGAAAAA
Found at i:108094362 original size:14 final size:14
Alignment explanation
Indices: 108094345--108094374 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
108094335 TATACATTAC
*
108094345 TAATTATAAATATT
1 TAATAATAAATATT
108094359 TAATAATAAATATT
1 TAATAATAAATATT
108094373 TA
1 TA
108094375 TACTATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATAATAAATATT
Found at i:108103653 original size:20 final size:20
Alignment explanation
Indices: 108103627--108103671 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
108103617 AATATCACAA
*
108103627 TATTATAT-TATTTTATTAT
1 TATTATATATATTTTAATAT
108103646 TGATTATATATATTTTAATAT
1 T-ATTATATATATTTTAATAT
108103667 TATTA
1 TATTA
108103672 ATTTTACAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 11 0.48
21 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTATATATATTTTAATAT
Found at i:108104222 original size:41 final size:41
Alignment explanation
Indices: 108104177--108104258 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
108104167 ACTTTAGTCC
*
108104177 TAATTTTAAGTAAATCAATAAATATATAAAATTGTTCAATT
1 TAATTTTAAGTAAATCAATAAACATATAAAATTGTTCAATT
108104218 TAATTTTAAGTAAATCAATAAACATATAAAATTGTTCAATT
1 TAATTTTAAGTAAATCAATAAACATATAAAATTGTTCAATT
108104259 GGATAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (41 bp):
TAATTTTAAGTAAATCAATAAACATATAAAATTGTTCAATT
Found at i:108105399 original size:17 final size:18
Alignment explanation
Indices: 108105379--108105418 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
108105369 TTTGCATGTG
108105379 AAATTTAA-ATATTT-ATT
1 AAATTTAATAT-TTTAATT
108105396 AAA-TTAATATTTTAATT
1 AAATTTAATATTTTAATT
108105413 AAATTT
1 AAATTT
108105419 TTTTATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.35
17 11 0.55
18 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATTTAATATTTTAATT
Found at i:108124252 original size:130 final size:129
Alignment explanation
Indices: 108123897--108124241 Score: 383
Period size: 130 Copynumber: 2.7 Consensus size: 129
108123887 ATGTTCAGCG
* * *
108123897 ATTCGCGTAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCG-TTCGCTCAAAATAATCGAATT
1 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGATT-GTTCAAAATAATCGAATA
* * * * * * ** * *
108123961 TCCCTTTGAAATTTCATTCATATCTTTTAAAATCCCTTAAATGAAGATGAGATTTGATGTTTGGC
65 TCCCTTTAAAATTTCACTCA-GTCTTTTAAAATCTCTAAAACGAAGGCGAGATGTGATATTTGGC
108124026 A
129 A
* *
108124027 ATTCGCGGAATTGTGCCTTAACGTGTTGGGTTGCAATTTCGC-ATTTGTTCAAAATAATCGAATA
1 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGA-TTGTTCAAAATAATCGAATA
** *
108124091 TCATTTTAAAATTTTGCACGT--GTCTTTTAAAATCTCTAAAACGAAGGCGATATGTGATATTTG
65 TCCCTTTAAAA-TTT-CAC-TCAGTCTTTTAAAATCTCTAAAACGAAGGCGAGATGTGATATTTG
108124154 GCA
127 GCA
* * * * * *
108124157 ATTCGCGGGATCGTGCCCTAACGTGTTGGGTAGCAATTCCCCGATTGTTTAAAATAATCAAATAT
1 ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGATTGTTCAAAATAATCGAATAT
*
108124222 CCCTTCAAAATTTCACTCAG
66 CCCTTTAAAATTTCACTCAG
108124242 CCCCTCTAAA
Statistics
Matches: 178, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
127 1 0.01
128 3 0.02
129 4 0.02
130 161 0.90
131 6 0.03
132 2 0.01
133 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (129 bp):
ATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGATTGTTCAAAATAATCGAATAT
CCCTTTAAAATTTCACTCAGTCTTTTAAAATCTCTAAAACGAAGGCGAGATGTGATATTTGGCA
Found at i:108126824 original size:162 final size:161
Alignment explanation
Indices: 108126339--108126825 Score: 636
Period size: 163 Copynumber: 3.0 Consensus size: 161
108126329 ATTGAGTCGA
* * * *
108126339 GGCAAGGTGGATTTTATCTAAAACCGCCCCCAA-TATGCCCTGAAAATTTCAGCCAAGCAACTAA
1 GGCAAGGTGGATTTTATCTAGAACCGCCCCCAACT-TGCCCTGAAAATTTCAGCTAAGAAACCAA
* * * **
108126403 CATGCCTAGCCTCTGAACTTGATTGTCAGATAAAAGAAAGACCCATAAGGTGAGGTTGAAACCTG
65 CATGCCTAGCCTCCGAACTTGATTGTCAGATAAAAGAAAGACCTATAGGGTGAGGTTGAAACCCA
* * *
108126468 AAAAGTTGGGTTATTTTTCCTCATATATGTTCGG
130 AAAAGTT-CGTT-TTTTTCCCCATATAAGTTCGG
* * * *
108126502 GGCAATGTGGATTTTATCTAGAACCACTCCCAACCTGCCCTGAAAATTTCAGCTAAGAAACCAAC
1 GGCAAGGTGGATTTTATCTAGAACCGCCCCCAACTTGCCCTGAAAATTTCAGCTAAGAAACCAAC
* *
108126567 ATGCCTAGCCTCCGAACTCGATTGTCAGATAAAAGAAAGCCCTATAGGGTGAGGTTGAAACCCAA
66 ATGCCTAGCCTCCGAACTTGATTGTCAGATAAAAGAAAGACCTATAGGGTGAGGTTGAAACCCAA
* * *
108126632 AAAGTTCGCTTGTTTCTCCCATATAAGTTCGT
131 AAAGTTCGTTTTTTTC-CCCATATAAGTTCGG
* * *
108126664 GGCAAGGTGGATTTTATCTAGAACTGCCCCACAACTTGCCCCGAAAATTTCAGATAAGAAACCAA
1 GGCAAGGTGGATTTTATCTAGAACCGCCCC-CAACTTGCCCTGAAAATTTCAGCTAAGAAACCAA
* * *
108126729 CATGCCTAGCCTCCGAACTTGATTGTGAGATAAAA-AAAGACATATAGGGGGAGGTTGAAACCCA
65 CATGCCTAGCCTCCGAACTTGATTGTCAGATAAAAGAAAGACCTATAGGGTGAGGTTGAAACCCA
* **
108126793 AAAATTTCAGTTTTTTTCCCCATGCAAGTTCGG
130 AAAAGTTC-GTTTTTTTCCCCATATAAGTTCGG
108126826 TTGAAACTCG
Statistics
Matches: 281, Mismatches: 39, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
161 5 0.02
162 85 0.30
163 191 0.68
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (161 bp):
GGCAAGGTGGATTTTATCTAGAACCGCCCCCAACTTGCCCTGAAAATTTCAGCTAAGAAACCAAC
ATGCCTAGCCTCCGAACTTGATTGTCAGATAAAAGAAAGACCTATAGGGTGAGGTTGAAACCCAA
AAAGTTCGTTTTTTTCCCCATATAAGTTCGG
Found at i:108127374 original size:29 final size:29
Alignment explanation
Indices: 108127332--108127389 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
108127322 AAACAAAAGA
108127332 AAGTCAAATTATTGCCCAGATTGTTCGTT
1 AAGTCAAATTATTGCCCAGATTGTTCGTT
108127361 AAGTCAAATTATTGCCCAGATTGTTCGTT
1 AAGTCAAATTATTGCCCAGATTGTTCGTT
108127390 GTTGTTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (29 bp):
AAGTCAAATTATTGCCCAGATTGTTCGTT
Found at i:108128413 original size:14 final size:15
Alignment explanation
Indices: 108128361--108128411 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
108128351 ATAAAACGTT
108128361 AATATAAATAATTAA
1 AATATAAATAATTAA
* *
108128376 AATAT-AATACTTTA
1 AATATAAATAATTAA
108128390 AATATAAATAATTAA
1 AATATAAATAATTAA
108128405 AATATAA
1 AATATAA
108128412 TATGAGATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
AATATAAATAATTAA
Found at i:108129789 original size:17 final size:17
Alignment explanation
Indices: 108129761--108129794 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
108129751 TTCATTTTTC
108129761 TTAAAAAAAA-TTAGTA
1 TTAAAAAAAATTTAGTA
108129777 TTAAAACAAAATTTAGTA
1 TTAAAA-AAAATTTAGTA
108129795 CAAATGATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 4 0.25
18 6 0.38
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (17 bp):
TTAAAAAAAATTTAGTA
Found at i:108130551 original size:21 final size:21
Alignment explanation
Indices: 108130527--108130578 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
108130517 CGATTAACTG
*
108130527 AATTAACTCAACTTTATCCAA
1 AATTAACACAACTTTATCCAA
* * *
108130548 AATTTACACAACTTTTTCCGA
1 AATTAACACAACTTTATCCAA
*
108130569 AATTTACACA
1 AATTAACACA
108130579 CCCCTAACGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (21 bp):
AATTAACACAACTTTATCCAA
Found at i:108137556 original size:4 final size:4
Alignment explanation
Indices: 108137534--108137573 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
108137524 TGTGTCAAAC
108137534 ATAA AT-A AT-A AT-A AT-A ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
108137574 TATTTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 12 0.34
4 23 0.66
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAA
Found at i:108137564 original size:12 final size:11
Alignment explanation
Indices: 108137534--108137575 Score: 61
Period size: 12 Copynumber: 3.9 Consensus size: 11
108137524 TGTGTCAAAC
108137534 ATAAATAAT-A
1 ATAAATAATAA
108137544 AT-AATAATAA
1 ATAAATAATAA
108137554 ATAAATAAATAA
1 ATAAAT-AATAA
108137566 ATAAATAATA
1 ATAAATAATA
108137576 TTTATTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 6 0.21
10 5 0.17
11 7 0.24
12 11 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAAATAATAA
Found at i:108137897 original size:28 final size:28
Alignment explanation
Indices: 108137839--108137908 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
108137829 TATTTAAATG
** *
108137839 TTTAATTTTTATTTTTCTCATAATTTAA
1 TTTAATTTTTATTTTAATCATAATATAA
*
108137867 TTTAATTTTTATTTTAAT-ATAGTATATA
1 TTTAATTTTTATTTTAATCATAATATA-A
*
108137895 TTTTATTTATTATT
1 TTTAATTT-TTATT
108137909 AATTAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 6 0.17
28 24 0.69
29 5 0.14
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (28 bp):
TTTAATTTTTATTTTAATCATAATATAA
Found at i:108151542 original size:32 final size:32
Alignment explanation
Indices: 108151506--108151571 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
108151496 TTACGAGAGT
*
108151506 GAACATTTCATAATTTCATTCTAATCAAGTCA
1 GAACATTTCATAATATCATTCTAATCAAGTCA
*
108151538 GAACATTTGATAATATCATTCTAATCAAGTCA
1 GAACATTTCATAATATCATTCTAATCAAGTCA
108151570 GA
1 GA
108151572 GGAAAATTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (32 bp):
GAACATTTCATAATATCATTCTAATCAAGTCA
Found at i:108155076 original size:16 final size:16
Alignment explanation
Indices: 108155055--108155122 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
108155045 TTTGGTTCGC
*
108155055 TGTATTGGATTAGAGG
1 TGTATTGGAATAGAGG
108155071 TGTATTGGAATAGAGG
1 TGTATTGGAATAGAGG
*
108155087 TGTATTGGATTAGAGG
1 TGTATTGGAATAGAGG
108155103 TGTATTGGAATAGAGG
1 TGTATTGGAATAGAGG
108155119 TGTA
1 TGTA
108155123 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGAATAGAGG
Found at i:108155094 original size:32 final size:32
Alignment explanation
Indices: 108155055--108155122 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
108155045 TTTGGTTCGC
108155055 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
1 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
108155087 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
1 TGTATTGGATTAGAGGTGTATTGGAATAGAGG
108155119 TGTA
1 TGTA
108155123 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGAATAGAGG
Found at i:108155162 original size:45 final size:41
Alignment explanation
Indices: 108155103--108155212 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
108155093 GGATTAGAGG
*
108155103 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
108155145 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
108155188 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
108155213 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:108155385 original size:14 final size:15
Alignment explanation
Indices: 108155346--108155387 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
108155336 TTTTAACATA
*
108155346 ATTATTATTAAATAT
1 ATTATAATTAAATAT
108155361 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
108155375 A-TATAATTTAATA
1 ATTATAATTAAATA
108155388 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:108155697 original size:24 final size:27
Alignment explanation
Indices: 108155646--108155698 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
108155636 TATATGTAAT
*
108155646 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
108155673 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
108155697 AT
1 AT
108155699 GCAGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:108163793 original size:26 final size:25
Alignment explanation
Indices: 108163743--108163808 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
108163733 AACATACTTC
*
108163743 TAATTATTTTTATTTCATTAATTATA
1 TAATTATTTTTA-TTAATTAATTATA
* * *
108163769 TATTTATTTTTATTAATTAGTTTATT
1 TAATTATTTTTATTAATTA-ATTATA
*
108163795 TAATTATTATTATT
1 TAATTATTTTTATT
108163809 TAAAGATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 6 0.18
26 27 0.82
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TAATTATTTTTATTAATTAATTATA
Found at i:108163845 original size:21 final size:22
Alignment explanation
Indices: 108163799--108163848 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
108163789 TTTATTTAAT
*
108163799 TATTA-TTATTTAAAGATATAA
1 TATTATTTATTTAAAAATATAA
* *
108163820 GATTATTTATTTAAAAATGT-A
1 TATTATTTATTTAAAAATATAA
108163841 TATTATTT
1 TATTATTT
108163849 TATGTAATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (22 bp):
TATTATTTATTTAAAAATATAA
Found at i:108163850 original size:22 final size:23
Alignment explanation
Indices: 108163797--108163851 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
108163787 AGTTTATTTA
*
108163797 ATTATTATTATTTAAAGATATAAG
1 ATTATT-TTATTTAAAAATATAAG
* *
108163821 ATTA-TTTATTTAAAAATGT-AT
1 ATTATTTTATTTAAAAATATAAG
108163842 ATTATTTTAT
1 ATTATTTTAT
108163852 GTAATGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 5 0.19
22 17 0.63
23 1 0.04
24 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (23 bp):
ATTATTTTATTTAAAAATATAAG
Found at i:108164872 original size:18 final size:17
Alignment explanation
Indices: 108164839--108164872 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
108164829 AAAAGAAAGT
*
108164839 AAAAGAAAGAAGAACAG
1 AAAAGAAACAAGAACAG
108164856 AAAAGAAACAGAGAACA
1 AAAAGAAACA-AGAACA
108164873 AAACGAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.71, C:0.09, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAGAAACAAGAACAG
Found at i:108165324 original size:17 final size:17
Alignment explanation
Indices: 108165288--108165321 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
108165278 TAAAAGAGTT
*
108165288 AATTAGGATTAAATTGG
1 AATTAGGAATAAATTGG
108165305 AATTAAGGAATAAATTG
1 AATT-AGGAATAAATTG
108165322 AATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (17 bp):
AATTAGGAATAAATTGG
Found at i:108165863 original size:27 final size:27
Alignment explanation
Indices: 108165823--108165902 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 27
108165813 ATGCCTTATT
* *
108165823 GGTGTATTTGGGAGGATATGA-TATACC
1 GGTGTGTTTAGGAGGATAT-ATTATACC
* *
108165850 GGTGTGTTTAGGAGGCTATATTATACT
1 GGTGTGTTTAGGAGGATATATTATACC
108165877 GGTGTG-TTATGGAGGATTTATATTAT
1 GGTGTGTTTA-GGAGGA--TATATTAT
108165903 TCTGGGTGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.09
27 32 0.73
29 8 0.18
ACGTcount: A:0.24, C:0.05, G:0.31, T:0.40
Consensus pattern (27 bp):
GGTGTGTTTAGGAGGATATATTATACC
Found at i:108166866 original size:20 final size:19
Alignment explanation
Indices: 108166829--108166867 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
108166819 TATATAGCTG
*
108166829 ATTAACTACTTTAACAACT
1 ATTAACTACTTGAACAACT
*
108166848 ATTAACTGACTTGACCAACT
1 ATTAACT-ACTTGAACAACT
108166868 TACTAACCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTAACTACTTGAACAACT
Found at i:108171419 original size:20 final size:19
Alignment explanation
Indices: 108171382--108171420 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
108171372 TATATAGCTA
*
108171382 ATTAACTACTTTAACAACT
1 ATTAACTACTTGAACAACT
*
108171401 ATTAACTGACTTGACCAACT
1 ATTAACT-ACTTGAACAACT
108171421 TACTAACCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTAACTACTTGAACAACT
Found at i:108173394 original size:25 final size:25
Alignment explanation
Indices: 108173282--108173380 Score: 146
Period size: 25 Copynumber: 3.9 Consensus size: 25
108173272 TGAGCTTTCC
* *
108173282 AATGTGCAAGCAGCAAG-TTCAGCAAA
1 AATGTGTAAGCTGCAAGCTT-AGC-AA
*
108173308 AATGTCTAAGCTGCAAGCTTAGCAA
1 AATGTGTAAGCTGCAAGCTTAGCAA
108173333 AATGTGTAAGCTGCAAGCTTAGCAA
1 AATGTGTAAGCTGCAAGCTTAGCAA
108173358 AATGTGTAAGCTGCAAGCTTAGC
1 AATGTGTAAGCTGCAAGCTTAGC
108173381 GAGAAGTGAG
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
25 49 0.72
26 17 0.25
27 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (25 bp):
AATGTGTAAGCTGCAAGCTTAGCAA
Found at i:108175716 original size:51 final size:51
Alignment explanation
Indices: 108175617--108175717 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
108175607 GGTATGTATA
* * ** *
108175617 TAAAGGGATTACATCATTTTCGGTCAGATAAGGTGGTTTGAACCGACTTTG
1 TAAAGGGATTACACCAGTTTCGGTCAGATAAGGTAATTTGAACAGACTTTG
* * * *
108175668 TAAAGGGATTACACCAGTTTCGGTGAGATAAGTTAATTTTAATAGACTTT
1 TAAAGGGATTACACCAGTTTCGGTCAGATAAGGTAATTTGAACAGACTTT
108175718 TATGCATTCC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (51 bp):
TAAAGGGATTACACCAGTTTCGGTCAGATAAGGTAATTTGAACAGACTTTG
Found at i:108176663 original size:21 final size:21
Alignment explanation
Indices: 108176634--108176673 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
108176624 TTTGATTTTT
108176634 TTCAAGATGAAAATACTGAAA
1 TTCAAGATGAAAATACTGAAA
* * *
108176655 TTCAGGATGAGAATGCTGA
1 TTCAAGATGAAAATACTGA
108176674 TATGGCATAA
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:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (21 bp):
TTCAAGATGAAAATACTGAAA
Found at i:108176895 original size:2 final size:2
Alignment explanation
Indices: 108176888--108176918 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
108176878 ATGTAAATGA
108176888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108176919 ATGAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108182671 original size:15 final size:15
Alignment explanation
Indices: 108182651--108182728 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
108182641 TTTATGGAAA
108182651 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
108182666 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
108182680 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* ***
108182696 ATCAAATAT-TGAAA
1 ATCAAAGATATGGGT
108182710 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
108182726 ATC
1 ATC
108182729 GAGATATTGG
Statistics
Matches: 43, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
14 7 0.16
15 29 0.67
16 7 0.16
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:108182688 original size:30 final size:29
Alignment explanation
Indices: 108182647--108182728 Score: 128
Period size: 30 Copynumber: 2.8 Consensus size: 29
108182637 CATATTTATG
*
108182647 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAAT-ATA
*
108182677 GAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAGTCAAAGATATGGGTATCAAATATA
108182706 GAAAAGTCAAAGATATGGGTATC
1 G-AAAGTCAAAGATATGGGTATC
108182729 GAGATATTGG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 3 0.06
30 46 0.94
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (29 bp):
GAAAGTCAAAGATATGGGTATCAAATATA
Found at i:108187325 original size:15 final size:15
Alignment explanation
Indices: 108187305--108187412 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
108187295 TTTATGGAAA
108187305 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
108187320 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
108187334 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
108187350 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
*
108187364 AGTCAAAAATATGGGT
1 A-TCAAAGATATGGGT
* **
108187380 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
108187394 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
108187410 ATC
1 ATC
108187413 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:108187334 original size:30 final size:30
Alignment explanation
Indices: 108187298--108187412 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
108187288 ATCCATATTT
*
108187298 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
108187328 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
108187358 TTGGAAAGTCAAAAATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
108187388 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
108187413 GAGATATTGG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:108187375 original size:17 final size:17
Alignment explanation
Indices: 108187353--108187405 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
108187343 TATGGGTATC
108187353 AAATATTGGAAAGTCAA
1 AAATATTGGAAAGTCAA
**
108187370 AAATA-TGGGTA-TC--
1 AAATATTGGAAAGTCAA
108187383 AAATATTGGAAAGTCAA
1 AAATATTGGAAAGTCAA
*
108187400 AGATAT
1 AAATAT
108187406 GGGTATCGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 5 0.19
14 4 0.15
15 4 0.15
16 4 0.15
17 10 0.37
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (17 bp):
AAATATTGGAAAGTCAA
Found at i:108188532 original size:15 final size:16
Alignment explanation
Indices: 108188512--108188541 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108188502 TAACTAATGT
108188512 AAAATAAT-GTTATTC
1 AAAATAATAGTTATTC
108188527 AAAATAATAGTTATT
1 AAAATAATAGTTATT
108188542 TAACATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (16 bp):
AAAATAATAGTTATTC
Found at i:108189544 original size:31 final size:31
Alignment explanation
Indices: 108189509--108189575 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
108189499 CTTCCTGCAT
* *
108189509 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
108189540 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
108189571 TAAAA
1 TAAAA
108189576 AATACAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:108189859 original size:21 final size:21
Alignment explanation
Indices: 108189835--108189880 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
108189825 GCTCGTGCCT
*
108189835 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
108189856 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
108189877 CTGC
1 CTGC
108189881 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:108195529 original size:9 final size:9
Alignment explanation
Indices: 108195515--108195740 Score: 125
Period size: 9 Copynumber: 24.6 Consensus size: 9
108195505 TATTTAAGTA
108195515 TTATGTAAG
1 TTATGTAAG
*
108195524 TTATGTAAT
1 TTATGTAAG
*
108195533 TTATGATATG
1 TTATG-TAAG
* * *
108195543 ATATAT-AT
1 TTATGTAAG
*
108195551 TTATGTAAA
1 TTATGTAAG
* *
108195560 TTATAT-AT
1 TTATGTAAG
*
108195568 TTATCTAAG
1 TTATGTAAG
*
108195577 TTATATAAG
1 TTATGTAAG
108195586 TTATGTAAG
1 TTATGTAAG
*
108195595 TTATGTAAA
1 TTATGTAAG
*
108195604 TTATGATATAAAA
1 TTATG---T-AAG
*
108195617 TATATTTAAG
1 T-TATGTAAG
* *
108195627 TATTTTATAAG
1 --TTATGTAAG
108195638 TTATGTAAG
1 TTATGTAAG
* *
108195647 TTATAT-AT
1 TTATGTAAG
*
108195655 TTATCTAAG
1 TTATGTAAG
*
108195664 TTATATAAG
1 TTATGTAAG
*
108195673 TTATATAAG
1 TTATGTAAG
*
108195682 TTATGTATG
1 TTATGTAAG
*
108195691 TTATATAAG
1 TTATGTAAG
108195700 TTATGTAAG
1 TTATGTAAG
* *
108195709 TTATATATG
1 TTATGTAAG
*
108195718 TTATATAAG
1 TTATGTAAG
*
108195727 TTATGTAAA
1 TTATGTAAG
108195736 TTATG
1 TTATG
108195741 ATATCAAATA
Statistics
Matches: 168, Mismatches: 38, Indels: 22
0.74 0.17 0.10
Matches are distributed among these distances:
8 16 0.10
9 129 0.77
10 7 0.04
11 7 0.04
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:108195594 original size:18 final size:18
Alignment explanation
Indices: 108195515--108195739 Score: 151
Period size: 18 Copynumber: 12.7 Consensus size: 18
108195505 TATTTAAGTA
* *
108195515 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
108195533 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
108195551 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
108195568 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
108195586 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
*
108195604 TTATG--A--TATA-AAA
1 TTATGTAAGTTATATAAG
* *
108195617 TATATTTAAGTATTTTATAAG
1 T-TATGTAAG--TTATATAAG
*
108195638 TTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAG
*
108195655 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* * *
108195673 TTATATAAGTTATGTATG
1 TTATGTAAGTTATATAAG
* *
108195691 TTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
* *
108195709 TTATATATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
108195727 TTATGTAAATTAT
1 TTATGTAAGTTAT
108195740 GATATCAAAT
Statistics
Matches: 166, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
13 4 0.02
14 6 0.04
16 2 0.01
17 37 0.22
18 97 0.58
19 7 0.04
20 10 0.06
21 3 0.02
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:108195625 original size:114 final size:114
Alignment explanation
Indices: 108195491--108195712 Score: 295
Period size: 114 Copynumber: 1.9 Consensus size: 114
108195481 ACTAGTTATG
* * * * *
108195491 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATATAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
108195555 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* * *
108195605 TATGATATAAAATATATTTAAGTATTTTATAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATATAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
108195670 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
108195713 ATATGTTATA
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 71 0.76
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATATAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:108195779 original size:123 final size:123
Alignment explanation
Indices: 108195491--108195779 Score: 266
Period size: 123 Copynumber: 2.3 Consensus size: 123
108195481 ACTAGTTATG
* * * * * * * *
108195491 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATATATTTATG
1 TATGATATCAAATATATTTATGTATTATGTAAGTT-TTTTATTTATGATAAGATATATAGTTATA
* * *
108195556 TAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAA
65 TAAATTATATATTTATATAAGTTATATAAGTTATATAAGTTATATAAATTATGATATAA
* * * * * * * *
108195615 AAT-ATATTTAAGTAT-TTTAT-AAGTTATGTAAGTTATATATTTAT-CTAAGTTATATAAGTTA
1 TATGATA-TCAAATATATTTATGTA-TTATGTAAGTTTTTTATTTATGATAAGATATAT-AGTTA
* * * * *
108195676 TATAAGTTATGTATGTTATATAAGTTATGTAAGTTATATATGTTATATAAGTTATG-TA-AA
63 TATAAATTATATAT-TTATATAAGTTATATAAGTTATATAAGTTATATAAATTATGATATAA
108195736 TTATGATATCAAATATATTTATGTATTATGTAAGTTTTTTATTT
1 -TATGATATCAAATATATTTATGTATTATGTAAGTTTTTTATTT
108195780 CACGATGTGG
Statistics
Matches: 128, Mismatches: 29, Indels: 17
0.74 0.17 0.10
Matches are distributed among these distances:
121 10 0.08
122 32 0.25
123 78 0.61
124 8 0.06
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.49
Consensus pattern (123 bp):
TATGATATCAAATATATTTATGTATTATGTAAGTTTTTTATTTATGATAAGATATATAGTTATAT
AAATTATATATTTATATAAGTTATATAAGTTATATAAGTTATATAAATTATGATATAA
Found at i:108195865 original size:15 final size:15
Alignment explanation
Indices: 108195845--108195901 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
108195835 AAGTAGCGGG
108195845 ATTAAATAATATTTA
1 ATTAAATAATATTTA
108195860 ATTAAATAATATTT-
1 ATTAAATAATATTTA
*
108195874 A-TAAAAAATTATTTTA
1 ATTAAATAA-TA-TTTA
108195890 ATTAAATAATAT
1 ATTAAATAATAT
108195902 ACATGTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 6 0.17
14 3 0.08
15 18 0.50
16 3 0.08
17 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:108196106 original size:24 final size:24
Alignment explanation
Indices: 108196078--108196145 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
108196068 ACTTAAATGG
108196078 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
108196102 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
108196126 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
108196146 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:108196929 original size:367 final size:370
Alignment explanation
Indices: 108196233--108197140 Score: 1732
Period size: 367 Copynumber: 2.5 Consensus size: 370
108196223 AATTGAAACA
108196233 TTTGAATTTTTTAAGATTCATGATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCA--ATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
108196298 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
64 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
108196363 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
129 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
108196428 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
194 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
108196493 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
259 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
108196558 TAAATATTCAATAGTAAATGAGCTCGATAGAACT-TTTTCAAGTCTT
324 TAAATATTCAATAGTAAATGAGCTCGATAGAACTGTTTTCAAGTCTT
108196604 TTTGAATTTTTTAAGATTC-ATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
1 TTTGAATTTTTTAAGATTCAATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
108196668 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
66 GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
108196733 TAAGGTTGGA-AGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
131 TAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
108196797 AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
196 AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
108196862 TAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATA
261 TAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATA
108196927 AATATTCAATAGTAAATGAGCTCGATAGAACTGTTTTCAAGTCTT
326 AATATTCAATAGTAAATGAGCTCGATAGAACTGTTTTCAAGTCTT
108196972 TTTGAATTTTTTAAGATTCATGATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCA--ATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
**
108197037 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGAGTATATACTTTGAATCTTTAAAATATTTAA
64 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
*
108197102 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTT
129 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTT
108197141 AATGGACAAG
Statistics
Matches: 529, Mismatches: 3, Indels: 9
0.98 0.01 0.02
Matches are distributed among these distances:
367 216 0.41
368 151 0.29
371 137 0.26
372 25 0.05
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (370 bp):
TTTGAATTTTTTAAGATTCAATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCA
GCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
TAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGA
AATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAA
TAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATA
AATATTCAATAGTAAATGAGCTCGATAGAACTGTTTTCAAGTCTT
Found at i:108202126 original size:16 final size:16
Alignment explanation
Indices: 108202107--108202278 Score: 94
Period size: 17 Copynumber: 9.8 Consensus size: 16
108202097 GAAAGTTTTT
*
108202107 TTTTAAAACACGAGAAT
1 TTTTAAAACACGA-AAA
*
108202124 TTTTGAAAACACGAGAA
1 TTTT-AAAACACGAAAA
108202141 TTTGT-AAACACGAAAA
1 TTT-TAAAACACGAAAA
108202157 TTTTAGAAACACGAAAA
1 TTTTA-AAACACGAAAA
* *
108202174 TTTTTAGAAAAAACGAAATT
1 -TTTT--AAAACACGAAA-A
**
108202194 TTCTTAAAACACGACATTTTT
1 TT-TTAAAACACGA-A---AA
* * *
108202215 TTTTGAAACACGGGAAT
1 TTTTAAAACAC-GAAAA
* *
108202232 TTTTAAAACAGGGAAA
1 TTTTAAAACACGAAAA
108202248 TTTTAGAAACACGAAAA
1 TTTTA-AAACACGAAAA
108202265 TTTTTAAAACACGA
1 -TTTTAAAACACGA
108202279 CATTTTTTTG
Statistics
Matches: 124, Mismatches: 15, Indels: 32
0.73 0.09 0.19
Matches are distributed among these distances:
15 1 0.01
16 22 0.18
17 46 0.37
18 27 0.22
19 12 0.10
20 12 0.10
21 4 0.03
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (16 bp):
TTTTAAAACACGAAAA
Found at i:108202187 original size:91 final size:89
Alignment explanation
Indices: 108202104--108202296 Score: 232
Period size: 91 Copynumber: 2.2 Consensus size: 89
108202094 AACGAAAGTT
* *
108202104 TTTTTTTAAAACACGAGA-ATTTTTGAAAACACGAGAATTTGT-AAACACGAAAATTTTAGAAAC
1 TTTTCTTAAAACACGACATATTTTTG-AAACACGAGAATTTGTAAAACACGAAAATTTTAGAAAC
108202167 ACGAAAATTTTTAGAAAAAACGAAA
65 ACGAAAATTTTTAGAAAAAACGAAA
* * * * *
108202192 TTTTCTTAAAACACGACATTTTTTTTTGAAACACGGGAATTTTTAAAACAGGGAAATTTTAGAAA
1 TTTTCTTAAAACACGACA--TATTTTTGAAACACGAGAATTTGTAAAACACGAAAATTTTAGAAA
* *
108202257 CACGAAAATTTTT--AAAACACGACA
64 CACGAAAATTTTTAGAAAAAACGAAA
* *
108202281 TTTTTTTGAAACACGA
1 TTTTCTTAAAACACGA
108202297 TTTAAAAAAC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
88 16 0.18
89 23 0.26
90 14 0.16
91 37 0.41
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (89 bp):
TTTTCTTAAAACACGACATATTTTTGAAACACGAGAATTTGTAAAACACGAAAATTTTAGAAACA
CGAAAATTTTTAGAAAAAACGAAA
Found at i:108202472 original size:55 final size:53
Alignment explanation
Indices: 108202397--108202540 Score: 171
Period size: 55 Copynumber: 2.7 Consensus size: 53
108202387 AACACTGGAG
* * * **
108202397 TTTTTGAAAACACGAGAATTTGTGAAACACGAAAATTTGTGAAAACACGTAAATT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTCTGAAAACAC--AAAGA
** * * *
108202452 TTTTTTTAAACACGAAAATTTTTGAAACGCCAGAATTTCTGAAAACACAAAGA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTCTGAAAACACAAAGA
108202505 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
108202541 CACAAAATTT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
53 25 0.34
54 8 0.11
55 40 0.55
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (53 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTCTGAAAACACAAAGA
Found at i:108202538 original size:18 final size:18
Alignment explanation
Indices: 108202105--108202540 Score: 204
Period size: 18 Copynumber: 25.0 Consensus size: 18
108202095 ACGAAAGTTT
* *
108202105 TTTTTTAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
108202123 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
108202141 --TTTGTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
108202157 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
108202174 TTTTTAGAAAAAACG-AAA
1 TTTTT-GAAAACACGAAAA
* **
108202192 TTTTCTTAAAACACGACATTTT
1 TTTT-TGAAAACACGA-A--AA
**
108202214 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAAAA
* *
108202231 TTTTT-AAAACAGGGAAA
1 TTTTTGAAAACACGAAAA
*
108202248 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
**
108202265 TTTTT-AAAACACGACATT
1 TTTTTGAAAACACGA-AAA
108202283 TTTTTG-AAACACG---A
1 TTTTTGAAAACACGAAAA
*
108202297 --TTT-AAAAAAC-AAAA
1 TTTTTGAAAACACGAAAA
* ** *
108202311 --ATTG-AAATGCGAGAA
1 TTTTTGAAAACACGAAAA
**
108202326 TATTTTG-AAACACGAATTT
1 T-TTTTGAAAACACGAA-AA
** * *
108202345 TTTTTTTAAACGCGAGAA
1 TTTTTGAAAACACGAAAA
* *
108202363 TTTTTGAAAACATGGAAA
1 TTTTTGAAAACACGAAAA
* * *
108202381 -CTTTG-AAACACTG-GAG
1 TTTTTGAAAACAC-GAAAA
*
108202397 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
108202415 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
108202432 TTTGTGAAAACACGTAAATT
1 TTTTTGAAAACACG-AAA-A
**
108202452 TTTTTTTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
108202470 TTTTTG-AAACGCCAGAA
1 TTTTTGAAAACACGAAAA
*
108202487 TTTCTGAAAACAC-AAAGA
1 TTTTTGAAAACACGAAA-A
108202505 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
108202523 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
108202541 CACAAAATTT
Statistics
Matches: 316, Mismatches: 67, Indels: 70
0.70 0.15 0.15
Matches are distributed among these distances:
12 8 0.03
14 7 0.02
15 3 0.01
16 20 0.06
17 95 0.30
18 135 0.43
19 24 0.08
20 19 0.06
21 1 0.00
22 4 0.01
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:108202626 original size:19 final size:19
Alignment explanation
Indices: 108202604--108202657 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
108202594 ATTCAAGAGA
108202604 ATTTTTTTTATTTTTTATT
1 ATTTTTTTTATTTTTTATT
*
108202623 ATTTTTATTATTTTTTATT
1 ATTTTTTTTATTTTTTATT
108202642 ATTTTTATTT-TTTTTT
1 ATTTTT-TTTATTTTTT
108202658 GAAACACGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 30 0.94
20 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (19 bp):
ATTTTTTTTATTTTTTATT
Found at i:108202657 original size:10 final size:10
Alignment explanation
Indices: 108202604--108202656 Score: 78
Period size: 9 Copynumber: 5.7 Consensus size: 10
108202594 ATTCAAGAGA
108202604 ATTTTTT-TT
1 ATTTTTTATT
108202613 ATTTTTTATT
1 ATTTTTTATT
108202623 A-TTTTTATT
1 ATTTTTTATT
108202632 ATTTTTTATT
1 ATTTTTTATT
108202642 A-TTTTTATT
1 ATTTTTTATT
108202651 -TTTTTT
1 ATTTTTT
108202657 TGAAACACGA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
9 29 0.71
10 12 0.29
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (10 bp):
ATTTTTTATT
Found at i:108202733 original size:17 final size:16
Alignment explanation
Indices: 108202684--108202731 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
108202674 TTGAAAACAC
108202684 GAAAACACGAATTTTT
1 GAAAACACGAATTTTT
108202700 G-AAACACGGAAATTTTT
1 GAAAACAC-G-AATTTTT
108202717 GAAAACACG-ATTTTT
1 GAAAACACGAATTTTT
108202732 TTAGAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 2 0.07
17 9 0.31
18 6 0.21
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (16 bp):
GAAAACACGAATTTTT
Found at i:108204082 original size:30 final size:30
Alignment explanation
Indices: 108204042--108204143 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
108204032 ATTTAGGATT
* *
108204042 AAAATGAAATTTAATGAAGGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
108204072 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
108204102 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
108204132 AAAATGCAATTT
1 AAAATGAAATTT
108204144 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:108204176 original size:15 final size:16
Alignment explanation
Indices: 108204139--108204176 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
108204129 GTCAAAATGC
108204139 AATTTTTATTTTTTAA
1 AATTTTTATTTTTTAA
* *
108204155 AATTTTTTTTTTTTGA
1 AATTTTTATTTTTTAA
108204171 AATTTT
1 AATTTT
108204177 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
AATTTTTATTTTTTAA
Found at i:108204603 original size:54 final size:54
Alignment explanation
Indices: 108204418--108205335 Score: 1587
Period size: 54 Copynumber: 17.0 Consensus size: 54
108204408 CACGTGAGCC
* *
108204418 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
108204473 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
108204523 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
108204577 AAGGCTCACCTCACCTCTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
108204630 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAA
* *
108204685 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
108204739 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
108204793 AAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
108204847 ATGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
108204901 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
108204955 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
108205009 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
108205063 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
108205117 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
108205171 AAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
108205225 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
108205279 AAGTCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AA
108205334 AA
1 AA
108205336 TACCTCAACG
Statistics
Matches: 824, Mismatches: 31, Indels: 16
0.95 0.04 0.02
Matches are distributed among these distances:
50 48 0.06
52 1 0.00
53 50 0.06
54 624 0.76
55 95 0.12
56 6 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:108205513 original size:72 final size:72
Alignment explanation
Indices: 108205283--108206131 Score: 1256
Period size: 72 Copynumber: 11.7 Consensus size: 72
108205273 AATTAAAAGT
** * *
108205283 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAACGTG
108205348 TCTTGAGG
65 TCTTGAGG
*
108205356 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTG
108205421 TCTTGAGG
65 TCTTGAGG
*
108205429 CTCAACTCATTTCTCGCAATATGAGTTAAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
108205494 CTTGAGG
66 CTTGAGG
* * *
108205501 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCAATGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTG
108205566 TCTTGAGG
65 TCTTGAGG
*
108205574 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACATGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
*
108205639 CCTGAGG
66 CTTGAGG
*
108205646 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
108205711 CTTGAGG
66 CTTGAGG
* *
108205718 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCATGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
*
108205783 CCTGAGG
66 CTTGAGG
*
108205790 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
108205855 CTTGAGG
66 CTTGAGG
** *
108205862 CTCAACTCATTTCTCGCAATATGAGTTGAGCTTTGAAAACAAAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
108205927 CTTGAGG
66 CTTGAGG
*
108205934 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATTACCTCAGCGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG-AAATTACCTCAACGTG
*
108205999 -CCTGAGG
65 TCTTGAGG
** * *
108206006 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAGCTTTTGAAAA-ATAAATTGAAAATACC
1 CTCAACTCATTTCTCGCAATATGAGTTG-------AA--TTTTGAAAACAGAAATTGAAATTACC
* *
108206070 TCAGCGTG-C-CGAGG
57 TCAACGTGTCTTGAGG
** * * *
108206084 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
108206132 AAAAGGCTTA
Statistics
Matches: 722, Mismatches: 40, Indels: 30
0.91 0.05 0.04
Matches are distributed among these distances:
69 5 0.01
70 4 0.01
71 7 0.01
72 454 0.63
73 187 0.26
78 31 0.04
79 18 0.02
80 7 0.01
81 9 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
CTTGAGG
Found at i:108206097 original size:78 final size:81
Alignment explanation
Indices: 108205964--108206117 Score: 269
Period size: 78 Copynumber: 1.9 Consensus size: 81
108205954 ATGAGTTGAA
108205964 TTTTGAAAACAGAAATTGAAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATG
108206029 AGTTGATTTTTAAAGC
66 AGTTGATTTTTAAAGC
* *
108206045 TTTTGAAAA-ATAAATTGAAAA-TACCTCAGCGTGCC-GAGGCTCAACTCACCTCTTGCAATATG
1 TTTTGAAAACAGAAATTGAAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATG
108206107 AGTTGATTTTT
66 AGTTGATTTTT
108206118 GAAAAACAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
78 37 0.52
79 14 0.20
80 11 0.15
81 9 0.13
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (81 bp):
TTTTGAAAACAGAAATTGAAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTAAAGC
Found at i:108206254 original size:69 final size:71
Alignment explanation
Indices: 108206135--108206309 Score: 223
Period size: 69 Copynumber: 2.5 Consensus size: 71
108206125 AAAAATTAAA
* * * * **
108206135 AGGCTTAACTCACTTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCGGCGT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACGT
108206198 GCCCTG
66 GCCCTG
* *
108206204 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAAA-A-AAATTAAAAATACCTCAACGT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACGT
* *
108206267 GTCTTG
66 GCCCTG
108206273 AGGCTCAACTCATTTTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCA-TTTCTCGCAATATGAGTTGATTTT
108206310 CCTTGGAAAG
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
69 60 0.65
70 27 0.29
71 6 0.06
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (71 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACGT
GCCCTG
Found at i:108218038 original size:16 final size:16
Alignment explanation
Indices: 108218019--108218190 Score: 94
Period size: 17 Copynumber: 9.8 Consensus size: 16
108218009 GAAAGTTTTT
*
108218019 TTTTAAAACACGAGAAT
1 TTTTAAAACACGA-AAA
*
108218036 TTTTGAAAACACGAGAA
1 TTTT-AAAACACGAAAA
108218053 TTTGT-AAACACGAAAA
1 TTT-TAAAACACGAAAA
108218069 TTTTAGAAACACGAAAA
1 TTTTA-AAACACGAAAA
* *
108218086 TTTTTAGAAAAAACGAAATT
1 -TTTT--AAAACACGAAA-A
**
108218106 TTCTTAAAACACGACATTTTT
1 TT-TTAAAACACGA-A---AA
* * *
108218127 TTTTGAAACACGGGAAT
1 TTTTAAAACAC-GAAAA
* *
108218144 TTTTAAAACAGGGAAA
1 TTTTAAAACACGAAAA
108218160 TTTTAGAAACACGAAAA
1 TTTTA-AAACACGAAAA
108218177 TTTTTAAAACACGA
1 -TTTTAAAACACGA
108218191 CATTTTTTTG
Statistics
Matches: 124, Mismatches: 15, Indels: 32
0.73 0.09 0.19
Matches are distributed among these distances:
15 1 0.01
16 22 0.18
17 46 0.37
18 27 0.22
19 12 0.10
20 12 0.10
21 4 0.03
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (16 bp):
TTTTAAAACACGAAAA
Found at i:108218099 original size:91 final size:89
Alignment explanation
Indices: 108218016--108218208 Score: 232
Period size: 91 Copynumber: 2.2 Consensus size: 89
108218006 AACGAAAGTT
* *
108218016 TTTTTTTAAAACACGAGA-ATTTTTGAAAACACGAGAATTTGT-AAACACGAAAATTTTAGAAAC
1 TTTTCTTAAAACACGACATATTTTTG-AAACACGAGAATTTGTAAAACACGAAAATTTTAGAAAC
108218079 ACGAAAATTTTTAGAAAAAACGAAA
65 ACGAAAATTTTTAGAAAAAACGAAA
* * * * *
108218104 TTTTCTTAAAACACGACATTTTTTTTTGAAACACGGGAATTTTTAAAACAGGGAAATTTTAGAAA
1 TTTTCTTAAAACACGACA--TATTTTTGAAACACGAGAATTTGTAAAACACGAAAATTTTAGAAA
* *
108218169 CACGAAAATTTTT--AAAACACGACA
64 CACGAAAATTTTTAGAAAAAACGAAA
* *
108218193 TTTTTTTGAAACACGA
1 TTTTCTTAAAACACGA
108218209 TTTAAAAAAC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
88 16 0.18
89 23 0.26
90 14 0.16
91 37 0.41
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (89 bp):
TTTTCTTAAAACACGACATATTTTTGAAACACGAGAATTTGTAAAACACGAAAATTTTAGAAACA
CGAAAATTTTTAGAAAAAACGAAA
Found at i:108218386 original size:56 final size:53
Alignment explanation
Indices: 108218310--108218454 Score: 164
Period size: 56 Copynumber: 2.7 Consensus size: 53
108218300 AACACTGGAG
* * * **
108218310 TTTTTGAAAACACGAGAATTTGTGAAACACGAAAATTTGTGAAAACACGTAAATTT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTCTGAAAACAC--AAA-GA
** * * *
108218366 TTTTTTTAAACACGAAAATTTTTGAAACGCCAGAATTTCTGAAAACACAAAGA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTCTGAAAACACAAAGA
108218419 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
108218455 CACAAAATTT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
53 22 0.30
54 11 0.15
56 40 0.55
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (53 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTCTGAAAACACAAAGA
Found at i:108218452 original size:18 final size:18
Alignment explanation
Indices: 108218017--108218454 Score: 190
Period size: 18 Copynumber: 25.0 Consensus size: 18
108218007 ACGAAAGTTT
* *
108218017 TTTTTTAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
108218035 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
108218053 --TTTGTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
108218069 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
108218086 TTTTTAGAAAAAACG-AAA
1 TTTTT-GAAAACACGAAAA
* **
108218104 TTTTCTTAAAACACGACATTTT
1 TTTT-TGAAAACACGA-A--AA
**
108218126 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAAAA
* *
108218143 TTTTT-AAAACAGGGAAA
1 TTTTTGAAAACACGAAAA
*
108218160 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
**
108218177 TTTTT-AAAACACGACATT
1 TTTTTGAAAACACGA-AAA
108218195 TTTTTG-AAACACG---A
1 TTTTTGAAAACACGAAAA
*
108218209 --TTT-AAAAAAC-AAAA
1 TTTTTGAAAACACGAAAA
* ** *
108218223 --ATTG-AAATGCGAGAA
1 TTTTTGAAAACACGAAAA
**
108218238 TATTTTG-AAACACGAATTTT
1 T-TTTTGAAAACACGAA--AA
** * *
108218258 TTTTTTTAAACGCGAGAA
1 TTTTTGAAAACACGAAAA
* *
108218276 TTTTTGAAAACATGGAAA
1 TTTTTGAAAACACGAAAA
* * *
108218294 -CTTTG-AAACACTG-GAG
1 TTTTTGAAAACAC-GAAAA
*
108218310 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
108218328 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
108218345 TTTGTGAAAACACGTAAATTT
1 TTTTTGAAAACACG-AAA--A
**
108218366 TTTTTTTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
108218384 TTTTTG-AAACGCCAGAA
1 TTTTTGAAAACACGAAAA
*
108218401 TTTCTGAAAACAC-AAAGA
1 TTTTTGAAAACACGAAA-A
108218419 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
108218437 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
108218455 CACAAAATTT
Statistics
Matches: 316, Mismatches: 67, Indels: 74
0.69 0.15 0.16
Matches are distributed among these distances:
12 8 0.03
14 7 0.02
15 3 0.01
16 20 0.06
17 95 0.30
18 131 0.41
19 17 0.05
20 19 0.06
21 12 0.04
22 4 0.01
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:108218456 original size:44 final size:43
Alignment explanation
Indices: 108218406--108218492 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
108218396 CAGAATTTCT
108218406 GAAAACACAAAGATTT-TTGAAAACACGAAAATTTTTGAAAACAC
1 GAAAACACAAA-ATTTGTTGAAAAC-CGAAAATTTTTGAAAACAC
* * **
108218450 GAAAACACAAAATTTGTTGAATACTGAATTTTTTTGAAAACAC
1 GAAAACACAAAATTTGTTGAAAACCGAAAATTTTTGAAAACAC
108218493 AATAATACCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 20 0.53
44 18 0.47
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (43 bp):
GAAAACACAAAATTTGTTGAAAACCGAAAATTTTTGAAAACAC
Found at i:108218538 original size:10 final size:10
Alignment explanation
Indices: 108218518--108218570 Score: 78
Period size: 9 Copynumber: 5.7 Consensus size: 10
108218508 ATTCACGAGA
108218518 ATTTTTT-TT
1 ATTTTTTATT
108218527 ATTTTTTATT
1 ATTTTTTATT
108218537 A-TTTTTATT
1 ATTTTTTATT
108218546 ATTTTTTATT
1 ATTTTTTATT
108218556 A-TTTTTATT
1 ATTTTTTATT
108218565 -TTTTTT
1 ATTTTTT
108218571 GAAACACGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
9 29 0.71
10 12 0.29
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (10 bp):
ATTTTTTATT
Found at i:108218540 original size:19 final size:19
Alignment explanation
Indices: 108218518--108218570 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
108218508 ATTCACGAGA
108218518 ATTTTTTTTATTTTTTATT
1 ATTTTTTTTATTTTTTATT
*
108218537 ATTTTTATTATTTTTTATT
1 ATTTTTTTTATTTTTTATT
108218556 ATTTTTATTT-TTTTT
1 ATTTTT-TTTATTTTT
108218571 GAAACACGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 29 0.94
20 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (19 bp):
ATTTTTTTTATTTTTTATT
Found at i:108218646 original size:17 final size:16
Alignment explanation
Indices: 108218597--108218644 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
108218587 TTGAAAACAC
108218597 GAAAACACGAATTTTT
1 GAAAACACGAATTTTT
108218613 G-AAACACGGAAATTTTT
1 GAAAACAC-G-AATTTTT
108218630 GAAAACACG-ATTTTT
1 GAAAACACGAATTTTT
108218645 TTAGAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 2 0.07
17 9 0.31
18 6 0.21
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (16 bp):
GAAAACACGAATTTTT
Found at i:108220003 original size:30 final size:30
Alignment explanation
Indices: 108219963--108220064 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
108219953 ATTTAGGATT
* *
108219963 AAAATGAAATTTAATGAAGGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
108219993 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
108220023 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
108220053 AAAATGCAATTT
1 AAAATGAAATTT
108220065 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:108220086 original size:15 final size:16
Alignment explanation
Indices: 108220060--108220096 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
108220050 GTCAAAATGC
*
108220060 AATTTTTATTTTTTTA
1 AATTTTTATTTTTTGA
108220076 AATTTTT-TTTTTTGA
1 AATTTTTATTTTTTGA
108220091 AATTTT
1 AATTTT
108220097 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
AATTTTTATTTTTTGA
Found at i:108220429 original size:28 final size:28
Alignment explanation
Indices: 108220359--108220451 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 28
108220349 TTTTGTGGGG
108220359 GGGTTTAGGGTTT-TGGAGTTTATAGA-TTA
1 GGGTTTAGGGTTTAT-GA-TTTA-AGATTTA
* * * *
108220388 GTGTTTATGTTTTATGATTTAAAATTTA
1 GGGTTTAGGGTTTATGATTTAAGATTTA
108220416 GGGTTTAGGGTTTAATG-TTTAAGATTTAA
1 GGGTTTAGGGTTT-ATGATTTAAGATTT-A
108220445 GGGTTTA
1 GGGTTTA
108220452 CAGAAAGCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
27 2 0.04
28 26 0.50
29 23 0.44
30 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (28 bp):
GGGTTTAGGGTTTATGATTTAAGATTTA
Found at i:108220786 original size:41 final size:40
Alignment explanation
Indices: 108220741--108220849 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 40
108220731 AACTTTTTGC
*
108220741 GGCGTTTGGACCAAAAACGCCGCTATTAATCAGTTTTTAGT
1 GGCGTTTGGA-CAAAAACGCCGCAATTAATCAGTTTTTAGT
* * * *
108220782 GGCGTTTTGGATAAAAACGCCACAATTGATCAGTTTTTTGT
1 GGCG-TTTGGACAAAAACGCCGCAATTAATCAGTTTTTAGT
108220823 GGCGTTTGGGACAAAAACGCCGCAATT
1 GGCGTTT-GGACAAAAACGCCGCAATT
108220850 TAGTGGCATT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 3 0.05
41 50 0.85
42 6 0.10
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (40 bp):
GGCGTTTGGACAAAAACGCCGCAATTAATCAGTTTTTAGT
Found at i:108220871 original size:72 final size:72
Alignment explanation
Indices: 108220776--108220917 Score: 182
Period size: 72 Copynumber: 2.0 Consensus size: 72
108220766 TTAATCAGTT
* *
108220776 TTTAGTGGCGTTTTGGATAAAAACGCCACAATTGATC-AGTTTTTTGTGGCG-TTTGGGACAAAA
1 TTTAGTGGCGATTTGGATAAAAACGCCACAATTGA-CAAGTTTTTAGTGGCGTTTTGGG-CAAAA
108220839 ACGCCGCAA
64 ACGCCGCAA
* * * *
108220848 TTTAGTGGC-ATTTGAGATTAAAACGCCGCTATTGACAAGTTTTTAGTGGCGTTTTTGGCAAAAA
1 TTTAGTGGCGATTTG-GATAAAAACGCCACAATTGACAAGTTTTTAGTGGCGTTTTGGGCAAAAA
108220912 CGCCGC
65 CGCCGC
108220918 TATAGTTTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
71 5 0.08
72 51 0.84
73 5 0.08
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (72 bp):
TTTAGTGGCGATTTGGATAAAAACGCCACAATTGACAAGTTTTTAGTGGCGTTTTGGGCAAAAAC
GCCGCAA
Found at i:108228553 original size:9 final size:10
Alignment explanation
Indices: 108228498--108228550 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
108228488 ATGTACACCA
108228498 AATAATGACAT
1 AATAATGA-AT
108228509 -ATAAGTG-AT
1 AATAA-TGAAT
108228518 AATAATGAA-
1 AATAATGAAT
108228527 AATAATGAAT
1 AATAATGAAT
*
108228537 AAAAATGAAT
1 AATAATGAAT
108228547 AATA
1 AATA
108228551 TGACATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 13 0.36
10 21 0.58
11 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.26
Consensus pattern (10 bp):
AATAATGAAT
Found at i:108234539 original size:25 final size:23
Alignment explanation
Indices: 108234510--108234574 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
108234500 AATAAAAAAC
*
108234510 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAAT-AAATACA
108234535 TTTAAAACATAAAAATAAAT--A
1 TTTAAAACATAAAAATAAATACA
*
108234556 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAATAAATA
108234575 AAAAATGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 4 0.11
24 4 0.11
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATACA
Found at i:108234567 original size:19 final size:20
Alignment explanation
Indices: 108234536--108234574 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
108234526 TCAAATACAT
*
108234536 TTAAAACATAAAAATAAATA
1 TTAAAACATAAAAACAAATA
108234556 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
108234575 AAAAATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:108235454 original size:17 final size:17
Alignment explanation
Indices: 108235421--108235454 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
108235411 TTTAATTAAG
108235421 TAAATTATTAAAAATTA
1 TAAATTATTAAAAATTA
108235438 TAAA-TATTAAAATATTA
1 TAAATTATTAAAA-ATTA
108235455 GATAATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTATTAAAAATTA
Found at i:108236516 original size:12 final size:13
Alignment explanation
Indices: 108236498--108236531 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
108236488 TTAATTTGTG
108236498 TATTGTTTTAATA
1 TATTGTTTTAATA
108236511 -ATTGTTTTAATA
1 TATTGTTTTAATA
108236523 TATT-TTTTA
1 TATTGTTTTA
108236532 TTTGTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 17 0.85
13 3 0.15
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (13 bp):
TATTGTTTTAATA
Found at i:108236529 original size:40 final size:41
Alignment explanation
Indices: 108236474--108236560 Score: 131
Period size: 40 Copynumber: 2.1 Consensus size: 41
108236464 TATAATCAAT
*
108236474 TTTTATTATATTTTTTAATTTGTGTATTGTTTTAATAATTG
1 TTTTAATATATTTTTTAATTTGTGTATTGTTTTAATAATTG
* * *
108236515 TTTTAATATATTTTTT-ATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTTTAATTTGTGTATTGTTTTAATAATTG
108236555 TTTTAA
1 TTTTAA
108236561 ATGTATTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 27 0.64
41 15 0.36
ACGTcount: A:0.23, C:0.01, G:0.08, T:0.68
Consensus pattern (41 bp):
TTTTAATATATTTTTTAATTTGTGTATTGTTTTAATAATTG
Found at i:108238544 original size:25 final size:25
Alignment explanation
Indices: 108238515--108238562 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
108238505 CATAAACTTA
*
108238515 TATATATTATAAATACAAAAAAAAT
1 TATATATTAAAAATACAAAAAAAAT
108238540 TATATATTAAAAATACAAAAAAA
1 TATATATTAAAAATACAAAAAAA
108238563 TAATAAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
TATATATTAAAAATACAAAAAAAAT
Found at i:108239195 original size:22 final size:22
Alignment explanation
Indices: 108239170--108239224 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
108239160 TTAATTTTAA
*
108239170 TATTATGTA-TACTATTATATTT
1 TATTATCTATTACTATTATA-TT
*
108239192 TATTA-CTATTATTATTATATT
1 TATTATCTATTACTATTATATT
*
108239213 TATTATTTATTA
1 TATTATCTATTA
108239225 GCATTAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTATCTATTACTATTATATT
Found at i:108239215 original size:28 final size:30
Alignment explanation
Indices: 108239170--108239237 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 30
108239160 TTAATTTTAA
108239170 TATTATGTATACTATTA-TATTTTATTA-CTAT
1 TATTAT-TATACTATTATTA-TTTATTAGC-AT
108239201 TATTATTATA-T-TTATTATTTATTAGCAT
1 TATTATTATACTATTATTATTTATTAGCAT
*
108239229 TAGTATTAT
1 TATTATTAT
108239238 TTTCACTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 20 0.59
29 4 0.12
30 4 0.12
31 6 0.18
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (30 bp):
TATTATTATACTATTATTATTTATTAGCAT
Found at i:108239230 original size:22 final size:21
Alignment explanation
Indices: 108239183--108239235 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
108239173 TATGTATACT
**
108239183 ATTATATTTTATTACTATTATT
1 ATTATA-TTTATTACTATTAGC
*
108239205 ATTATATTTATTATTTATTAGC
1 ATTATATTTATTA-CTATTAGC
108239227 ATTAGTATT
1 ATTA-TATT
108239236 ATTTTCACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 7 0.27
22 15 0.58
23 4 0.15
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTATATTTATTACTATTAGC
Found at i:108239700 original size:47 final size:50
Alignment explanation
Indices: 108239648--108239760 Score: 117
Period size: 49 Copynumber: 2.3 Consensus size: 50
108239638 TAATCAATAC
108239648 TTATATGTATATATTATGTA-A-ATATTTTAACACTATATTATGTATATA
1 TTATATGTATATATTATGTACATATATTTTAACACTATATTATGTATATA
* * * * * * *
108239696 -TATAT-TTTAATGTTATGTACATATTTTTTAATATTATATTTTTTATATA
1 TTATATGTAT-ATATTATGTACATATATTTTAACACTATATTATGTATATA
108239745 TTATTATGTATATATT
1 TTA-TATGTATATATT
108239761 TTAATATCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
46 2 0.04
47 14 0.28
48 1 0.02
49 22 0.44
50 2 0.04
51 7 0.14
52 2 0.04
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (50 bp):
TTATATGTATATATTATGTACATATATTTTAACACTATATTATGTATATA
Found at i:108239724 original size:21 final size:23
Alignment explanation
Indices: 108239682--108239732 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
108239672 TTTTAACACT
*
108239682 ATATTATGTATATATATATTTTA
1 ATATTATGTACATATATATTTTA
*
108239705 ATGTTATGTACATAT-T-TTTTA
1 ATATTATGTACATATATATTTTA
108239726 ATATTAT
1 ATATTAT
108239733 ATTTTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.44
22 1 0.04
23 13 0.52
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (23 bp):
ATATTATGTACATATATATTTTA
Found at i:108239745 original size:16 final size:15
Alignment explanation
Indices: 108239716--108239748 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
108239706 TGTTATGTAC
108239716 ATATTTTTTAATATT
1 ATATTTTTTAATATT
108239731 ATATTTTTTATATATT
1 ATATTTTTTA-ATATT
108239747 AT
1 AT
108239749 TATGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTTTTTAATATT
Found at i:108239849 original size:23 final size:23
Alignment explanation
Indices: 108239742--108239850 Score: 77
Period size: 23 Copynumber: 4.8 Consensus size: 23
108239732 TATTTTTTAT
* *
108239742 ATATTATTATGTATATATTT-TA
1 ATATCATTATATATATATTTCTA
*
108239764 ATATCATTAGT-TATAT-TTTTTA
1 ATATCATTA-TATATATATTTCTA
**
108239786 TACTATC-TTACGTATATATTTCTA
1 -A-TATCATTATATATATATTTCTA
*
108239810 ATA-C-TATATATTGTATATTTCTA
1 ATATCAT-TATA-TATATATTTCTA
108239833 ATATCATTATATATATAT
1 ATATCATTATATATATAT
108239851 ATGTACGTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
21 5 0.07
22 19 0.27
23 31 0.44
24 14 0.20
25 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (23 bp):
ATATCATTATATATATATTTCTA
Found at i:108240234 original size:19 final size:19
Alignment explanation
Indices: 108240185--108240238 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
108240175 CGTTTTCAAT
*
108240185 ATATTGTATATAT-TTTTA
1 ATATAGTATATATGTTTTA
*
108240203 ATCTAGTATTATATGTTTTA
1 ATATAGTA-TATATGTTTTA
108240223 TATATA-TATATATGTT
1 -ATATAGTATATATGTT
108240239 CCCCACTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 6 0.20
19 13 0.43
20 7 0.23
21 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (19 bp):
ATATAGTATATATGTTTTA
Found at i:108252498 original size:5 final size:5
Alignment explanation
Indices: 108252488--108252522 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
108252478 AATAATTAAG
108252488 TATAT TATAT TATAT TATAT TATTAT TATA- TATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT
108252523 AAAAGAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:108255197 original size:18 final size:18
Alignment explanation
Indices: 108255174--108255209 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
108255164 GATGCTGGTG
108255174 TTGCCTTGTTGTAAGGGT
1 TTGCCTTGTTGTAAGGGT
108255192 TTGCCTTGTTGTAAGGGT
1 TTGCCTTGTTGTAAGGGT
108255210 GAGGGACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.33, T:0.44
Consensus pattern (18 bp):
TTGCCTTGTTGTAAGGGT
Found at i:108256655 original size:30 final size:30
Alignment explanation
Indices: 108256619--108256679 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
108256609 TGCTTTTCAT
108256619 TGCAGCAATGCATGAATCTTGAAAGCAAAC
1 TGCAGCAATGCATGAATCTTGAAAGCAAAC
108256649 TGCAGCAATGCATGAATCTTGAAAGCAAAC
1 TGCAGCAATGCATGAATCTTGAAAGCAAAC
108256679 T
1 T
108256680 TATAGCAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (30 bp):
TGCAGCAATGCATGAATCTTGAAAGCAAAC
Found at i:108263229 original size:68 final size:69
Alignment explanation
Indices: 108263101--108263238 Score: 217
Period size: 68 Copynumber: 2.0 Consensus size: 69
108263091 ATAATTCACC
* *
108263101 CTCCAATAATTGCCTGCTATATATACCATATAACCATTGCCAAATATATACACCCCTGTAAACAT
1 CTCCAATAATTGCCTGCTATATATACCA-ATAACCATCGCCAAATAAATACACCCCTGTAAACAT
108263166 GGAGT
65 GGAGT
*
108263171 CTCCAATAATTGCTTGCTATATATACC-ATAACCATCGCCAAATAAATAC-CCCACTGTAAACAT
1 CTCCAATAATTGCCTGCTATATATACCAATAACCATCGCCAAATAAATACACCC-CTGTAAACAT
108263234 GGAGT
65 GGAGT
108263239 GGACCTCTGA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
67 3 0.05
68 35 0.55
70 26 0.41
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (69 bp):
CTCCAATAATTGCCTGCTATATATACCAATAACCATCGCCAAATAAATACACCCCTGTAAACATG
GAGT
Found at i:108264238 original size:22 final size:23
Alignment explanation
Indices: 108264211--108264256 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
108264201 CGTTTAGCCC
*
108264211 AACAAATCAAAGCCCCAA-CCCA
1 AACAAATCAAAGCCCAAATCCCA
*
108264233 AACAAATCAAGGCCCAAATCCCA
1 AACAAATCAAAGCCCAAATCCCA
108264256 A
1 A
108264257 GTTAAGCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.50, C:0.37, G:0.07, T:0.07
Consensus pattern (23 bp):
AACAAATCAAAGCCCAAATCCCA
Found at i:108266075 original size:14 final size:15
Alignment explanation
Indices: 108266056--108266084 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
108266046 TTCGTTATCA
108266056 TTGCCAT-TTTTATT
1 TTGCCATGTTTTATT
108266070 TTGCCATGTTTTATT
1 TTGCCATGTTTTATT
108266085 CACTTTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (15 bp):
TTGCCATGTTTTATT
Found at i:108277215 original size:20 final size:19
Alignment explanation
Indices: 108277151--108277216 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
108277141 AAGCCTTGTA
*
108277151 ATTTTGGGCTTGTATTTTTT
1 ATTTTGGACTT-TATTTTTT
* *
108277171 -TGTTATGGACTGT-TTTTTC
1 AT-TT-TGGACTTTATTTTTT
108277190 ATTTTGGACTTTATTATTTT
1 ATTTTGGACTTTATT-TTTT
108277210 ATTTTGG
1 ATTTTGG
108277217 GCCCGGGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
18 7 0.19
19 10 0.28
20 14 0.39
21 5 0.14
ACGTcount: A:0.14, C:0.06, G:0.18, T:0.62
Consensus pattern (19 bp):
ATTTTGGACTTTATTTTTT
Found at i:108286425 original size:14 final size:15
Alignment explanation
Indices: 108286399--108286429 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
108286389 TCCAGGTTCA
108286399 TCAACACATTTTTCT
1 TCAACACATTTTTCT
108286414 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
108286428 TC
1 TC
108286430 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:108292163 original size:27 final size:27
Alignment explanation
Indices: 108292121--108292175 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
108292111 ATTTTAGTAA
* *
108292121 TGGAGGGTGTCAGATAGGCGGCACCAG
1 TGGAGGGTGTCAGATAAGAGGCACCAG
*
108292148 TGGAGGGTGTCCGATAAGAGGCACCAG
1 TGGAGGGTGTCAGATAAGAGGCACCAG
108292175 T
1 T
108292176 TGTGCCTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.18, G:0.42, T:0.16
Consensus pattern (27 bp):
TGGAGGGTGTCAGATAAGAGGCACCAG
Found at i:108292383 original size:15 final size:16
Alignment explanation
Indices: 108292359--108292388 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108292349 ATGTTTTAAT
108292359 TTTTTAAAATTTTATA
1 TTTTTAAAATTTTATA
108292375 TTTTT-AAATTTTAT
1 TTTTTAAAATTTTAT
108292389 TTTATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTAAAATTTTATA
Done.