Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 19 of 335
Found at i:7113567 original size:22 final size:24
Alignment explanation
Indices: 7113542--7113591 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
7113532 ACAAATACGC
*
7113542 GAATTTCC-ACCCAAACACA-CCA
1 GAATGTCCAACCCAAACACACCCA
7113564 GAATGTCCAACCCAAACACACCCA
1 GAATGTCCAACCCAAACACACCCA
7113588 GAAT
1 GAAT
7113592 ATTTTAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.28
23 11 0.44
24 7 0.28
ACGTcount: A:0.42, C:0.38, G:0.08, T:0.12
Consensus pattern (24 bp):
GAATGTCCAACCCAAACACACCCA
Found at i:7114658 original size:14 final size:14
Alignment explanation
Indices: 7114634--7114666 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
7114624 TCCCTGCTTC
7114634 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
7114649 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
7114662 GTTTC
1 GTTTC
7114667 CTTAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:7115022 original size:21 final size:20
Alignment explanation
Indices: 7114998--7115066 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
7114988 AATGCTAATA
*
7114998 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAATC
* *
7115019 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AATC
7115038 ATAATAATTTAATATAAAATC
1 ATAATAA-TTAATATAAAATC
7115059 ATAATAAT
1 ATAATAAT
7115067 AATCATTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.28
20 2 0.05
21 20 0.51
22 3 0.08
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (20 bp):
ATAATAATTAATATAAAATC
Found at i:7117046 original size:22 final size:23
Alignment explanation
Indices: 7117001--7117046 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7116991 CACATTTGTA
*
7117001 TTTTTTATTTTATGTTGTTCAAT
1 TTTTTTATTTTATGTTGTTAAAT
7117024 TTTTTTATTTTTAT-TT-TTAAAT
1 TTTTTTA-TTTTATGTTGTTAAAT
7117046 T
1 T
7117047 AATACTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 9 0.43
24 6 0.29
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTTTTATTTTATGTTGTTAAAT
Found at i:7117597 original size:13 final size:13
Alignment explanation
Indices: 7117579--7117604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7117569 ATAAAATTGT
7117579 TATTAATTAAAAA
1 TATTAATTAAAAA
7117592 TATTAATTAAAAA
1 TATTAATTAAAAA
7117605 AAGCTTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:7119025 original size:23 final size:24
Alignment explanation
Indices: 7118977--7119027 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
7118967 TCCGACTCAT
* *
7118977 TTTTATATTTTTTATTTCATGTTG
1 TTTTATATTTTTTATTTAATGATG
7119001 TTTTA-ATTTTTT-TTTAATGAATG
1 TTTTATATTTTTTATTTAATG-ATG
7119024 TTTT
1 TTTT
7119028 TAACATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 13 0.54
24 5 0.21
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.71
Consensus pattern (24 bp):
TTTTATATTTTTTATTTAATGATG
Found at i:7119028 original size:24 final size:24
Alignment explanation
Indices: 7118976--7119030 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
7118966 CTCCGACTCA
* *
7118976 TTTTTATATTTTTTATTTCATGTTG
1 TTTTTA-ATTTTTTATTTAATGATG
7119001 -TTTTAATTTTTT-TTTAATGAATG
1 TTTTTAATTTTTTATTTAATG-ATG
7119024 TTTTTAA
1 TTTTTAA
7119031 CATATTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.23
23 9 0.35
24 11 0.42
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (24 bp):
TTTTTAATTTTTTATTTAATGATG
Found at i:7129433 original size:17 final size:16
Alignment explanation
Indices: 7129404--7129443 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
7129394 TTCATTCATT
* *
7129404 TATTTATTTGTTTGTA
1 TATTTATTCGTTTATA
7129420 TATGTTATTCGTTTATA
1 TAT-TTATTCGTTTATA
7129437 TATTTAT
1 TATTTAT
7129444 GTTAATTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.65
Consensus pattern (16 bp):
TATTTATTCGTTTATA
Found at i:7131805 original size:24 final size:24
Alignment explanation
Indices: 7131770--7131827 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
7131760 GGCGCGACCC
7131770 ATTTTTTT--AATAATATAATTTT
1 ATTTTTTTAAAATAATATAATTTT
* *
7131792 ATTTTTTTAAAATATTATTATTTT
1 ATTTTTTTAAAATAATATAATTTT
7131816 ATTATATTTTAA
1 ATT-T-TTTTAA
7131828 TAATTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 8 0.27
24 15 0.50
25 1 0.03
26 6 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTTTTTTAAAATAATATAATTTT
Found at i:7131829 original size:24 final size:22
Alignment explanation
Indices: 7131770--7131831 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 22
7131760 GGCGCGACCC
7131770 ATTTTTTTAATAATATAATTTT
1 ATTTTTTTAATAATATAATTTT
7131792 ATTTTTTTAA-AATATTATTATTTT
1 ATTTTTTTAATAATA-TA--ATTTT
7131816 ATTATATTTTAATAAT
1 ATT-T-TTTTAATAAT
7131832 TTTTAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.12
22 12 0.35
24 8 0.24
25 1 0.03
26 6 0.18
27 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTTTTAATAATATAATTTT
Found at i:7132126 original size:3 final size:3
Alignment explanation
Indices: 7132055--7132108 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
7132045 TGCAGCAGCA
*
7132055 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7132100 AAG AAG AAG
1 AAG AAG AAG
7132109 GAGGAGGAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7133188 original size:5 final size:5
Alignment explanation
Indices: 7133178--7133209 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
7133168 TTGTGTATTC
7133178 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
7133210 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:7133192 original size:9 final size:9
Alignment explanation
Indices: 7133178--7133208 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
7133168 TTGTGTATTC
7133178 TTTATTTTA
1 TTTATTTTA
7133187 TTTATTTTA
1 TTTATTTTA
7133196 TTTTATTTTA
1 -TTTATTTTA
7133206 TTT
1 TTT
7133209 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:7137622 original size:5 final size:5
Alignment explanation
Indices: 7137612--7137643 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
7137602 ATTTGTGTTC
7137612 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
7137644 TCACAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:7137626 original size:9 final size:9
Alignment explanation
Indices: 7137612--7137642 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
7137602 ATTTGTGTTC
7137612 TTTATTTTA
1 TTTATTTTA
7137621 TTTATTTTA
1 TTTATTTTA
7137630 TTTTATTTTA
1 -TTTATTTTA
7137640 TTT
1 TTT
7137643 TTCACAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:7138647 original size:18 final size:17
Alignment explanation
Indices: 7138627--7138673 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
7138617 CTGAATTTTA
7138627 AAAATTTAAAAATTATT
1 AAAATTTAAAAATTATT
* *
7138644 AAAATATAATAAATTAAT
1 AAAATTTAA-AAATTATT
*
7138662 AATATTTAAAAA
1 AAAATTTAAAAA
7138674 AATAAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTTAAAAATTATT
Found at i:7138690 original size:23 final size:22
Alignment explanation
Indices: 7138638--7138698 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 22
7138628 AAATTTAAAA
7138638 ATTATTAAAATATAATAAATTAAT
1 ATTATTAAAA-A-AATAAATTAAT
*
7138662 AATATTTAAAAAAATAAAATT-AT
1 ATTA-TTAAAAAAAT-AAATTAAT
7138685 ATTATTAAAAAAAT
1 ATTATTAAAAAAAT
7138699 GGGTCGCGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 10 0.30
23 8 0.24
24 9 0.27
25 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATTATTAAAAAAATAAATTAAT
Found at i:7143485 original size:17 final size:16
Alignment explanation
Indices: 7143452--7143482 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7143442 AATAAGGTAA
7143452 ATTATCAATAAAAAAC
1 ATTATCAATAAAAAAC
*
7143468 ATTATCGATAAAAAA
1 ATTATCAATAAAAAA
7143483 ACAATCATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.03, T:0.26
Consensus pattern (16 bp):
ATTATCAATAAAAAAC
Found at i:7143523 original size:22 final size:22
Alignment explanation
Indices: 7143498--7143541 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7143488 CATATAAAAT
*
7143498 TATAATAAATCTTTAATAGTAA
1 TATAATAAATCTCTAATAGTAA
*
7143520 TATAATAAGTCTCTAATAGTAA
1 TATAATAAATCTCTAATAGTAA
7143542 ACACATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (22 bp):
TATAATAAATCTCTAATAGTAA
Found at i:7143549 original size:22 final size:22
Alignment explanation
Indices: 7143501--7143550 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
7143491 ATAAAATTAT
* *
7143501 AATAAATCTTTAATAGTAATAT
1 AATAAATCTCTAATAGTAATAC
*
7143523 AATAAGTCTCTAATAGTAA-AC
1 AATAAATCTCTAATAGTAATAC
7143544 ACATAAA
1 A-ATAAA
7143551 GGAAAGGAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (22 bp):
AATAAATCTCTAATAGTAATAC
Found at i:7161752 original size:20 final size:20
Alignment explanation
Indices: 7161739--7161791 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
7161729 TTTTACCATA
7161739 ATTTTTAATATTTTAAATAT
1 ATTTTTAATATTTTAAATAT
*
7161759 ATTTTTAATCA-TTTATATAT
1 ATTTTTAAT-ATTTTAAATAT
*
7161779 -TTTTTAACATTTT
1 ATTTTTAATATTTT
7161792 TTAAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 1 0.03
19 10 0.34
20 17 0.59
21 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTAATATTTTAAATAT
Found at i:7177252 original size:12 final size:13
Alignment explanation
Indices: 7177235--7177263 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7177225 AAGTAGCCAT
7177235 TTTTCCTTTTC-C
1 TTTTCCTTTTCAC
7177247 TTTTCCTTTTCAC
1 TTTTCCTTTTCAC
7177260 TTTT
1 TTTT
7177264 GTTTTAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCCTTTTCAC
Found at i:7178979 original size:31 final size:31
Alignment explanation
Indices: 7178943--7179003 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
7178933 TTATACAGAT
* *
7178943 GAAATTTAAATTATGATTTATATGTATATAC
1 GAAATTTAAATTATGATTCAGATGTATATAC
* *
7178974 GAAATTTTAATTTTGATTCAGATGTATATA
1 GAAATTTAAATTATGATTCAGATGTATATA
7179004 TTTAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.46
Consensus pattern (31 bp):
GAAATTTAAATTATGATTCAGATGTATATAC
Found at i:7181708 original size:21 final size:21
Alignment explanation
Indices: 7181684--7181723 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7181674 TAAAGCCAAT
*
7181684 ATAATAAAAAGGAAAAAATAA
1 ATAATAAAAAAGAAAAAATAA
*
7181705 ATAATAAAAAATAAAAAAT
1 ATAATAAAAAAGAAAAAAT
7181724 CACTCAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (21 bp):
ATAATAAAAAAGAAAAAATAA
Found at i:7196442 original size:14 final size:14
Alignment explanation
Indices: 7196420--7196449 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7196410 TTTAATTATT
7196420 ATATGTTTAATGAA
1 ATATGTTTAATGAA
*
7196434 ATATTTTTAATGAA
1 ATATGTTTAATGAA
7196448 AT
1 AT
7196450 TAAAATTCTT
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:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATATGTTTAATGAA
Found at i:7196586 original size:33 final size:35
Alignment explanation
Indices: 7196521--7196594 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
7196511 ATAATTATTT
*
7196521 TTATTAACATAAAAAAAATCACATTGATATATATG
1 TTATTAACATAAAAAAAAGCACATTGATATATATG
*
7196556 TTATTAACGTAAAAAAAAGGCA-ATT-A-ATATATG
1 TTATTAACATAAAAAAAA-GCACATTGATATATATG
7196589 TTATTA
1 TTATTA
7196595 TAGATAGACA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
33 13 0.36
34 1 0.03
35 20 0.56
36 2 0.06
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (35 bp):
TTATTAACATAAAAAAAAGCACATTGATATATATG
Found at i:7202191 original size:12 final size:12
Alignment explanation
Indices: 7202174--7202203 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
7202164 AACTATCACC
7202174 AAAAAAAAGAAA
1 AAAAAAAAGAAA
7202186 AAAAAAAAGAAA
1 AAAAAAAAGAAA
7202198 AGAAAA
1 A-AAAA
7202204 GGAAGGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:7202559 original size:62 final size:62
Alignment explanation
Indices: 7202462--7202586 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
7202452 ATTACGGAGA
7202462 AGCTCATAGATGGCAGCACAATTTCAAATCCTGTAGTTCTTCAATTTTAAGATGTCCTAGCC
1 AGCTCATAGATGGCAGCACAATTTCAAATCCTGTAGTTCTTCAATTTTAAGATGTCCTAGCC
7202524 AGCTCATAGATGGCAGCACAATTTCAAATCCTGTAGTTCTTCAATTTTAAGATGTCCTAGCC
1 AGCTCATAGATGGCAGCACAATTTCAAATCCTGTAGTTCTTCAATTTTAAGATGTCCTAGCC
7202586 A
1 A
7202587 TCTTTTATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (62 bp):
AGCTCATAGATGGCAGCACAATTTCAAATCCTGTAGTTCTTCAATTTTAAGATGTCCTAGCC
Found at i:7218671 original size:32 final size:32
Alignment explanation
Indices: 7218630--7218690 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
7218620 TAAAAAGTAC
* *
7218630 AAAAAATTTAAATATATTGTAATATTTGATTT
1 AAAAAATTTAAATACATTGTAAGATTTGATTT
*
7218662 AAAAAATTTAAGTACATTGTAAGATTTGA
1 AAAAAATTTAAATACATTGTAAGATTTGA
7218691 ATTTCTACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.41
Consensus pattern (32 bp):
AAAAAATTTAAATACATTGTAAGATTTGATTT
Found at i:7230840 original size:31 final size:31
Alignment explanation
Indices: 7230804--7230864 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
7230794 TATAATTTTA
7230804 TTATTAAATTATTTAAAAGTTTTTATTTAAG
1 TTATTAAATTATTTAAAAGTTTTTATTTAAG
7230835 TTATTAAATTATTTAAAAGTTTTTATTTAA
1 TTATTAAATTATTTAAAAGTTTTTATTTAA
7230865 ATGATTAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (31 bp):
TTATTAAATTATTTAAAAGTTTTTATTTAAG
Found at i:7233141 original size:29 final size:31
Alignment explanation
Indices: 7233075--7233151 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 31
7233065 AAAATAGATT
* * *
7233075 CACTCAATTATTAAAAAGTTTATATTTTGAT
1 CACTTAATTATTAAAAAGTTTATATTTTAAC
* *
7233106 AATTTAATTA-TAAAAAGTTT-TATTTTAAC
1 CACTTAATTATTAAAAAGTTTATATTTTAAC
*
7233135 CACTTAAATATCTAAAA
1 CACTTAATTAT-TAAAA
7233152 TTAATCACTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
29 14 0.39
30 10 0.28
31 12 0.33
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (31 bp):
CACTTAATTATTAAAAAGTTTATATTTTAAC
Found at i:7262133 original size:21 final size:21
Alignment explanation
Indices: 7262109--7262148 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7262099 AAAAGGACAT
7262109 AAAA-CAAAACTCAAAAATTCA
1 AAAATCAAAACT-AAAAATTCA
7262130 AAAATCAAAACTAAAAATT
1 AAAATCAAAACTAAAAATT
7262149 AATATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAATCAAAACTAAAAATTCA
Found at i:7262690 original size:14 final size:14
Alignment explanation
Indices: 7262671--7262698 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7262661 TTTGCAAGTA
7262671 AGTTTTTTTTTTCT
1 AGTTTTTTTTTTCT
7262685 AGTTTTTTTTTTCT
1 AGTTTTTTTTTTCT
7262699 CAACTACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (14 bp):
AGTTTTTTTTTTCT
Found at i:7269523 original size:20 final size:19
Alignment explanation
Indices: 7269490--7269559 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 19
7269480 AAATTGTTTG
* *
7269490 TAAAATTTAATTTAAATAT
1 TAAAATATATTTTAAATAT
* *
7269509 ATAAACTATATTTTAGATAT
1 -TAAAATATATTTTAAATAT
7269529 TAAAATATAATTATTACAA-AT
1 TAAAATAT-ATT-TTA-AATAT
*
7269550 TTAAATATAT
1 TAAAATATAT
7269560 AATTTTATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 7 0.17
20 20 0.50
21 12 0.30
22 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (19 bp):
TAAAATATATTTTAAATAT
Found at i:7270426 original size:6 final size:6
Alignment explanation
Indices: 7270415--7270444 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7270405 GAAAAAGGGT
7270415 AATTGG AATTGG AATTGG AATTGG AATTGG
1 AATTGG AATTGG AATTGG AATTGG AATTGG
7270445 TTGGAGTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (6 bp):
AATTGG
Found at i:7277082 original size:25 final size:25
Alignment explanation
Indices: 7277029--7277088 Score: 88
Period size: 24 Copynumber: 2.4 Consensus size: 25
7277019 CATATTTTTC
*
7277029 AAATAGATGAACTAATTTTTTTAAT
1 AAATAAATGAACTAATTTTTTTAAT
7277054 -AATAAATGAACT-ATTTTTTTGAAT
1 AAATAAATGAACTAATTTTTTT-AAT
7277078 AAATAAATGAA
1 AAATAAATGAA
7277089 AAACAAGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 8 0.25
24 14 0.44
25 10 0.31
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.40
Consensus pattern (25 bp):
AAATAAATGAACTAATTTTTTTAAT
Found at i:7277681 original size:14 final size:14
Alignment explanation
Indices: 7277662--7277691 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7277652 AACTAACTAG
7277662 ATCTCCTTCTTCCT
1 ATCTCCTTCTTCCT
7277676 ATCTCCTTCTTCCT
1 ATCTCCTTCTTCCT
7277690 AT
1 AT
7277692 AAAAGTAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.40, G:0.00, T:0.50
Consensus pattern (14 bp):
ATCTCCTTCTTCCT
Found at i:7284844 original size:24 final size:24
Alignment explanation
Indices: 7284816--7284863 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
7284806 CTATTGGATT
*
7284816 TAGTATATGTAAT-TTTAATTTTTA
1 TAGTATATG-AATATTAAATTTTTA
*
7284840 TAGTATTTGAATATTAAATTTTTA
1 TAGTATATGAATATTAAATTTTTA
7284864 ATATTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (24 bp):
TAGTATATGAATATTAAATTTTTA
Found at i:7286661 original size:6 final size:6
Alignment explanation
Indices: 7286654--7286690 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
7286644 GTGAAATGCT
* *
7286654 TTTGCT TTTGCT TTTGCA TTTGCA TTTGCA TTTGCA T
1 TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA T
7286691 CATACATTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (6 bp):
TTTGCA
Found at i:7286667 original size:12 final size:12
Alignment explanation
Indices: 7286650--7286688 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
7286640 TGTAGTGAAA
*
7286650 TGCTTTTGCTTT
1 TGCTTTTGCATT
7286662 TGCTTTTGCATT
1 TGCTTTTGCATT
*
7286674 TGCATTTGCATT
1 TGCTTTTGCATT
7286686 TGC
1 TGC
7286689 ATCATACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.08, C:0.18, G:0.18, T:0.56
Consensus pattern (12 bp):
TGCTTTTGCATT
Found at i:7294967 original size:1 final size:1
Alignment explanation
Indices: 7294961--7294985 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7294951 AACAAAACAT
7294961 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
7294986 GGGTCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7307459 original size:31 final size:32
Alignment explanation
Indices: 7307424--7307486 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
7307414 TTGCTTTAAG
*
7307424 AAATTCCAACAG-TTTTTTTTTTCATTCTTGT
1 AAATTCCAACAGTTTTTTTTTTTCATTATTGT
7307455 AAATTCCAACAGTTTTTTTTTTTCATTATTGT
1 AAATTCCAACAGTTTTTTTTTTTCATTATTGT
7307487 CTGTAAGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.24, C:0.14, G:0.06, T:0.56
Consensus pattern (32 bp):
AAATTCCAACAGTTTTTTTTTTTCATTATTGT
Found at i:7308241 original size:21 final size:21
Alignment explanation
Indices: 7308181--7308241 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
7308171 ATTTAATATT
* **
7308181 AATATTAATATAAAATTTAAA
1 AATATTATTATATTATTTAAA
* *
7308202 TATATTATTATATTTTTTAAA
1 AATATTATTATATTATTTAAA
7308223 AATATTATGTAT-TTATTTA
1 AATATTAT-TATATTATTTA
7308242 TTTTTTTGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 29 0.91
22 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AATATTATTATATTATTTAAA
Found at i:7308641 original size:9 final size:9
Alignment explanation
Indices: 7308627--7308660 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7308617 ATATTAATTT
7308627 ATTTTTTTA
1 ATTTTTTTA
7308636 ATTTTTTTA
1 ATTTTTTTA
*
7308645 ATTATTTTA
1 ATTTTTTTA
*
7308654 AATTTTT
1 ATTTTTT
7308661 AATATAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:7308738 original size:21 final size:22
Alignment explanation
Indices: 7308713--7308769 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
7308703 TTAAAAATTA
*
7308713 TTTTAGTA-TTATTTTTAT-TT
1 TTTTAATATTTATTTTTATGTT
*
7308733 GTTTTAATATTTGTTTTTATGTT
1 -TTTTAATATTTATTTTTATGTT
*
7308756 TTTTAA-ATATATTT
1 TTTTAATATTTATTT
7308770 GATTTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 13 0.43
22 15 0.50
23 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (22 bp):
TTTTAATATTTATTTTTATGTT
Found at i:7308790 original size:27 final size:25
Alignment explanation
Indices: 7308739--7308790 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
7308729 ATTTGTTTTA
* *
7308739 ATATTTGTTTTTATGTTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAAT
7308764 ATATTTGATTTATTATATTTTTAAAAT
1 ATATTTG-TTT-TTATATTTTTAAAAT
7308791 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 3 0.13
27 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (25 bp):
ATATTTGTTTTTATATTTTTAAAAT
Found at i:7316839 original size:6 final size:7
Alignment explanation
Indices: 7316818--7316842 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7316808 ATGTTTGCTT
7316818 AACCAAA
1 AACCAAA
7316825 AACCAAA
1 AACCAAA
7316832 AACCAAA
1 AACCAAA
7316839 AACC
1 AACC
7316843 TCACCTGCAT
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:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (7 bp):
AACCAAA
Found at i:7320619 original size:46 final size:46
Alignment explanation
Indices: 7320552--7320713 Score: 243
Period size: 46 Copynumber: 3.5 Consensus size: 46
7320542 AATTTTTATG
* * * *
7320552 GTTGAAAGATGCCATGGCAACATGACAGGAAATGAACAATACCATG
1 GTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATA
* *
7320598 GTTGAAAGATACCATGACAACATGACAGGAAATGAATAAGACAATA
1 GTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATA
7320644 GTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATA
1 GTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATA
* * *
7320690 GTTGAAAGACACTATGGCATCATG
1 GTTGAAAGATACCATGGCAACATG
7320714 TCGAAGATAA
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 105 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (46 bp):
GTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATA
Found at i:7323144 original size:46 final size:44
Alignment explanation
Indices: 7323040--7323147 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
7323030 TGTCTTTGAC
** * * *
7323040 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
7323084 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
7323130 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
7323148 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:7329284 original size:46 final size:44
Alignment explanation
Indices: 7329180--7329287 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
7329170 TGTCTTTGAC
** * * *
7329180 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
7329224 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
7329270 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
7329288 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:7337339 original size:795 final size:796
Alignment explanation
Indices: 7335583--7338920 Score: 4009
Period size: 795 Copynumber: 4.2 Consensus size: 796
7335573 CGACCAGGAC
* * * * * *
7335583 TGGACCACGTAGTGATGGGAGGGGGTGCTCAAATTTTATGGTCATTGAAGAAGCGGAATATTCCT
1 TGGACCACGGAGTAATGGGAAGGGGCGCTCGAATTTTATGGTCACTGAAGAAGCGGAATATTCCT
* * * * *
7335648 CTAGGTTTTGGGATAATGAAGGGTCCGTGTCTTTAAAAGACCGACTAAG-AAAAACTCAAGTGAA
66 CTAAGTTTTGGGGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCAAGTGAA
* * *
7335712 AATTGAAGGTCCTAAAGTGATATCAAAATATTGAACGAAAGAAACAAAAAAAAAAAATCACAATG
131 AATTGAAGGTCCTAAAGTGATACCAAAATATTGAACGAAAG------AAAAAAAAAACCACAATT
* * *
7335777 GTCCAAAATTGTAGTACAACACCCACAATTGTCCACTTTAGAATTGCCAATGCTTAAAAAAAAAA
190 GTCCACAATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCACTGCTT-AAAAAAAAA
* * * *
7335842 CCCGACTGAAACTCTGGACCTATTTGACGGTTCACATTTGAAGTTGAAAACCAGAGCCCAAATAC
254 CCCGACTGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAGCCCAAATAC
* * *
7335907 TGACTAGCTCTAGAATTAGTTACCCTTGGTTTGGACCCTCCCATATAATCCGACTCAATAAAATA
319 TGACTAGCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAAT-CGACCCAATAAAATA
* * * * *
7335972 TACCCATTTGTTTTCCTCCGGTAACGATGCTGTGTGTATAATCCTTTCAACCCGTTTATTCATTA
383 GACCCATTTGCTTTCCTCCGGTAACGATGCTGCGTGTACAATCCTCTCAACCCGTTTATTCATTA
* * *
7336037 TCTCCTTCTCCCCCACTGCGATTC-TCCATTCAAAAA-AGGCGTTGTACACTTTACCTTGGTGAA
448 TCTCCTTCTCCCCCACTGCGATTCTTGCATTCAAAAACA-GCGTCGTACACTTTACCTTGGAGAA
* ** * * * *
7336100 GCTGATGCATTTTTTCTTAGCCGTAACTAAACAAGCTCTCATTTCGATATCTTCGCACTGCTCTC
512 GCCGACACATTTTTCCTTAGCCGCAACCAAACAAGCTCTCATTTCGATATCTTCGCACCGCTCTC
* * * * * * * *
7336165 TTTCCATGAAGTCCATTGGTTTCCAACCAATTC-GGGACTGCCACCAACCAAGTTTCCACTTGTT
577 TTTTCGTTAAGTCCATTGATTTCCAACCAA-TCAGGGACTACCACCAAACAGGTTTGCACTTGTT
*
7336229 GGAA-CAGTGATG-GTGCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTTG
641 GGAAGCAGTGATGACT-CACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTTG
* * * * * *
7336292 CAGGATTTGTAAGCAGCGGCCTAAG-AAGTAAGGTCTTTGAAGGCAAGGATGCATGGACTGGATG
705 CAAGATTTGTAAGCGGCGACCTAAGAAAG-AAGGTCTTTGAAGGTAAGGATGTATGGACCGGATG
** * *
7336356 ATGGGTTGTCCGAAGTTT-TGTTCAGGAT
769 ATGGGTCATCCGAAGTTTCAGTT-GGGAT
* * * ** *
7336384 TGGACAACAGAGTAAT-AGAAGGGAGCGCTCGAATTTTATGGT-TGTCGAAGAAGCAGAATATTC
1 TGGACCACGGAGTAATGGGAAGGG-GCGCTCGAATTTTATGGTCACT-GAAGAAGCGGAATATTC
7336447 CTCTAAGTTTTGGGGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCAAGTG
64 CTCTAAGTTTTGGGGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCAAGTG
*
7336512 AAAATTGAAGGTCCTAGAGTGATACCAAAATATTGAACGAAAG-AAAAAAAAACCACAATTGTCC
129 AAAATTGAAGGTCCTAAAGTGATACCAAAATATTGAACGAAAGAAAAAAAAAACCACAATTGTCC
* *
7336576 ACAATTGTGGTACAACACCTACAATTGTCCACTTTAGAATTGCCACTACTTAAAAAAAAACCCGA
194 ACAATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCACTGCTTAAAAAAAAACCCGA
* * *
7336641 CCGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAACCCAAATACTAACT
259 CTGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAGCCCAAATACTGACT
**
7336706 AGCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAATCGAACCCAATAAAATAGACTT
324 AGCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAATCG-ACCCAATAAAATAGACCC
* * * * *
7336771 ATTTGCTTTCCTCCTGTAACGATGTTGCGTGTGCCATCCTCTCAACCCGTTTATTCATTATCTCT
388 ATTTGCTTTCCTCCGGTAACGATGCTGCGTGTACAATCCTCTCAACCCGTTTATTCATTATCTCC
* * *
7336836 TTCTCCCCTACTGCGATTCTTACATTCAAAAATAGCGTCGTACACTTTACCTTGGAGAAGCCGAC
453 TTCTCCCCCACTGCGATTCTTGCATTCAAAAACAGCGTCGTACACTTTACCTTGGAGAAGCCGAC
** * * * * *
7336901 GTATTTTTCCCTAGCTGCAACCAAACAAGCTCCCATTTCGATATCTTCGTACCGCTCTCTTTTTG
518 ACATTTTTCCTTAGCCGCAACCAAACAAGCTCTCATTTCGATATCTTCGCACCGCTCTCTTTTCG
* *
7336966 TTAAGTCCATTGATTTCCAACCAATCAGGGACTACCACCAAACATGTTTGAACTTGTTGGAAGCA
583 TTAAGTCCATTGATTTCCAACCAATCAGGGACTACCACCAAACAGGTTTGCACTTGTTGGAAGCA
* * * * *
7337031 GTGATGACTCACCCAATTTGTGCGCCTTCATCGCATTGAAGTATGATTTTTGATTCGCAAGATTT
648 GTGATGACTCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTTGCAAGATTT
* *
7337096 GTAAGCGGCGACCTAAGAAAGAAGGTTTTTGAAGGTAAGGATGTATGGACCGGATGATAGGTCAT
713 GTAAGCGGCGACCTAAGAAAGAAGGTCTTTGAAGGTAAGGATGTATGGACCGGATGATGGGTCAT
*
7337161 TCGAAGTTTCAGTTGGGAT
778 CCGAAGTTTCAGTTGGGAT
*
7337180 TGGACCATGGAGTAATGGGAAGGGGCGCTCGAATTTTATGGTCACTGAAGAAGCGGAATATT-CT
1 TGGACCACGGAGTAATGGGAAGGGGCGCTCGAATTTTATGGTCACTGAAGAAGCGGAATATTCCT
* * *
7337244 TTCAAGTTTTGAGGTAATGAAGGGTCCATACCTTTAAAAGACCGACTGA-AAAAAACTCAAGTGA
66 CT-AAGTTTTGGGGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCAAGTGA
* * ** *
7337308 AAATTGAAGGTTCTAGAGTGATATTAAAATATTGAACGAAAG-AAAAAAAAACTACAATTGTCCA
130 AAATTGAAGGTCCTAAAGTGATACCAAAATATTGAACGAAAGAAAAAAAAAACCACAATTGTCCA
* * * * *
7337372 CAATTGTGGTATAACACCCATAATTTTCCATTTTAAAATTGCCACTGCTTAAAAAAAAACCCGAC
195 CAATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCACTGCTTAAAAAAAAACCCGAC
* * * *
7337437 TAAAACTTTAGACCCACGTGACGGTTCACATTTGAAGTTGAGAACCGGAGCCCAAATACTGACTA
260 TGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAGCCCAAATACTGACTA
* * * *
7337502 GCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCTCAAATAATCTGACCCGATAAGATAGACCCA
325 GCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAATC-GACCCAATAAAATAGACCCA
* * * * * * *
7337567 TTTGCTTTTCTACGGTAACGATGTTGCGTGTACCATCTTTTCAACCCGTTTATTCATTATCTACT
389 TTTGCTTTCCTCCGGTAACGATGCTGCGTGTACAATCCTCTCAACCCGTTTATTCATTATCTCCT
* * * * * *
7337632 TCTCCCCCACTGTGATTCTCGCATTCAGAAACGGCGTCGTACACTTTACCTTGGTGAAGCCAACA
454 TCTCCCCCACTGCGATTCTTGCATTCAAAAACAGCGTCGTACACTTTACCTTGGAGAAGCCGACA
* * * * * *
7337697 CATTTTTCATTAGCCACAACCAAACAAGCTTTCGTTTCGATA-CGTTCACACTGCTCTCTTTTCG
519 CATTTTTCCTTAGCCGCAACCAAACAAGCTCTCATTTCGATATC-TTCGCACCGCTCTCTTTTCG
* * * * *
7337761 TTAAGTCCATTGATTTCCAACCAATTAGGGACTGCCACTAAGCGGGTTTGCACTTGTTGGAAGCA
583 TTAAGTCCATTGATTTCCAACCAATCAGGGACTACCACCAAACAGGTTTGCACTTGTTGGAAGCA
* * * * * * *
7337826 ATAATGGCACACCCAATTCGTGCACATTCCTCGCATTGAAACATGATTTTTG-TTTGGCAGGATT
648 GTGATGACTCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTT-GCAAGATT
*
7337890 TGTAAGCGGCGACCCAA-AAAGGAAGGTCTTTGAAGGTAAGGATGTATGGACCGGATGATGGGTC
712 TGTAAGCGGCGACCTAAGAAA-GAAGGTCTTTGAAGGTAAGGATGTATGGACCGGATGATGGGTC
**
7337954 ATCCGAAGTTTCAGCCGGGAT
776 ATCCGAAGTTTCAGTTGGGAT
* * *
7337975 TGGACCACCGAGTAATGGAAAGGGGCACTCGAATTTTATAGTTGTC-C--AAGAAGCGGAATATT
1 TGGACCACGGAGTAATGGGAAGGGGCGCTCGAATTTTAT-G--GTCACTGAAGAAGCGGAATATT
* * ** * *
7338037 CCTCCAGGTTTTGGGGTAATGAACAGTCCATGCCTTTAAAAGATCAACTGAGAAAAAACTCAAGT
63 CCTCTAAGTTTTGGGGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCAAGT
* *
7338102 GAAAATTAAAGGTCCTAAAGTGATACCAAAATATTGAACGAAAGAAAAAAAAAACCAAAATTGTC
128 GAAAATTGAAGGTCCTAAAGTGATACCAAAATATTGAACGAAAGAAAAAAAAAACCACAATTGTC
* * * * *
7338167 TACAATTGTGGTACAAGACCTACAATTGTCCACTTTAGAATTGCTACTGCTT-AAAAAAAA-CTG
193 CACAATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCACTGCTTAAAAAAAAACCCG
* * * * * *
7338230 ACTGAAACTCCAGACCCATGTGAAGGTTCACAATTAAAGTTGAGAACCGGAGCCCAAATATTGAC
258 ACTGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAGCCCAAATACTGAC
* * * * *** *
7338295 TAGCTCTGGAATTAGTCACCATTGGTTTAGACCCTCCTATATAATCCAACTTGATAAAATATACC
323 TAGCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAAT-CGACCCAATAAAATAGACC
* * ** *
7338360 TATTTCCTTTCCTCCGACAACGATGCTGCGTGTATAATCCTCTCAACCCGTTTATTCATTATCTC
387 CATTTGCTTTCCTCCGGTAACGATGCTGCGTGTACAATCCTCTCAACCCGTTTATTCATTATCTC
** * * *
7338425 CTTCTCCCTTACTGCGATTCTTGCATTTAAAAACGGCGTTGTACACTTTACCTTGGCA-AAGCCG
452 CTTCTCCCCCACTGCGATTCTTGCATTCAAAAACAGCGTCGTACACTTTACCTTGG-AGAAGCCG
* * * *
7338489 ACACATTTTTCCTTAGCCGCAACCAAACAAGCTCTCGTTTCAATATATTCGCACCACTCTCTTTT
516 ACACATTTTTCCTTAGCCGCAACCAAACAAGCTCTCATTTCGATATCTTCGCACCGCTCTCTTTT
* * *
7338554 CGTTAAGTCTATTGATTTCCAACCAATCAGGGACTACCACCAAACGGGTTTGCACTTGTTGGAAA
581 CGTTAAGTCCATTGATTTCCAACCAATCAGGGACTACCACCAAACAGGTTTGCACTTGTTGGAAG
* *
7338619 CAGTGATGACGCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTTGCAATA-
646 CAGTGATGACTCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTTGCAAGAT
* *
7338683 TT-T-------G---T-------AA-G-C-------G--A--A-G-A-GGACCAGATGATAGGTC
711 TTGTAAGCGGCGACCTAAGAAAGAAGGTCTTTGAAGGTAAGGATGTATGGACCGGATGATGGGTC
* *
7338714 ATCCGAA-ATTCTGATTGGGAT
776 ATCCGAAGTTTCAG-TTGGGAT
* * * *
7338735 TGGACCAAGGAGTAATAGGAGGGGGCGCTCGAATTTTATGGTC-GTCGAAGAAGCGGAATATTCC
1 TGGACCACGGAGTAATGGGAAGGGGCGCTCGAATTTTATGGTCACT-GAAGAAGCGGAATATTCC
* *
7338799 T-TCAAGTTTTTGGGTAATAAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCAAGTG
65 TCT-AAGTTTTGGGGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCAAGTG
* * * *
7338863 AAAATTGAAAGTCCTAGAGTAATACCAAAATA---AA-GAAAG-AAAAAAAAACCAAAATTGT
129 AAAATTGAAGGTCCTAAAGTGATACCAAAATATTGAACGAAAGAAAAAAAAAACCACAATTGT
7338921 AAAGTCAAAT
Statistics
Matches: 2207, Mismatches: 297, Indels: 112
0.84 0.11 0.04
Matches are distributed among these distances:
755 19 0.01
756 5 0.00
757 5 0.00
759 5 0.00
760 160 0.07
761 1 0.00
762 1 0.00
763 1 0.00
765 1 0.00
767 1 0.00
774 1 0.00
775 1 0.00
776 2 0.00
786 1 0.00
793 3 0.00
794 212 0.10
795 1278 0.58
796 281 0.13
797 76 0.03
798 3 0.00
800 6 0.00
801 90 0.04
802 54 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (796 bp):
TGGACCACGGAGTAATGGGAAGGGGCGCTCGAATTTTATGGTCACTGAAGAAGCGGAATATTCCT
CTAAGTTTTGGGGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCAAGTGAA
AATTGAAGGTCCTAAAGTGATACCAAAATATTGAACGAAAGAAAAAAAAAACCACAATTGTCCAC
AATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCACTGCTTAAAAAAAAACCCGACT
GAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAGCCCAAATACTGACTAG
CTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAATCGACCCAATAAAATAGACCCATT
TGCTTTCCTCCGGTAACGATGCTGCGTGTACAATCCTCTCAACCCGTTTATTCATTATCTCCTTC
TCCCCCACTGCGATTCTTGCATTCAAAAACAGCGTCGTACACTTTACCTTGGAGAAGCCGACACA
TTTTTCCTTAGCCGCAACCAAACAAGCTCTCATTTCGATATCTTCGCACCGCTCTCTTTTCGTTA
AGTCCATTGATTTCCAACCAATCAGGGACTACCACCAAACAGGTTTGCACTTGTTGGAAGCAGTG
ATGACTCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTTGCAAGATTTGTA
AGCGGCGACCTAAGAAAGAAGGTCTTTGAAGGTAAGGATGTATGGACCGGATGATGGGTCATCCG
AAGTTTCAGTTGGGAT
Found at i:7340012 original size:21 final size:21
Alignment explanation
Indices: 7339987--7340055 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
7339977 TATAATGATT
7339987 ATTATTATGATTTTATATTAA
1 ATTATTATGATTTTATATTAA
*
7340008 ATTATTATAATTATTA-ATT-A
1 ATTATTATGATT-TTATATTAA
* * *
7340028 A-CATTATGGTTTTATATTAG
1 ATTATTATGATTTTATATTAA
7340048 ATTATTAT
1 ATTATTAT
7340056 TATTAGCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.26
20 3 0.08
21 19 0.50
22 3 0.08
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (21 bp):
ATTATTATGATTTTATATTAA
Found at i:7341521 original size:23 final size:24
Alignment explanation
Indices: 7341461--7341526 Score: 125
Period size: 24 Copynumber: 2.8 Consensus size: 24
7341451 GATTTAAAAT
7341461 ATTCTGGGTGTGTTTGGGTTGGAC
1 ATTCTGGGTGTGTTTGGGTTGGAC
7341485 ATTCTGGGTGTGTTTGGGTTGGAC
1 ATTCTGGGTGTGTTTGGGTTGGAC
7341509 ATTCT-GGTGTGTTTGGGT
1 ATTCTGGGTGTGTTTGGGT
7341527 GGAAATCCGC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 13 0.31
24 29 0.69
ACGTcount: A:0.08, C:0.08, G:0.41, T:0.44
Consensus pattern (24 bp):
ATTCTGGGTGTGTTTGGGTTGGAC
Found at i:7343348 original size:15 final size:15
Alignment explanation
Indices: 7343310--7343341 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7343300 AAATTGAATT
7343310 TTCATCAATCCAAAC
1 TTCATCAATCCAAAC
*
7343325 TTCATCAATCCGAAC
1 TTCATCAATCCAAAC
7343340 TT
1 TT
7343342 GTTCAATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.31
Consensus pattern (15 bp):
TTCATCAATCCAAAC
Found at i:7347130 original size:95 final size:94
Alignment explanation
Indices: 7346922--7347111 Score: 263
Period size: 95 Copynumber: 2.0 Consensus size: 94
7346912 TCTCAGCCAT
* * * * ** * *
7346922 TCATTAAGATTACAAGTATTCTCTATCAACATTTATCAATTTGGCATGTTAATTAAGTTATAAAA
1 TCATTAATATTATAAATATTTTC-ATCAACATTTATCAATTTCACATATTAATTAAATTATAAAA
* *
7346987 TATATAACTATTTTCTCACTTGGTTTATAA
65 TATATAACTATTTTCTCACTTGGCTTAAAA
*
7347017 TCATTAATATTATAAATATCTTTCATCAACATTTATCAATTTCACATATTGATTAAATTATAAAA
1 TCATTAATATTATAAATAT-TTTCATCAACATTTATCAATTTCACATATTAATTAAATTATAAAA
7347082 TATATAACTATTTTCTCACTTGGCTTAAAA
65 TATATAACTATTTTCTCACTTGGCTTAAAA
7347112 CTAGTTGATG
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
95 80 0.96
96 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (94 bp):
TCATTAATATTATAAATATTTTCATCAACATTTATCAATTTCACATATTAATTAAATTATAAAAT
ATATAACTATTTTCTCACTTGGCTTAAAA
Found at i:7347319 original size:2 final size:2
Alignment explanation
Indices: 7347308--7347342 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
7347298 TAACCTTGTA
7347308 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7347343 TTGTAATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7363494 original size:35 final size:36
Alignment explanation
Indices: 7363439--7363514 Score: 111
Period size: 35 Copynumber: 2.1 Consensus size: 36
7363429 GTTTAGGGTC
* *
7363439 TCAATAAAATTTTGATCTCATTTTTTAAGTTTTGA-
1 TCAATAAAATTGTGATCTCATTTTTAAAGTTTTGAT
7363474 TCAATAAAATTGT-ATACTCATTTTTAAAGTTTTGAT
1 TCAATAAAATTGTGAT-CTCATTTTTAAAGTTTTGAT
7363510 TCAAT
1 TCAAT
7363515 CTGAAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 2 0.05
35 30 0.81
36 5 0.14
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.49
Consensus pattern (36 bp):
TCAATAAAATTGTGATCTCATTTTTAAAGTTTTGAT
Found at i:7366573 original size:30 final size:30
Alignment explanation
Indices: 7366530--7366589 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
7366520 AAAGCAGCGT
*
7366530 CTGTACACGACCATGTCGGCCAAGGACTGC
1 CTGTACACCACCATGTCGGCCAAGGACTGC
*
7366560 CTGTGCACCACCATGTCGGCCAAGGACTGC
1 CTGTACACCACCATGTCGGCCAAGGACTGC
7366590 GGCCACCACG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.17
Consensus pattern (30 bp):
CTGTACACCACCATGTCGGCCAAGGACTGC
Found at i:7376772 original size:35 final size:35
Alignment explanation
Indices: 7376726--7376816 Score: 164
Period size: 35 Copynumber: 2.6 Consensus size: 35
7376716 TACATTTCTT
*
7376726 ATACCATACCTACATTTCACAGCTCAGTATGGATA
1 ATACCATACCTACATTTCACAACTCAGTATGGATA
*
7376761 ATACCATACCTACATTTCACAACTCAGTATGGATG
1 ATACCATACCTACATTTCACAACTCAGTATGGATA
7376796 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
7376817 CTTTGCCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.29
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATA
Found at i:7384244 original size:35 final size:35
Alignment explanation
Indices: 7384198--7384288 Score: 164
Period size: 35 Copynumber: 2.6 Consensus size: 35
7384188 TACATTTCTT
*
7384198 ATACCATACCTACATTTCACAGCTCAGTATGGATA
1 ATACCATACCTACATTTCACAACTCAGTATGGATA
*
7384233 ATACCATACCTACATTTCACAACTCAGTATGGATG
1 ATACCATACCTACATTTCACAACTCAGTATGGATA
7384268 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
7384289 CTTTGCCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.29
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATA
Found at i:7384246 original size:55 final size:54
Alignment explanation
Indices: 7384144--7384250 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 54
7384134 CCTCATTGAA
* * *
7384144 ATACCATACCTACATTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTT
1 ATACCATACCTACATTTTCAACTCAGTATGGGAAATACCATACCTACATTTCTT
7384198 ATACCATACCTACA-TTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTC
1 ATACCATACCTACATTTTCA-A-CTCAGTATGGGA-AATACCATACCTACATTTC
7384251 ACAACTCAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
53 4 0.09
54 18 0.38
55 25 0.53
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (54 bp):
ATACCATACCTACATTTTCAACTCAGTATGGGAAATACCATACCTACATTTCTT
Found at i:7390173 original size:2 final size:2
Alignment explanation
Indices: 7390166--7390321 Score: 107
Period size: 2 Copynumber: 82.5 Consensus size: 2
7390156 AAAGAGATTT
* * * *
7390166 GA GA GA GA GA GA GA GG GA GA GA GA GA GG GA GA GG GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * *
7390208 GA GG GA GA GA GA -A G- GA -A GA -A GG GA GA GA GA GA TG- GA GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA GA
* * *
7390246 GA GA -A G- GA GA GG GA GA GA GA GA -A AA GA AA G- GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
7390284 GA AA GA GA GA G- GG GA GG GA GA GA GA TA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
7390322 GGGGAAAATG
Statistics
Matches: 117, Mismatches: 26, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
1 10 0.09
2 106 0.91
3 1 0.01
ACGTcount: A:0.45, C:0.00, G:0.54, T:0.01
Consensus pattern (2 bp):
GA
Found at i:7390234 original size:46 final size:46
Alignment explanation
Indices: 7390184--7390308 Score: 143
Period size: 46 Copynumber: 2.8 Consensus size: 46
7390174 GAGAGAGGGA
* *
7390184 GAGAGAGAGGGAGAGGGAGAGGGAGAGGGAGAGAGAAG-GAAGAAGG
1 GAGAGAGA-GGAGAGGGAGAGGGAGAGGGAGAGAGAAGAAAAGAAAG
*
7390230 GAGAGAGA-GATGGAGGGAGAAGGAGAGGGAGAGAG-AGAAAAGAAAG
1 GAGAGAGAGGA--GAGGGAGAGGGAGAGGGAGAGAGAAGAAAAGAAAG
* *
7390276 GAGAGAGA-GAAAGAGAGAGGG-GAGGGAGAGAGA
1 GAGAGAGAGGAGAGGGAGAGGGAGAGGGAGAGAGA
7390309 TAGAGAGAGA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
43 11 0.16
44 10 0.14
45 2 0.03
46 46 0.67
ACGTcount: A:0.45, C:0.00, G:0.54, T:0.01
Consensus pattern (46 bp):
GAGAGAGAGGAGAGGGAGAGGGAGAGGGAGAGAGAAGAAAAGAAAG
Found at i:7390518 original size:97 final size:101
Alignment explanation
Indices: 7390411--7390619 Score: 275
Period size: 109 Copynumber: 2.0 Consensus size: 101
7390401 GATAGGGAGG
7390411 GAGAGATATGAGTTGAGATGGAAT-G-G-A-AA-AAGGGTTTATATAAGAAAAAAAAGTAGTCAT
1 GAGAGATATGAGTTGAGATGGAATGGAGAATAATAAGGGTTTATATAAG-AAAAAAAGTAGTCAT
*
7390471 TAGTAGGGGTTAAATGGATAGAGAAAGGGGGGAGAGA
65 TAGTAGGGGTTAAATGGAGAGAGAAAGGGGGGAGAGA
7390508 GAGAGATATGAGTTGAGATGGAATGGAAAAATGAATTGAATTAAGGGTTTATATAAGAAAAAAAG
1 GAGAGATATGAGTTGAGATGGAATGG----A-GAA-T-AA-TAAGGGTTTATATAAGAAAAAAAG
* *
7390573 TAGTCATTAGTAGGGGTTAAGTGGAGAGAGAGAGGGGGGAGAGA
58 TAGTCATTAGTAGGGGTTAAATGGAGAGAGAAAGGGGGGAGAGA
7390617 GAG
1 GAG
7390620 TGAGAGAGGG
Statistics
Matches: 96, Mismatches: 3, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
97 24 0.25
98 1 0.01
104 1 0.01
105 1 0.01
108 2 0.02
109 52 0.54
110 15 0.16
ACGTcount: A:0.42, C:0.01, G:0.36, T:0.21
Consensus pattern (101 bp):
GAGAGATATGAGTTGAGATGGAATGGAGAATAATAAGGGTTTATATAAGAAAAAAAGTAGTCATT
AGTAGGGGTTAAATGGAGAGAGAAAGGGGGGAGAGA
Found at i:7390603 original size:2 final size:2
Alignment explanation
Indices: 7390596--7390775 Score: 107
Period size: 2 Copynumber: 92.0 Consensus size: 2
7390586 GGGTTAAGTG
* * * * * *
7390596 GA GA GA GA GA G- GG GG GA GA GA GA GT GA GA GA GG GG GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * *
7390637 GA GA AA GA GG GA TA TA GA GG GA GA GA GG GA GA GG GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
7390679 GA GA GG GA GA AA GG GG GA GA GA GA G- GA -A GA AA GA G- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * *
7390718 GA GG GG GA GA GG GA GA GA GA GA GG GA GG GA GG GT GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7390760 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
7390776 TGAGTTGAGA
Statistics
Matches: 136, Mismatches: 38, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
1 4 0.03
2 132 0.97
ACGTcount: A:0.40, C:0.00, G:0.58, T:0.02
Consensus pattern (2 bp):
GA
Found at i:7390624 original size:21 final size:22
Alignment explanation
Indices: 7390600--7390640 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7390590 TAAGTGGAGA
7390600 GAGAGAGGGGG-GAGAGAGAGT
1 GAGAGAGGGGGAGAGAGAGAGT
*
7390621 GAGAGAGGGGGAGGGAGAGA
1 GAGAGAGGGGGAGAGAGAGA
7390641 AAGAGGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.63, T:0.02
Consensus pattern (22 bp):
GAGAGAGGGGGAGAGAGAGAGT
Found at i:7390671 original size:36 final size:38
Alignment explanation
Indices: 7390595--7390772 Score: 146
Period size: 39 Copynumber: 4.6 Consensus size: 38
7390585 GGGGTTAAGT
* * * *
7390595 GGAGAGAGAGAGGGGGGAGAGAGAGTGAGAGAGGGGGAG
1 GGAGAGAGAGA-GAGGGAGAAAGAGGGAGAGAGGGAGAG
* *
7390634 GGAGAGA-A-AGAGGGATATAGAGGGAGAGAGGGAGAG
1 GGAGAGAGAGAGAGGGAGAAAGAGGGAGAGAGGGAGAG
*
7390670 GGAGAGAGAGAGAGGGAGAAAGGGGGAGAGAGAGGA-AG
1 GGAGAGAGAGAGAGGGAGAAAGAGGGAGAGAG-GGAGAG
** * ** *
7390708 AAAGAGGAGAGAGGGGGAGAGGGAGAGAGAGAGGGAGGGAG
1 GGAGA-GAGAGAGAGGGAGAAAGAGGGAGAGAGGGA--GAG
* * *
7390749 GGTGAGAGAGAGAGAGAGAGAGAG
1 GGAGAGAGAGAGAGGGAGAAAGAG
7390773 AGATGAGTTG
Statistics
Matches: 111, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
36 29 0.26
37 2 0.02
38 28 0.25
39 32 0.29
40 16 0.14
41 4 0.04
ACGTcount: A:0.39, C:0.00, G:0.58, T:0.02
Consensus pattern (38 bp):
GGAGAGAGAGAGAGGGAGAAAGAGGGAGAGAGGGAGAG
Found at i:7390855 original size:2 final size:2
Alignment explanation
Indices: 7390843--7390897 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
7390833 GGGTTAAGTG
* * *
7390843 GA GA TA GA GA GA GA G- GG GA GA GA GA GA GA GG GA GA -A G- GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
7390882 GA GA AA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
7390898 TATGAGTTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.47, C:0.00, G:0.51, T:0.02
Consensus pattern (2 bp):
GA
Found at i:7393001 original size:5 final size:5
Alignment explanation
Indices: 7392991--7393016 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7392981 ATTGGAGGGA
7392991 GAGAT GAGAT GAGAT GAGAT GAGAT G
1 GAGAT GAGAT GAGAT GAGAT GAGAT G
7393017 GCTTTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.42, T:0.19
Consensus pattern (5 bp):
GAGAT
Found at i:7395605 original size:36 final size:36
Alignment explanation
Indices: 7395533--7395681 Score: 226
Period size: 36 Copynumber: 4.1 Consensus size: 36
7395523 GCTCAGGATG
* * **
7395533 CTTATGAGAGGAAAATGAGATGTAAAACAGCATATCA
1 CTTATAAGAGGAAAATGAGAT-TTAAACAGTTTATCA
7395570 CTTATAAGAGGAAAATGAGATTTAAACAGTTTATCA
1 CTTATAAGAGGAAAATGAGATTTAAACAGTTTATCA
*
7395606 CTTATATGAGGAAAATGAGATTTAAACAGTTTATCA
1 CTTATAAGAGGAAAATGAGATTTAAACAGTTTATCA
*
7395642 CTTACAAGAGGAAAATGAGATTTAAAACAGTTTATCA
1 CTTATAAGAGGAAAATGAGATTT-AAACAGTTTATCA
7395679 CTT
1 CTT
7395682 CAGCAATTAT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
36 68 0.65
37 36 0.35
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (36 bp):
CTTATAAGAGGAAAATGAGATTTAAACAGTTTATCA
Found at i:7398498 original size:57 final size:54
Alignment explanation
Indices: 7398437--7398544 Score: 137
Period size: 54 Copynumber: 1.9 Consensus size: 54
7398427 TTCGATCTAG
7398437 AAAAAAACCATTCGTTTCGT-CATACATATCATTGAAAGATTTATTGATCCCATCAAA
1 AAAAAAACCATTCGTTTCGTGC--AC--ATCATTGAAAGATTTATTGATCCCATCAAA
** * *
7398494 AAAAAAGTCATTTGTTTCGTGCACATCATTGAAAGATTTATTGATTCCATC
1 AAAAAAACCATTCGTTTCGTGCACATCATTGAAAGATTTATTGATCCCATC
7398545 GAGTAATATG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
54 26 0.57
56 2 0.04
57 17 0.37
58 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (54 bp):
AAAAAAACCATTCGTTTCGTGCACATCATTGAAAGATTTATTGATCCCATCAAA
Found at i:7400631 original size:2 final size:2
Alignment explanation
Indices: 7400624--7400655 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7400614 CCACAAACTC
7400624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7400656 TGCACGTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7410552 original size:21 final size:21
Alignment explanation
Indices: 7410528--7410570 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7410518 TGACTACAAA
7410528 TATGAACTTGCGACATATTTC
1 TATGAACTTGCGACATATTTC
7410549 TATGAACTTGCGACATATTTC
1 TATGAACTTGCGACATATTTC
7410570 T
1 T
7410571 CCCTGATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (21 bp):
TATGAACTTGCGACATATTTC
Found at i:7419473 original size:28 final size:28
Alignment explanation
Indices: 7419435--7419488 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
7419425 TTTGCAAACC
7419435 AAATATACTACAAATAATGGCAGAGGCA
1 AAATATACTACAAATAATGGCAGAGGCA
7419463 AAATATACTACAAATAATGGCAGAGG
1 AAATATACTACAAATAATGGCAGAGG
7419489 ATCTCATAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.19
Consensus pattern (28 bp):
AAATATACTACAAATAATGGCAGAGGCA
Found at i:7422293 original size:13 final size:13
Alignment explanation
Indices: 7422265--7422305 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
7422255 AAATTTTTTG
*
7422265 ATTTAATA-TAAA
1 ATTTAATATTTAA
7422277 ATTTAATATTTAA
1 ATTTAATATTTAA
7422290 ATTTAATATTTAA
1 ATTTAATATTTAA
7422303 ATT
1 ATT
7422306 ATATTAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTAATATTTAA
Found at i:7437490 original size:17 final size:17
Alignment explanation
Indices: 7437468--7437502 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7437458 GAATGCTCTC
*
7437468 TGTTTCTTATTCTTCTT
1 TGTTTCTTATTATTCTT
*
7437485 TGTTTCTTTTTATTCTT
1 TGTTTCTTATTATTCTT
7437502 T
1 T
7437503 TTCTTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTTTCTTATTATTCTT
Found at i:7437572 original size:13 final size:13
Alignment explanation
Indices: 7437532--7437565 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7437522 ACATATATAT
* *
7437532 ATAATATTATTTA
1 ATAATAATAGTTA
7437545 ATAATAATAGTTA
1 ATAATAATAGTTA
7437558 ATAATAAT
1 ATAATAAT
7437566 TTATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATAATAATAGTTA
Found at i:7437722 original size:17 final size:18
Alignment explanation
Indices: 7437689--7437723 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7437679 TTAATCTACA
*
7437689 ATTTAACTTTCATCCTTT
1 ATTTAACTTTAATCCTTT
7437707 ATTTAA-TTTAATCCTTT
1 ATTTAACTTTAATCCTTT
7437724 TTACTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTAACTTTAATCCTTT
Found at i:7443941 original size:32 final size:32
Alignment explanation
Indices: 7443905--7443965 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
7443895 TTATTTTTTT
* *
7443905 TCACTCCTGTTAGATAAGTTATCAATTTTAAA
1 TCACTCCTATTAAATAAGTTATCAATTTTAAA
* * *
7443937 TCACTCTTATTAAATAAGTTGTTAATTTT
1 TCACTCCTATTAAATAAGTTATCAATTTT
7443966 TGTTACTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (32 bp):
TCACTCCTATTAAATAAGTTATCAATTTTAAA
Found at i:7444982 original size:12 final size:10
Alignment explanation
Indices: 7444941--7445028 Score: 58
Period size: 10 Copynumber: 8.8 Consensus size: 10
7444931 CAAATTTTAA
*
7444941 ATATATTTTT
1 ATATTTTTTT
7444951 ATAATTTTTTT
1 AT-ATTTTTTT
*
7444962 GAGTA-TTTTCT
1 -A-TATTTTTTT
7444973 ATATTTTTTT
1 ATATTTTTTT
*
7444983 ATA-TTTTTA
1 ATATTTTTTT
**
7444992 ATATTTTTGC
1 ATATTTTTTT
7445002 A-ATTTTATTT
1 ATATTTT-TTT
*
7445012 ATATTTTCTT
1 ATATTTTTTT
7445022 A-ATTTTT
1 ATATTTTT
7445029 AGAATCATGA
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
9 20 0.33
10 21 0.34
11 17 0.28
12 2 0.03
13 1 0.02
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:7445523 original size:15 final size:16
Alignment explanation
Indices: 7445503--7445535 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7445493 ATATATATTT
7445503 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
7445518 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
7445535 T
1 T
7445536 ATAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:7445623 original size:22 final size:22
Alignment explanation
Indices: 7445581--7445635 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7445571 ATTTTAAGAA
*
7445581 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
7445602 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
7445624 GTGTTTAAATAT
1 TTGTTTTAATAT
7445636 ATTTGATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:7445656 original size:26 final size:24
Alignment explanation
Indices: 7445610--7445657 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
7445600 ATTTGTTTTA
*
7445610 ATATTTGTTTTTATGTGTTTAAAT
1 ATATTTGTTTTTATATGTTTAAAT
*
7445634 ATATTTGATTTATTATATTTTTAA
1 ATATTTG-TTT-TTATATGTTTAA
7445658 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 3 0.15
26 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.62
Consensus pattern (24 bp):
ATATTTGTTTTTATATGTTTAAAT
Found at i:7448023 original size:13 final size:13
Alignment explanation
Indices: 7448005--7448045 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
7447995 ACTAGTAGTG
7448005 ACAATTTTATTGA
1 ACAATTTTATTGA
7448018 ACAATTTT-TATGA
1 ACAATTTTAT-TGA
7448031 GACAATTTTA-TGA
1 -ACAATTTTATTGA
7448044 AC
1 AC
7448046 CATAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 3 0.12
13 14 0.56
14 8 0.32
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (13 bp):
ACAATTTTATTGA
Found at i:7448772 original size:21 final size:21
Alignment explanation
Indices: 7448746--7448786 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7448736 AGGTGTTCCA
*
7448746 TTTACTGCCGCTTTTACTTTC
1 TTTACTACCGCTTTTACTTTC
* *
7448767 TTTACTATCTCTTTTACTTT
1 TTTACTACCGCTTTTACTTT
7448787 GTAACTCACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTACTACCGCTTTTACTTTC
Found at i:7455692 original size:18 final size:19
Alignment explanation
Indices: 7455669--7455709 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
7455659 GGTATTTGAA
7455669 TTTGATAATTAAATTT-AT
1 TTTGATAATTAAATTTAAT
**
7455687 TTTGATTTTTAAATTTAAT
1 TTTGATAATTAAATTTAAT
7455706 TTTG
1 TTTG
7455710 TCAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTGATAATTAAATTTAAT
Found at i:7469488 original size:124 final size:124
Alignment explanation
Indices: 7469355--7469599 Score: 454
Period size: 124 Copynumber: 2.0 Consensus size: 124
7469345 GATAAAAAAA
* *
7469355 ATATATAAAATTGATATTTATTTCAAAAACTAATCAAGAAACTAAGGCATAGTAATCCAATTAAT
1 ATATATAAAATTGATATTTATTTCAAAAACTAATCAAGAAACTAAGACATAATAATCCAATTAAT
7469420 GACCAACCAGTCCATTTGTTCAATAAAAAGATTTCGATAGGCACATGTAATGAAATATT
66 GACCAACCAGTCCATTTGTTCAATAAAAAGATTTCGATAGGCACATGTAATGAAATATT
*
7469479 ATATATAAAATTGATATTTATTTCGAAAACTAATCAAGAAACTAAGACATAATAATCCAATTAAT
1 ATATATAAAATTGATATTTATTTCAAAAACTAATCAAGAAACTAAGACATAATAATCCAATTAAT
*
7469544 GACCAACCAGTCCATTTGTTCAATAAAAAGATTTTGATAGGCACATGTAATGAAAT
66 GACCAACCAGTCCATTTGTTCAATAAAAAGATTTCGATAGGCACATGTAATGAAAT
7469600 TGATTGAGAA
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 117 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (124 bp):
ATATATAAAATTGATATTTATTTCAAAAACTAATCAAGAAACTAAGACATAATAATCCAATTAAT
GACCAACCAGTCCATTTGTTCAATAAAAAGATTTCGATAGGCACATGTAATGAAATATT
Found at i:7476635 original size:12 final size:12
Alignment explanation
Indices: 7476618--7476660 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
7476608 TTGAGTAGAA
7476618 ATTTAATTAATT
1 ATTTAATTAATT
7476630 ATTTAAATTAATT
1 ATTT-AATTAATT
* * *
7476643 CTGTAATTAATA
1 ATTTAATTAATT
7476655 ATTTAA
1 ATTTAA
7476661 AATGTTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (12 bp):
ATTTAATTAATT
Found at i:7477174 original size:27 final size:27
Alignment explanation
Indices: 7477136--7477201 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
7477126 TTTAATGCCT
7477136 TATTGGTGTGTTTGGGAAGATATGA-TA
1 TATTGGTGTGTTTGGGAAGATAT-ATTA
* *
7477163 TATTGGTGTGTTTGGGAGGCTATATTA
1 TATTGGTGTGTTTGGGAAGATATATTA
*
7477190 TACTGGTGTGTT
1 TATTGGTGTGTT
7477202 ATGGAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.44
Consensus pattern (27 bp):
TATTGGTGTGTTTGGGAAGATATATTA
Found at i:7477874 original size:15 final size:15
Alignment explanation
Indices: 7477855--7477890 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
7477845 AACCTAACCC
*
7477855 AAAAAAAAAAACAAAG
1 AAAAAAAAGAA-AAAG
7477871 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
7477886 AAAAA
1 AAAAA
7477891 CCTACCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:7477890 original size:47 final size:45
Alignment explanation
Indices: 7477839--7477950 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 45
7477829 TAAGCCCCCC
7477839 AAAAAAAACCTAACCCAAAAAAA-AAAACAAAGAAAAAAAAG--AAA
1 AAAAAAAACCTAA-CCAAAAAAACAAAACAAA-AAAAAAAAGAAAAA
* **
7477883 AAGAAAAACCT-ACCAAAAAAACCTAACCCAAAAAAAAAAAGAAAAA
1 AAAAAAAACCTAACCAAAAAAA-C-AAAACAAAAAAAAAAAGAAAAA
7477929 AAAGAAAAACCTAA-CAAAAAAA
1 AAA-AAAAACCTAACCAAAAAAA
7477951 GATAAAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
42 9 0.16
43 1 0.02
44 19 0.33
45 6 0.11
46 5 0.09
47 16 0.28
48 1 0.02
ACGTcount: A:0.76, C:0.16, G:0.04, T:0.04
Consensus pattern (45 bp):
AAAAAAAACCTAACCAAAAAAACAAAACAAAAAAAAAAAGAAAAA
Found at i:7477902 original size:13 final size:15
Alignment explanation
Indices: 7477886--7477918 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7477876 AAAGAAAAAG
7477886 AAAAACCT-A-CCAA
1 AAAAACCTAACCCAA
7477899 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
7477914 AAAAA
1 AAAAA
7477919 AAAAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 1 0.06
15 9 0.50
ACGTcount: A:0.67, C:0.27, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:7477958 original size:57 final size:57
Alignment explanation
Indices: 7477840--7477964 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 57
7477830 AAGCCCCCCA
* ***
7477840 AAAAAAACCTAACCCAAAAAAAAAAACAAAGAAAAAAAAGAAAAAGAAAAACCTACC
1 AAAAAAACCTAACCCAAAAAAAAAAACAAAGAAAAAAAAGAAAAACAAAAAAAGACC
* * *
7477897 AAAAAAACCTAACCCAAAAAAAAAAAGAAA-AAAAAGAAA-AACCTAACAAAAAAAGA-T
1 AAAAAAACCTAACCCAAAAAAAAAAACAAAGAAAAA-AAAGAA--AAACAAAAAAAGACC
7477954 AAAAAAACCTA
1 AAAAAAACCTA
7477965 GCCACCTAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 7 0.12
57 43 0.74
58 8 0.14
ACGTcount: A:0.74, C:0.16, G:0.05, T:0.05
Consensus pattern (57 bp):
AAAAAAACCTAACCCAAAAAAAAAAACAAAGAAAAAAAAGAAAAACAAAAAAAGACC
Found at i:7484962 original size:129 final size:129
Alignment explanation
Indices: 7484780--7485013 Score: 414
Period size: 129 Copynumber: 1.8 Consensus size: 129
7484770 AATTTTTACT
*
7484780 TAATGGTATAATTTCGATTATGTAGTAACTCTTAAATCTCAATTATTCAATTTAATCCTTATTTG
1 TAATGGTATAATTTCGATTATGTAGTAACGCTTAAATCTCAATTATTCAATTTAATCCTTATTTG
* * *
7484845 ACTTTTCTCCAGAGTTTAAAATTTAATTCACATTATTTTAATTTTGACTCCAAACTCTTTCGCA
66 ACTTTTCTCCAAAGTTTAAAATTTAATGCAAATTATTTTAATTTTGACTCCAAACTCTTTCGCA
*
7484909 TAATGGTATAATTTCGATTATGTAGTAACGCTTAAATCTCAATTATTCAATTTAATCTTTATTTG
1 TAATGGTATAATTTCGATTATGTAGTAACGCTTAAATCTCAATTATTCAATTTAATCCTTATTTG
*
7484974 ACTTTTCTCTAAAGTTTAAAATTTAATGCAAATTATTTTA
66 ACTTTTCTCCAAAGTTTAAAATTTAATGCAAATTATTTTA
7485014 GTGCAATCTT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 99 1.00
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (129 bp):
TAATGGTATAATTTCGATTATGTAGTAACGCTTAAATCTCAATTATTCAATTTAATCCTTATTTG
ACTTTTCTCCAAAGTTTAAAATTTAATGCAAATTATTTTAATTTTGACTCCAAACTCTTTCGCA
Found at i:7485322 original size:12 final size:12
Alignment explanation
Indices: 7485305--7485329 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7485295 TGATTTTTAG
7485305 AAAGAATCTACC
1 AAAGAATCTACC
7485317 AAAGAATCTACC
1 AAAGAATCTACC
7485329 A
1 A
7485330 CATCCATGTA
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:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAGAATCTACC
Found at i:7488285 original size:12 final size:13
Alignment explanation
Indices: 7488255--7488287 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7488245 TTTTACTTTT
7488255 AATTAAAACTATA
1 AATTAAAACTATA
7488268 AATTAAAA-TATA
1 AATTAAAACTATA
*
7488280 ATTTAAAA
1 AATTAAAA
7488288 ATTATCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
AATTAAAACTATA
Found at i:7499562 original size:2 final size:2
Alignment explanation
Indices: 7499555--7499585 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7499545 GATTAACATT
7499555 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7499586 TTTTATTTTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7502416 original size:19 final size:19
Alignment explanation
Indices: 7502392--7502444 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
7502382 GATGTTGATT
*
7502392 TAAAAAATTTAAAAATGTA
1 TAAAAAATTTAAAAATATA
* *
7502411 TAAAAATTTTAAAATTATA
1 TAAAAAATTTAAAAATATA
* *
7502430 TGAAAAATTCAAAAA
1 TAAAAAATTTAAAAA
7502445 GCATATATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (19 bp):
TAAAAAATTTAAAAATATA
Found at i:7504521 original size:2 final size:2
Alignment explanation
Indices: 7504508--7504547 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
7504498 GCACGCTAAA
*
7504508 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7504548 GTGTATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7504605 original size:20 final size:21
Alignment explanation
Indices: 7504580--7504625 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
7504570 AGAAATATAC
* *
7504580 TATACAT-AATATTCGAAATA
1 TATACATAAATAGTCAAAATA
7504600 TATACATGAAATAGTCAAAATA
1 TATACAT-AAATAGTCAAAATA
7504622 TATA
1 TATA
7504626 TATACTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.33
Consensus pattern (21 bp):
TATACATAAATAGTCAAAATA
Found at i:7505388 original size:24 final size:22
Alignment explanation
Indices: 7505326--7505389 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 22
7505316 AACAATAGTA
7505326 ATAAAGATAAAAAATATATATATAC
1 ATAAA-AT-AAAAATA-ATATATAC
** *
7505351 ATAAAATAGTAATAATATATAT
1 ATAAAATAAAAATAATATATAC
7505373 ATAACTAATAAAAATAA
1 ATAA--AATAAAAATAA
7505390 AAATAAAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 11 0.34
23 5 0.16
24 11 0.34
25 5 0.16
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (22 bp):
ATAAAATAAAAATAATATATAC
Found at i:7505395 original size:30 final size:29
Alignment explanation
Indices: 7505324--7505395 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 29
7505314 ACAACAATAG
*
7505324 TAATAAAGAT-AAAA-AATATATATATAC
1 TAATAAAAATAAAAATAATATATATATAC
**
7505351 --AT-AAAATAGTAATAATATATATATAAC
1 TAATAAAAATAAAAATAATATATATAT-AC
7505378 TAATAAAAATAAAAATAA
1 TAATAAAAATAAAAATAA
7505396 AGAAACATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
24 4 0.12
25 4 0.12
26 11 0.32
27 2 0.06
29 2 0.06
30 11 0.32
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (29 bp):
TAATAAAAATAAAAATAATATATATATAC
Found at i:7505835 original size:23 final size:23
Alignment explanation
Indices: 7505783--7505858 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
7505773 ATATATACGT
* *
7505783 AATATATATATATAGTAGTAACTA
1 AATATAAATATATAATAGTAA-TA
* *
7505807 TA-ATAAATATATATTAGTAATA
1 AATATAAATATATAATAGTAATA
7505829 AATATAAA-A-ATAATAGTAATA
1 AATATAAATATATAATAGTAATA
7505850 ATATATAAA
1 A-ATATAAA
7505859 AAGAAAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 12 0.27
22 11 0.24
23 21 0.47
24 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (23 bp):
AATATAAATATATAATAGTAATA
Found at i:7505859 original size:21 final size:21
Alignment explanation
Indices: 7505782--7505859 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 21
7505772 AATATATACG
* *
7505782 TAATATAT-ATAT-ATAGTAG
1 TAATATATAAAATAATAGTAA
7505801 TAACTATAATAAATATATATTAGTAA
1 TAA-TAT-ATAAA-ATA-A-TAGTAA
7505827 TAA-ATATAAAAATAATAGTAA
1 TAATATAT-AAAATAATAGTAA
7505848 TAATATATAAAA
1 TAATATATAAAA
7505860 AGAAAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
19 3 0.06
20 3 0.06
21 15 0.31
22 6 0.12
23 7 0.15
24 5 0.10
25 1 0.02
26 8 0.17
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (21 bp):
TAATATATAAAATAATAGTAA
Found at i:7506479 original size:8 final size:8
Alignment explanation
Indices: 7506466--7506518 Score: 72
Period size: 8 Copynumber: 6.6 Consensus size: 8
7506456 AAAACTCTAA
7506466 TTTTTTTC
1 TTTTTTTC
7506474 TTTTTTTTC
1 -TTTTTTTC
7506483 TTTTTTTC
1 TTTTTTTC
7506491 TTTTTTTC
1 TTTTTTTC
*
7506499 TTTTTAT-
1 TTTTTTTC
*
7506506 TTGTTTTC
1 TTTTTTTC
7506514 TTTTT
1 TTTTT
7506519 ATATTCTCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
7 5 0.13
8 26 0.67
9 8 0.21
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:7506519 original size:15 final size:15
Alignment explanation
Indices: 7506468--7506520 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
7506458 AACTCTAATT
*
7506468 TTTTTCTTTTTTTTC
1 TTTTTATTTTTTTTC
*
7506483 TTTTTTTCTTTTTTTC
1 TTTTTAT-TTTTTTTC
*
7506499 TTTTTATTTGTTTTC
1 TTTTTATTTTTTTTC
7506514 TTTTTAT
1 TTTTTAT
7506521 ATTCTCGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 20 0.59
16 14 0.41
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.85
Consensus pattern (15 bp):
TTTTTATTTTTTTTC
Found at i:7508069 original size:87 final size:87
Alignment explanation
Indices: 7507923--7508242 Score: 520
Period size: 87 Copynumber: 3.7 Consensus size: 87
7507913 AAGGACAAAT
* * ** * *
7507923 TTGAAAATACCTCAGCATGTGGCCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTGGAA
1 TTGAAATTACCTCAGCGTGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGGAA
7507988 AAGTAGAAATTAAAGACAGAAA
66 AAGTAGAAATTAAAGACAGAAA
* * *
7508010 TTGAAATTATCTCAGCGTGTGAACCGAGGCTCAACTTATCTCTCGCAATATGAGTTGATTTGGAA
1 TTGAAATTACCTCAGCGTGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGGAA
7508075 AAGTAGAAATTAAAGACAGAAA
66 AAGTAGAAATTAAAGACAGAAA
*
7508097 TTGAAATTACCTCAGCGTGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTGGAA
1 TTGAAATTACCTCAGCGTGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGGAA
7508162 AAGTAGAAATTAAAGACAGAAA
66 AAGTAGAAATTAAAGACAGAAA
7508184 TTGAAATTACCTCAGCGTGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 TTGAAATTACCTCAGCGTGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
7508243 CTGAGAACAG
Statistics
Matches: 218, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
84 2 0.01
85 35 0.16
87 181 0.83
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (87 bp):
TTGAAATTACCTCAGCGTGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGGAA
AAGTAGAAATTAAAGACAGAAA
Found at i:7514235 original size:38 final size:40
Alignment explanation
Indices: 7514182--7514435 Score: 275
Period size: 46 Copynumber: 6.0 Consensus size: 40
7514172 CTGATATGAA
7514182 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-TG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
*
7514221 -TGTGTAAGAGCATGGTTGAAAGATACCATGGCAACC-TG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
7514259 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----ATG
7514302 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT--G
7514350 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----CATG
* **
7514394 AAAAGAATAAGACCATGGTTGAAAGATACCATGGCAA-CATG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
7514435 A
1 A
7514436 CAGAAAATGA
Statistics
Matches: 194, Mismatches: 5, Indels: 32
0.84 0.02 0.14
Matches are distributed among these distances:
38 72 0.37
39 1 0.01
41 4 0.02
43 2 0.01
44 1 0.01
46 112 0.58
48 1 0.01
50 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (40 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
Found at i:7514326 original size:46 final size:46
Alignment explanation
Indices: 7514259--7514475 Score: 310
Period size: 46 Copynumber: 4.7 Consensus size: 46
7514249 TGGCAACCTG
*
7514259 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
7514305 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
7514351 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
7514397 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
7514443 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
7514476 TCACGTCAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 156 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:7514781 original size:23 final size:25
Alignment explanation
Indices: 7514736--7514782 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7514726 AATAAATATA
*
7514736 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
7514761 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
7514783 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:7523965 original size:20 final size:21
Alignment explanation
Indices: 7523940--7523985 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
7523930 AGAAATATAC
* *
7523940 TATACAT-AATATTCGAAATA
1 TATACATAAATAGTCAAAATA
7523960 TATACATGAAATAGTCAAAATA
1 TATACAT-AAATAGTCAAAATA
7523982 TATA
1 TATA
7523986 TATACTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.33
Consensus pattern (21 bp):
TATACATAAATAGTCAAAATA
Found at i:7524743 original size:24 final size:22
Alignment explanation
Indices: 7524683--7524744 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
7524673 AACAACAGTA
*
7524683 ATAAAGATAAAAAAAATATATAC
1 ATAAA-ATAAAAATAATATATAC
** *
7524706 ATAAAATAGTAATAATATATAT
1 ATAAAATAAAAATAATATATAC
7524728 ATAACTAATAAAAATAA
1 ATAA--AATAAAAATAA
7524745 AAATAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 17 0.55
23 5 0.16
24 9 0.29
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (22 bp):
ATAAAATAAAAATAATATATAC
Found at i:7525001 original size:33 final size:31
Alignment explanation
Indices: 7524939--7525055 Score: 86
Period size: 31 Copynumber: 3.9 Consensus size: 31
7524929 TAGATAGCTA
*
7524939 ATAATATTAAAACA-TATACATA-ATA--AT
1 ATAATATTAAAACATTATATATATATATGAT
7524966 ATAATATTAAAACATATATATATATATATG-T
1 ATAATATTAAAACAT-TATATATATATATGAT
* * * *
7524997 ATATATATGAAAA-ATGCATGTGTATATATGAT
1 ATA-ATATTAAAACAT-TATATATATATATGAT
* *
7525029 ATAGTATTAGAACACTTATATA-ATATA
1 ATAATATTAAAACA-TTATATATATATA
7525056 CAAATATAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
27 14 0.20
29 7 0.10
30 3 0.04
31 28 0.41
32 16 0.23
33 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (31 bp):
ATAATATTAAAACATTATATATATATATGAT
Found at i:7525183 original size:25 final size:25
Alignment explanation
Indices: 7525134--7525184 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
7525124 TATACGTAAT
*
7525134 ATATATATAGTAGTAACTATAATAA
1 ATATATATAGTAGTAACTAAAATAA
*
7525159 ATATATATATTAGTAA-TAAATATAA
1 ATATATATAGTAGTAACTAAA-ATAA
7525184 A
1 A
7525185 ATAACAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (25 bp):
ATATATATAGTAGTAACTAAAATAA
Found at i:7525914 original size:14 final size:14
Alignment explanation
Indices: 7525895--7525928 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
7525885 CCTAGACATG
7525895 CACACCGCCATTGC
1 CACACCGCCATTGC
7525909 CACACCGCCATTGC
1 CACACCGCCATTGC
7525923 CACACC
1 CACACC
7525929 TTAACGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.53, G:0.12, T:0.12
Consensus pattern (14 bp):
CACACCGCCATTGC
Found at i:7528380 original size:26 final size:25
Alignment explanation
Indices: 7528301--7528405 Score: 176
Period size: 26 Copynumber: 4.2 Consensus size: 25
7528291 TGAAATGCCC
7528301 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
7528326 ATCAT-GAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
*
7528350 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAA-CCATT
7528376 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATT
7528402 ATCA
1 ATCA
7528406 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
24 24 0.32
25 18 0.24
26 33 0.44
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (25 bp):
ATCATGGAACATTTACCTAACCATT
Found at i:7533273 original size:12 final size:12
Alignment explanation
Indices: 7533256--7533286 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7533246 AGTACTACCT
*
7533256 CGGCCTCGACCA
1 CGGCCTCGACAA
7533268 CGGCCTCGACAA
1 CGGCCTCGACAA
7533280 CGGCCTC
1 CGGCCTC
7533287 TTCCCCGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.48, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACAA
Found at i:7534098 original size:14 final size:14
Alignment explanation
Indices: 7534075--7534108 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
7534065 CCTAGACATG
7534075 CACACCGCCATTGC
1 CACACCGCCATTGC
*
7534089 CACACTGCCATTGC
1 CACACCGCCATTGC
7534103 CACACC
1 CACACC
7534109 TTAACGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.50, G:0.12, T:0.15
Consensus pattern (14 bp):
CACACCGCCATTGC
Found at i:7535791 original size:46 final size:44
Alignment explanation
Indices: 7535690--7535797 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
7535680 TGTCTTTGAC
** * * *
7535690 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
7535734 ATGGACTTACATGGCTCAATCCTGTCTCTAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
7535780 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
7535798 TTTCGTTCTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:7536343 original size:19 final size:19
Alignment explanation
Indices: 7536319--7536358 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
7536309 TTAATATTCC
7536319 AAAATAATTTCATACTAAA
1 AAAATAATTTCATACTAAA
7536338 AAAATAATTTCATACTAAA
1 AAAATAATTTCATACTAAA
7536357 AA
1 AA
7536359 CTTCTAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATAATTTCATACTAAA
Done.