Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008007.1 Hibiscus syriacus cultivar Beakdansim tig00110469_pilon, whole genome shotgun sequence
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: 1953294
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 11
Found at i:1073916 original size:85 final size:85
Alignment explanation
Indices: 1073665--1073917 Score: 233
Period size: 85 Copynumber: 3.0 Consensus size: 85
1073655 TACCATGTGG
* * * * * * *** *
1073665 TTGATATGCCATCGAGCTGAATGGAATTGAACTCGACAG-TGTTT-TTTGACAGATAATTTTTCT
1 TTGATATGCCCTTGAGCTAAATGTAATCGAACTCGA-AGAT-TTTGATTGACAGATAACCCTTAT
* *
1073728 CGACTTAAGCTATGCTGTAAAT
64 CGTCTTGAGCTATGCTGTAAAT
* * * * * *
1073750 TTGATATGCCCTTGAGCTGAATGTAGTCGAACTCGATGGTTTTTATTGATAGATAACCCTTATCG
1 TTGATATGCCCTTGAGCTAAATGTAATCGAACTCGAAGATTTTGATTGACAGATAACCCTTATCG
**
1073815 TCTTGAATTATGCTGTAAAT
66 TCTTGAGCTATGCTGTAAAT
* * * *
1073835 TTGATATGTCCTTGAGCTAAATGTAATCGAACTCGAAGATTTTGGTTGACAGATAGCCCTTTTCG
1 TTGATATGCCCTTGAGCTAAATGTAATCGAACTCGAAGATTTTGATTGACAGATAACCCTTATCG
*
1073900 -CTTTGAGCTATACTGTAA
66 TC-TTGAGCTATGCTGTAA
1073918 TAGGTTGAGA
Statistics
Matches: 136, Mismatches: 29, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
84 5 0.04
85 131 0.96
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (85 bp):
TTGATATGCCCTTGAGCTAAATGTAATCGAACTCGAAGATTTTGATTGACAGATAACCCTTATCG
TCTTGAGCTATGCTGTAAAT
Found at i:1079531 original size:16 final size:17
Alignment explanation
Indices: 1079512--1079543 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1079502 TTAAAAACAA
1079512 TTTTAAGA-AAAATCTT
1 TTTTAAGACAAAATCTT
1079528 TTTTAAGACAAAATCT
1 TTTTAAGACAAAATCT
1079544 GGTCTGCGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
TTTTAAGACAAAATCTT
Found at i:1082349 original size:2 final size:2
Alignment explanation
Indices: 1082342--1082387 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1082332 CTACAAAGTA
1082342 AT AT AT AT AT 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 AT
1082384 AT AT
1 AT AT
1082388 TAGTAAATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1086629 original size:15 final size:15
Alignment explanation
Indices: 1086609--1086637 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1086599 TTTATTATTA
1086609 ATATTTAATGATTTG
1 ATATTTAATGATTTG
1086624 ATATTTAATGATTT
1 ATATTTAATGATTT
1086638 AGTAATGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
ATATTTAATGATTTG
Found at i:1086678 original size:60 final size:59
Alignment explanation
Indices: 1086593--1086704 Score: 197
Period size: 60 Copynumber: 1.9 Consensus size: 59
1086583 CCGATACTAC
* *
1086593 TAATGATTTATTATTAATATTTAATGATTTGATATTTAATGATTTAGTAATGACTACTCA
1 TAATGATTTATTATTAATATTTAATGATTTGATA-CTAATAATTTAGTAATGACTACTCA
1086653 TAATGATTTATTATTAATATTTAATGATTTGATACTAATAATTTAGTAATGA
1 TAATGATTTATTATTAATATTTAATGATTTGATACTAATAATTTAGTAATGA
1086705 TTAGTAATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
59 16 0.32
60 34 0.68
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (59 bp):
TAATGATTTATTATTAATATTTAATGATTTGATACTAATAATTTAGTAATGACTACTCA
Found at i:1086691 original size:21 final size:22
Alignment explanation
Indices: 1086653--1086697 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1086643 TGACTACTCA
*
1086653 TAATGATTTATTATTAAT-ATT
1 TAATGATTTATTACTAATAATT
1086674 TAATGATTTGA-TACTAATAATT
1 TAATGATTT-ATTACTAATAATT
1086696 TA
1 TA
1086698 GTAATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (22 bp):
TAATGATTTATTACTAATAATT
Found at i:1086715 original size:24 final size:24
Alignment explanation
Indices: 1086688--1086779 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 24
1086678 GATTTGATAC
* *
1086688 TAATAATTTAGTAATGATTAGTAA
1 TAATAATTTAATAATGATTACTAA
* *
1086712 TAATAAAATT-ATAATAATTACTAA
1 TAAT-AATTTAATAATGATTACTAA
*
1086736 TAATGATTTAATAATGATTACTAA
1 TAATAATTTAATAATGATTACTAA
*
1086760 TAATTATTTAATAATGATTA
1 TAATAATTTAATAATGATTA
1086780 AATATTTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 3 0.05
24 51 0.88
25 4 0.07
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (24 bp):
TAATAATTTAATAATGATTACTAA
Found at i:1086747 original size:11 final size:11
Alignment explanation
Indices: 1086733--1086783 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
1086723 TAATAATTAC
1086733 TAATAATGATT
1 TAATAATGATT
1086744 TAATAATGATT
1 TAATAATGATT
*
1086755 ACTAATAATTATT
1 --TAATAATGATT
1086768 TAATAATGATT
1 TAATAATGATT
*
1086779 AAATA
1 TAATA
1086784 TTTAATTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 25 0.71
13 10 0.29
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (11 bp):
TAATAATGATT
Found at i:1086834 original size:16 final size:16
Alignment explanation
Indices: 1086813--1086851 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1086803 ATTTAAATCA
*
1086813 AATTTATAAATAGTTG
1 AATTTATAAATAGTCG
*
1086829 AATTTATAACTAGTCG
1 AATTTATAAATAGTCG
1086845 AATTTAT
1 AATTTAT
1086852 TCTTTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (16 bp):
AATTTATAAATAGTCG
Found at i:1086914 original size:17 final size:15
Alignment explanation
Indices: 1086880--1086919 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
1086870 GGAGACATGC
1086880 ATATTTAATATTATA
1 ATATTTAATATTATA
*
1086895 ATATTTAAGTTTTAATA
1 ATATTTAA-TATT-ATA
1086912 ATATTTAA
1 ATATTTAA
1086920 CATAACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 3 0.14
17 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATTTAATATTATA
Found at i:1090174 original size:29 final size:29
Alignment explanation
Indices: 1090132--1090207 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
1090122 GTGGCCGTAG
* * *
1090132 GTCGCCATGCCTTCCGGGCGACCTACTAC
1 GTCGCCATGGCTTCCCGGCAACCTACTAC
1090161 GTCGCCATGGCTTCCCGGCAACCTACTAC
1 GTCGCCATGGCTTCCCGGCAACCTACTAC
1090190 GTCGCCATGGCTTCCCGG
1 GTCGCCATGGCTTCCCGG
1090208 GAGCTGCACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.13, C:0.41, G:0.25, T:0.21
Consensus pattern (29 bp):
GTCGCCATGGCTTCCCGGCAACCTACTAC
Found at i:1090276 original size:32 final size:33
Alignment explanation
Indices: 1090240--1090317 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
1090230 GTCTGTATGT
1090240 ACCATGCACGTCCCCAACA-CCCAACACAGGTC
1 ACCATGCACGTCCCCAACACCCCAACACAGGTC
1090272 ACCATGCACGTCCCCAACACCCCAACACAGGTC
1 ACCATGCACGTCCCCAACACCCCAACACAGGTC
*
1090305 GCCATGCAC-TCCC
1 ACCATGCACGTCCC
1090318 AGCGACCTAC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 23 0.52
33 21 0.48
ACGTcount: A:0.28, C:0.49, G:0.13, T:0.10
Consensus pattern (33 bp):
ACCATGCACGTCCCCAACACCCCAACACAGGTC
Found at i:1090375 original size:29 final size:29
Alignment explanation
Indices: 1090300--1090382 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 29
1090290 ACCCCAACAC
1090300 AGGTCGCCATGCACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAGCGACCTACA
** ***
1090329 AGGTCATCATGCACTCCCAGCGACCTTGT
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* * *
1090358 AGGTCGCCAAGCAGTCCCGGCGACC
1 AGGTCGCCATGCACTCCCAGCGACC
1090383 AAGCTTAGCC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.22, C:0.39, G:0.24, T:0.16
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAGCGACCTACA
Found at i:1090700 original size:26 final size:26
Alignment explanation
Indices: 1090666--1090723 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
1090656 ACATAAAAGA
* *
1090666 AAGAAAGGGAGAAGATATTGCAGCAG
1 AAGAAAGGGAGAAAAAATTGCAGCAG
*
1090692 AAGAAAGGGAGAAAAAATTGCAGCCG
1 AAGAAAGGGAGAAAAAATTGCAGCAG
1090718 -AGAAAG
1 AAGAAAG
1090724 AAAGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.50, C:0.09, G:0.33, T:0.09
Consensus pattern (26 bp):
AAGAAAGGGAGAAAAAATTGCAGCAG
Found at i:1090729 original size:25 final size:26
Alignment explanation
Indices: 1090682--1090731 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
1090672 GGGAGAAGAT
**
1090682 ATTGCAGCAGAAGAAAGGGAGAAAAA
1 ATTGCAGCAGAAGAAAGAAAGAAAAA
*
1090708 ATTGCAGCCG-AGAAAGAAAGAAAA
1 ATTGCAGCAGAAGAAAGAAAGAAAA
1090732 GGAGAAAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.54, C:0.10, G:0.28, T:0.08
Consensus pattern (26 bp):
ATTGCAGCAGAAGAAAGAAAGAAAAA
Found at i:1090738 original size:16 final size:18
Alignment explanation
Indices: 1090717--1090758 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
1090707 AATTGCAGCC
1090717 GAGAAAGAAA-GAA-AAG
1 GAGAAAGAAAGGAAGAAG
1090733 GAGAAAGGAAAGGAAGAAG
1 GAGAAA-GAAAGGAAGAAG
*
1090752 AAGAAAG
1 GAGAAAG
1090759 GGAGATAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 4 0.18
18 4 0.18
19 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (18 bp):
GAGAAAGAAAGGAAGAAG
Found at i:1090895 original size:22 final size:21
Alignment explanation
Indices: 1090870--1090910 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1090860 GTTAATTAGT
*
1090870 TTGTTAATTTAGGGTTATATGA
1 TTGTTAATTTA-AGTTATATGA
*
1090892 TTGTTAGTTTAAGTTATAT
1 TTGTTAATTTAAGTTATAT
1090911 TATACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTGTTAATTTAAGTTATATGA
Found at i:1090965 original size:40 final size:39
Alignment explanation
Indices: 1090921--1091046 Score: 103
Period size: 40 Copynumber: 3.1 Consensus size: 39
1090911 TATACATAAA
1090921 TAAAAAATTATTTAATTAGTATGTTTGATAGTTATATAGT
1 TAAAAAATTATTTAATTAGT-TGTTTGATAGTTATATAGT
* * *
1090961 TAAAAAAATAATTAATTAGTTTGTTTTGTTAATCGTTAGTTATA-T
1 TAAAAAATTATTTAATTAG-TTG-TTTG---ATAGTTA--TATAGT
* * * *
1091006 AAAAAAATTATTTAATTAGTT-TGTGGTAGTTAAATAGT
1 TAAAAAATTATTTAATTAGTTGTTTGATAGTTATATAGT
1091044 TAA
1 TAA
1091047 GTTATATTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
37 3 0.04
38 3 0.04
39 5 0.07
40 19 0.28
41 5 0.07
42 3 0.04
44 8 0.12
45 17 0.25
46 4 0.06
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (39 bp):
TAAAAAATTATTTAATTAGTTGTTTGATAGTTATATAGT
Found at i:1091244 original size:16 final size:16
Alignment explanation
Indices: 1091212--1091258 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1091202 TTTAAAAAGT
*
1091212 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
1091228 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
1091244 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
1091259 AAGTTTAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:1091253 original size:15 final size:14
Alignment explanation
Indices: 1091233--1091263 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1091223 GTTTATTAGT
1091233 TTATTATATTATAAG
1 TTATTATATTA-AAG
1091248 TTATTATATTAAAG
1 TTATTATATTAAAG
1091262 TT
1 TT
1091264 TAATGCTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:1093494 original size:14 final size:14
Alignment explanation
Indices: 1093475--1093522 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1093465 TTCAAGTCGT
1093475 AAATCATTACTATC
1 AAATCATTACTATC
1093489 AAATCATTAC--T-
1 AAATCATTACTATC
* *
1093500 AAATCATTAATACC
1 AAATCATTACTATC
1093514 AAATCATTA
1 AAATCATTA
1093523 AATATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 9 0.31
12 1 0.03
14 19 0.66
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:1093538 original size:21 final size:21
Alignment explanation
Indices: 1093499--1093644 Score: 70
Period size: 21 Copynumber: 6.8 Consensus size: 21
1093489 AAATCATTAC
**
1093499 TAAATCATTAATACCAAATCAT
1 TAAAT-ATTAATAATAAATCAT
*
1093521 TAAATATTAATAATAAATTAT
1 TAAATATTAATAATAAATCAT
*
1093542 T-ATTATTAATCATTACTATCAAATCAT
1 TAAATATT-A--A-TA--AT-AAATCAT
*
1093569 TAAAAATTAATAAT-AAT--T
1 TAAATATTAATAATAAATCAT
* * * * *
1093587 TCATTATTACTAAT-CATTAT
1 TAAATATTAATAATAAATCAT
1093607 TAAATCATTAAT-ATCAAATCAT
1 TAAAT-ATTAATAAT-AAATCAT
1093629 TAAATATTAATAATAA
1 TAAATATTAATAATAA
1093645 TTTCATTATT
Statistics
Matches: 93, Mismatches: 17, Indels: 29
0.67 0.12 0.21
Matches are distributed among these distances:
18 13 0.14
20 14 0.15
21 28 0.30
22 18 0.19
23 1 0.01
24 4 0.04
25 1 0.01
26 2 0.02
27 8 0.09
28 4 0.04
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATTAATAATAAATCAT
Found at i:1093565 original size:48 final size:48
Alignment explanation
Indices: 1093494--1093617 Score: 164
Period size: 48 Copynumber: 2.6 Consensus size: 48
1093484 CTATCAAATC
* *
1093494 ATTACTAAATCATTAATACCAAATCATTAAATATTAATAATAAATT-ATT
1 ATTACT-AATCATT-ATATCAAATCATTAAAAATTAATAATAAATTCATT
* *
1093543 ATTATTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTA-TATCAAATCATTAAAAATTAATAATAAATTCATT
1093592 ATTACTAATCATTAT-T-AAATCATTAA
1 ATTACTAATCATTATATCAAATCATTAA
1093618 TATCAAATCA
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 10 0.15
47 2 0.03
48 35 0.51
49 21 0.31
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (48 bp):
ATTACTAATCATTATATCAAATCATTAAAAATTAATAATAAATTCATT
Found at i:1093660 original size:21 final size:21
Alignment explanation
Indices: 1093636--1093720 Score: 52
Period size: 21 Copynumber: 4.2 Consensus size: 21
1093626 CATTAAATAT
1093636 TAATAATAATTTCATTATTAC
1 TAATAATAATTTCATTATTAC
* * ** * *
1093657 TAATCATTACGTAATCATTAC
1 TAATAATAATTTCATTATTAC
* * *
1093678 T-ATCA-AA--TCATTAAATAT
1 TAATAATAATTTCATT-ATTAC
1093696 TAATAATAATTTCATTATTAC
1 TAATAATAATTTCATTATTAC
1093717 TAAT
1 TAAT
1093721 CATTACTAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 10
0.65 0.20 0.14
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 4 0.09
20 6 0.13
21 23 0.51
22 5 0.11
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.44
Consensus pattern (21 bp):
TAATAATAATTTCATTATTAC
Found at i:1093799 original size:24 final size:24
Alignment explanation
Indices: 1093767--1093813 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
1093757 AATAATAATT
1093767 TCATTATTATTAA-TCATTACTAAA
1 TCATTATTA-TAATTCATTACTAAA
1093791 TCATTATTATAATTTCATTACTA
1 TCATTATTATAA-TTCATTACTA
1093814 GTTATGTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 9 0.43
25 9 0.43
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (24 bp):
TCATTATTATAATTCATTACTAAA
Found at i:1093810 original size:60 final size:60
Alignment explanation
Indices: 1093549--1093796 Score: 435
Period size: 60 Copynumber: 4.1 Consensus size: 60
1093539 TATTATTATT
* * *
1093549 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTATTA
1 AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
1093609 AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACGT-
1 AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC-TA
*
1093669 AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
1 AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
*
1093729 AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTATTAATCATTACTA
1 AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
1093789 AATCATTA
1 AATCATTA
1093797 TTATAATTTC
Statistics
Matches: 180, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
59 1 0.01
60 178 0.99
61 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (60 bp):
AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA
Found at i:1093897 original size:25 final size:25
Alignment explanation
Indices: 1093869--1093917 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1093859 ATTCAAGTCG
*
1093869 TAAATCATTACTATCAAATCATTAT
1 TAAATCATTAATATCAAATCATTAT
1093894 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
1093918 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAT
Found at i:1093918 original size:14 final size:14
Alignment explanation
Indices: 1093870--1093918 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
1093860 TTCAAGTCGT
*
1093870 AAATCATTACTATC
1 AAATCATTAATATC
1093884 AAATCATT-AT-T-
1 AAATCATTAATATC
1093895 AAATCATTAATATC
1 AAATCATTAATATC
1093909 AAATCATTAA
1 AAATCATTAA
1093919 ATATTAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
11 8 0.26
12 3 0.10
13 2 0.06
14 18 0.58
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATCATTAATATC
Found at i:1093933 original size:21 final size:22
Alignment explanation
Indices: 1093869--1093927 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 22
1093859 ATTCAAGTCG
*
1093869 TAAATCATTACTATCAAATCATTAT
1 TAAATCATTAATATCAAATC---AT
1093894 TAAATCATTAATATCAAATCAT
1 TAAATCATTAATATCAAATCAT
1093916 TAAAT-ATTAATA
1 TAAATCATTAATA
1093928 ATAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 7 0.21
22 7 0.21
25 19 0.58
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATCATTAATATCAAATCAT
Found at i:1093938 original size:21 final size:22
Alignment explanation
Indices: 1093869--1093938 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 22
1093859 ATTCAAGTCG
*
1093869 TAAATCATTACTATCAAATCATTAT
1 TAAATCATTAATATC-AA--ATTAT
*
1093894 TAAATCATTAATATCAAATCAT
1 TAAATCATTAATATCAAATTAT
1093916 TAAAT-ATTAATAAT-AAATTAT
1 TAAATCATTAAT-ATCAAATTAT
1093937 TA
1 TA
1093939 TTACTAATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 14 0.34
22 11 0.27
24 2 0.05
25 14 0.34
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATCATTAATATCAAATTAT
Found at i:1093950 original size:59 final size:60
Alignment explanation
Indices: 1093885--1094021 Score: 224
Period size: 58 Copynumber: 2.3 Consensus size: 60
1093875 ATTACTATCA
* *
1093885 AATCATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATTATTACT
* *
1093944 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATTATTACT
1094003 AATCATTACTAAATCATTA
1 AATCATTACTAAATCATTA
1094022 TTATAATTTC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
58 36 0.50
59 28 0.39
60 8 0.11
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATTATTACT
Found at i:1093953 original size:10 final size:10
Alignment explanation
Indices: 1093938--1093964 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1093928 ATAAATTATT
1093938 ATTACTAATC
1 ATTACTAATC
1093948 ATTACTAATC
1 ATTACTAATC
1093958 ATTACTA
1 ATTACTA
1093965 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:1094107 original size:14 final size:14
Alignment explanation
Indices: 1094088--1094135 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
1094078 TTCAAGTCGT
1094088 AAATCATTACTATC
1 AAATCATTACTATC
1094102 AAATCATTAC--T-
1 AAATCATTACTATC
*
1094113 AAATCATTAATATC
1 AAATCATTACTATC
1094127 AAATCATTA
1 AAATCATTA
1094136 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:1094121 original size:25 final size:25
Alignment explanation
Indices: 1094087--1094135 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1094077 GTTCAAGTCG
*
1094087 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
1094112 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
1094136 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:1094151 original size:21 final size:22
Alignment explanation
Indices: 1094087--1094145 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 22
1094077 GTTCAAGTCG
*
1094087 TAAATCATTACTATCAAATCATT
1 TAAATCATTAATATCAAATCA-T
1094110 ACTAAATCATTAATATCAAATCAT
1 --TAAATCATTAATATCAAATCAT
1094134 TAAAT-ATTAATA
1 TAAATCATTAATA
1094146 ATAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 7 0.21
22 5 0.15
24 1 0.03
25 20 0.61
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATCATTAATATCAAATCAT
Found at i:1094151 original size:60 final size:60
Alignment explanation
Indices: 1094103--1094355 Score: 438
Period size: 60 Copynumber: 4.2 Consensus size: 60
1094093 ATTACTATCA
*
1094103 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
1094162 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1094221 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* * *
1094281 AATCATTATTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1094341 AATCATTACTAAATC
1 AATCATTACTAAATC
1094356 TTAGAAATAC
Statistics
Matches: 183, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
58 36 0.20
59 29 0.16
60 118 0.64
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:1094171 original size:10 final size:10
Alignment explanation
Indices: 1094156--1094182 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1094146 ATAAATTATT
1094156 ATTACTAATC
1 ATTACTAATC
1094166 ATTACTAATC
1 ATTACTAATC
1094176 ATTACTA
1 ATTACTA
1094183 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:1094195 original size:218 final size:219
Alignment explanation
Indices: 1093658--1094239 Score: 1015
Period size: 218 Copynumber: 2.6 Consensus size: 219
1093648 CATTATTACT
* *
1093658 AATCATTACGT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 AATCATTAC-TAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATC
* * *
1093722 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTATTAATCATTAC
64 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1093787 TAAATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATT
128 TAAATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATT
1093852 GTTCATTATTCAAGTCGTAAATCATTACTATCA
193 G-----T-TTCAAGTCGTAAATCATTACTATCA
*
1093885 AATCATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
1093950 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
66 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
1094015 ATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG-T
131 ATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTGTT
1094079 TCAAGTCGTAAATCATTACTATCA
196 TCAAGTCGTAAATCATTACTATCA
1094103 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
1094168 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
66 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
1094233 ATCATTA
131 ATCATTA
1094240 ATATCAAATC
Statistics
Matches: 347, Mismatches: 7, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
218 161 0.46
225 121 0.35
226 20 0.06
227 45 0.13
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.40
Consensus pattern (219 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
ATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTGTT
TCAAGTCGTAAATCATTACTATCA
Found at i:1094370 original size:10 final size:10
Alignment explanation
Indices: 1094357--1094388 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
1094347 TACTAAATCT
1094357 TAGAAATACA
1 TAGAAATACA
*
1094367 TAGAAATTCA
1 TAGAAATACA
1094377 TAGAAATACA
1 TAGAAATACA
1094387 TA
1 TA
1094389 TATCATTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.25
Consensus pattern (10 bp):
TAGAAATACA
Found at i:1097893 original size:23 final size:25
Alignment explanation
Indices: 1097860--1097916 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 25
1097850 TTATATAATA
1097860 TAATATATAACTTAAACTAACAAAC
1 TAATATATAACTTAAACTAACAAAC
1097885 TAATATAACATAACTTAAACTAACAAAC
1 TAATAT---ATAACTTAAACTAACAAAC
1097913 TAAT
1 TAAT
1097917 TAACTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 6 0.21
28 23 0.79
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (25 bp):
TAATATATAACTTAAACTAACAAAC
Found at i:1097897 original size:28 final size:27
Alignment explanation
Indices: 1097866--1097920 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 27
1097856 AATATAATAT
1097866 ATAACTTAAACTAACAAACTAATATAAC
1 ATAACTTAAACTAACAAACTAAT-TAAC
1097894 ATAACTTAAACTAACAAACTAATTAAC
1 ATAACTTAAACTAACAAACTAATTAAC
1097921 TAAATTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.25
Consensus pattern (27 bp):
ATAACTTAAACTAACAAACTAATTAAC
Found at i:1098478 original size:29 final size:29
Alignment explanation
Indices: 1098428--1098502 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
1098418 TCCTAAGCTT
* * * *
1098428 GGTCGCCGAGACTGCTTTGCGACCTACAA
1 GGTCGCCGGGAGTGCATGGCGACCTACAA
***
1098457 GGTCGCCGGGAGTGCATGGCGACCTTGTA
1 GGTCGCCGGGAGTGCATGGCGACCTACAA
*
1098486 GGTCGCTGGGAGTGCAT
1 GGTCGCCGGGAGTGCAT
1098503 TGTTGGGGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.16, C:0.25, G:0.37, T:0.21
Consensus pattern (29 bp):
GGTCGCCGGGAGTGCATGGCGACCTACAA
Found at i:1125038 original size:13 final size:14
Alignment explanation
Indices: 1125002--1125052 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1124992 AAGGTTGAGA
*
1125002 TTTAGCATTTAGAGT
1 TTTAG-ATTTAAAGT
* *
1125017 TTAATATTT-AAGT
1 TTTAGATTTAAAGT
*
1125030 TTTGGATTTAAAGT
1 TTTAGATTTAAAGT
1125044 TTTAGATTT
1 TTTAGATTT
1125053 TGAAATTTAG
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 9 0.32
14 16 0.57
15 3 0.11
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (14 bp):
TTTAGATTTAAAGT
Found at i:1137222 original size:22 final size:22
Alignment explanation
Indices: 1137180--1137222 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1137170 ATATTCGGGG
*
1137180 ACAAAACTTAAAATTTATTTAA
1 ACAAAACTTAAAACTTATTTAA
*
1137202 ACAAAATTTAAATACTT-TTTA
1 ACAAAACTTAAA-ACTTATTTA
1137223 GGGTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
ACAAAACTTAAAACTTATTTAA
Found at i:1141949 original size:40 final size:42
Alignment explanation
Indices: 1141850--1141956 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 42
1141840 AGCTAATTTT
* *
1141850 GTACATATAGCGGCGTTTTTAAAACAAACGCCGCAATAAATCA
1 GTACAT-TAGCGGCGTTTCTAAAACAAACGCCACAATAAATCA
* ** *
1141893 GTGCATTAGCAACGTTTCTAAATACAAACGCCAC-A-AAAT-G
1 GTACATTAGCGGCGTTTCTAAA-ACAAACGCCACAATAAATCA
1141933 GTACATTAGCGGCGTTTCTGAAAA
1 GTACATTAGCGGCGTTTCT-AAAA
1141957 TCGTCGCTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
40 17 0.32
41 7 0.13
42 14 0.26
43 15 0.28
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (42 bp):
GTACATTAGCGGCGTTTCTAAAACAAACGCCACAATAAATCA
Found at i:1142091 original size:40 final size:41
Alignment explanation
Indices: 1141987--1142091 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 41
1141977 TTTGTGGTGT
* * *
1141987 TTTATAAACAAACACCGCAATACATAAGTCCATTAGTGGCG
1 TTTATAAACAAACGCCGCAATAAATAAGTACATTAGTGGCG
* * *
1142028 TTT-TAGATACAAACGCCGTAATAAATCAGTATATTAGTGGCG
1 TTTATA-A-ACAAACGCCGCAATAAATAAGTACATTAGTGGCG
1142070 TTTATAAA-AAACGCCGCAATAA
1 TTTATAAACAAACGCCGCAATAA
1142092 GTTAGTGGAG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
40 15 0.28
41 5 0.09
42 32 0.59
43 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (41 bp):
TTTATAAACAAACGCCGCAATAAATAAGTACATTAGTGGCG
Found at i:1142565 original size:200 final size:200
Alignment explanation
Indices: 1142222--1142598 Score: 691
Period size: 200 Copynumber: 1.9 Consensus size: 200
1142212 CACTTCGTTG
* *
1142222 TTTTGTTTCTCTTTAAATTTAAAAATTTATGGGCTTGCTTCAAAATCTTCAAAGGCATTCTACTT
1 TTTTGTTTCTCTTTAAATTTAAAAATTTATAGGCTTGCTTCAAAATCTTCAAAGGCATTCTACCT
*
1142287 TGGATTTCATTTTCCTTATTTTTTTCCAAATTATTTTTGTGATGGTTTAGGGTTTAGGTTATTTA
66 TGGATTTCATTTTCCATATTTTTTTCCAAATTATTTTTGTGATGGTTTAGGGTTTAGGTTATTTA
*
1142352 TGCAAAGCGGGTCTTGAAGGAGCTCAAGGATCTCCAGAAAGATCTTCAAAATTTAAAAAAAAAAT
131 TGCAAAGCGGGTCTTGAAGGAGCTCAAGGATCTCAAGAAAGATCTTCAAAATTTAAAAAAAAAAT
1142417 CCTCA
196 CCTCA
* *
1142422 TTTTGTTTCTCTTTAAATTTAAAAATTTCTAGGCTTGCTTCAAAATCTTCAAAGGCGTTCTACCT
1 TTTTGTTTCTCTTTAAATTTAAAAATTTATAGGCTTGCTTCAAAATCTTCAAAGGCATTCTACCT
*
1142487 TGGATTTCATTTTCCATATTTTTTTCCAAATTATTTTTGTGATGTTTTAGGGTTTAGGTTATTTA
66 TGGATTTCATTTTCCATATTTTTTTCCAAATTATTTTTGTGATGGTTTAGGGTTTAGGTTATTTA
1142552 TGCAAAGCGGGTCTTGAAGGAGCTCAAGGATCTCAAGAAAGATCTTC
131 TGCAAAGCGGGTCTTGAAGGAGCTCAAGGATCTCAAGAAAGATCTTC
1142599 CTACCTCTTG
Statistics
Matches: 170, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
200 170 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (200 bp):
TTTTGTTTCTCTTTAAATTTAAAAATTTATAGGCTTGCTTCAAAATCTTCAAAGGCATTCTACCT
TGGATTTCATTTTCCATATTTTTTTCCAAATTATTTTTGTGATGGTTTAGGGTTTAGGTTATTTA
TGCAAAGCGGGTCTTGAAGGAGCTCAAGGATCTCAAGAAAGATCTTCAAAATTTAAAAAAAAAAT
CCTCA
Found at i:1145236 original size:84 final size:84
Alignment explanation
Indices: 1145092--1145536 Score: 455
Period size: 84 Copynumber: 5.3 Consensus size: 84
1145082 TTGTATCTTT
* * *
1145092 TATAGATCTGACCTTTTACGGCGTTTGTTTCAAAACGCCGCTATAGATCTCGATCGTTTGCGACA
1 TATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAACGCCGCTATAGATCTCGATCTTTTGCGACA
*
1145157 TTTG-TTCTTAAAACGCCGC
66 TTTGTTTC-AAAAACGCCGC
* * * * * * * *
1145176 TGTAGATCTGACCTTTTGCGACATTTGTTCTAAAACGCCGCTATAGAACTTGATCTTTTGCGGCG
1 TATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAACGCCGCTATAGATCTCGATCTTTTGCGACA
1145241 TTTGTTTCAAAAACGCCGC
66 TTTGTTTCAAAAACGCCGC
* * * * *
1145260 TATAGATCTTGATCTTTTGCGGCGTTTGTTCCAAAACGACGCTATAGATTTTGATCTTTTGCGTC
1 TATAGATC-TGACCTTTTGCGGCGTTTGTTCCAAAACGCCGCTATAGATCTCGATCTTTTGCGAC
* ***
1145325 GTTTGTTTCAAAAATATCGC
65 ATTTGTTTCAAAAACGCCGC
* * *
1145345 TATAGATCTGACCTTTTGCGGTGTTTGTTCCAAAACGCCTCTATAGATCTCGACCTTTTGCGACA
1 TATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAACGCCGCTATAGATCTCGATCTTTTGCGACA
* *
1145410 TTTGTTCCTAAAACGCCGC
66 TTTGTTTCAAAAACGCCGC
* * * * * * * * *
1145429 TATAGATATCGACCTTTTGCGGTGTTT-TTCCTAAAACGCCACTATATATATCAACCTTTGGCGG
1 TATAGATCT-GACCTTTTGCGGCGTTTGTTCC-AAAACGCCGCTATAGATCTCGATCTTTTGCGA
* * *
1145493 CGTTT-ATTCAAAAAACGTCGC
64 CATTTGTTTC-AAAAACGCCGC
* *
1145514 TATAGTTCTTGACCTATTGCGGC
1 TATAGATC-TGACCTTTTGCGGC
1145537 ATTTTTTGTT
Statistics
Matches: 301, Mismatches: 54, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
84 151 0.50
85 149 0.50
86 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (84 bp):
TATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAACGCCGCTATAGATCTCGATCTTTTGCGACA
TTTGTTTCAAAAACGCCGC
Found at i:1145307 original size:169 final size:169
Alignment explanation
Indices: 1145092--1145466 Score: 450
Period size: 169 Copynumber: 2.2 Consensus size: 169
1145082 TTGTATCTTT
* * *
1145092 TATAGATC-TGACCTTTTACGGCGTTTGTTTCAAAACGCCGCTATAGATCTCGATCGTTTGCGAC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGACGCTATAGATCTCGATCGTTTGCGAC
* * * *
1145156 ATTTG-TTCTTAAAACGCCGCTGTAGATCTGACCTTTTGCGACATTTGTTCTAAAACGCCGCTAT
66 ATTTGTTTC-AAAAACACCGCTATAGATCTGACCTTTTGCGACATTTGTTCCAAAACGCCGCTAT
* * * * *
1145220 AGAACTTGATCTTTTGCGGCGTTTGTTTCAAAAACGCCGC
130 AGAACTCGACCTTTTGCGACATTTGTTCCAAAAACGCCGC
* * * * *
1145260 TATAGATCTTGATCTTTTGCGGCGTTTGTTCCAAAACGACGCTATAGATTTTGATCTTTTGCGTC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGACGCTATAGATCTCGATCGTTTGCGAC
* * * *** *
1145325 GTTTGTTTCAAAAATATCGCTATAGATCTGACCTTTTGCGGTGTTTGTTCCAAAACGCCTCTATA
66 ATTTGTTTCAAAAACACCGCTATAGATCTGACCTTTTGCGACATTTGTTCCAAAACGCCGCTATA
* *
1145390 GATCTCGACCTTTTGCGACATTTGTTCCTAAAACGCCGC
131 GAACTCGACCTTTTGCGACATTTGTTCCAAAAACGCCGC
* * *
1145429 TATAGATATCGACCTTTTGCGGTGTTT-TTCCTAAAACG
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCC-AAAACG
1145467 CCACTATATA
Statistics
Matches: 174, Mismatches: 30, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
168 12 0.07
169 159 0.91
170 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (169 bp):
TATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGACGCTATAGATCTCGATCGTTTGCGAC
ATTTGTTTCAAAAACACCGCTATAGATCTGACCTTTTGCGACATTTGTTCCAAAACGCCGCTATA
GAACTCGACCTTTTGCGACATTTGTTCCAAAAACGCCGC
Found at i:1145516 original size:169 final size:170
Alignment explanation
Indices: 1145092--1145540 Score: 435
Period size: 169 Copynumber: 2.7 Consensus size: 170
1145082 TTGTATCTTT
* * * * * * * * *
1145092 TATAGATCT-GACCTTTTACGGCGTTTGTTTCAAAACGCCGCTATAGATCTCGATCGTTT-GCGA
1 TATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAACGACACTATAGATATC-AACCTTTGGCGG
* ** * * * *
1145155 CATTTG-TTCTTAAAACGCCGCTGTAGATCTGACCTTTTGCGACATTTGTTCTAAAACGCCGCTA
65 CGTTTGATTCAAAAAACGTCGCTATAGATCTGACCTTTTGCGGCATTTGTTCCAAAACGCCGCTA
* * * * *
1145219 TAGAACTTGATCTTTTGCGGCGTTTGTTTCAAAAACGCCGC
130 TAGAACTCGACCTTTTGCGACATTTGTTCCAAAAACGCCGC
* * * * * ** * * *
1145260 TATAGATCTTGATCTTTTGCGGCGTTTGTTCCAAAACGACGCTATAGATTTTGATCTTTTGCGTC
1 TATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAACGACACTATAGATATCAACCTTTGGCGGC
* ** *
1145325 GTTTGTTTCAAAAATA--TCGCTATAGATCTGACCTTTTGCGGTGTTTGTTCCAAAACGCCTCTA
66 GTTTGATTCAAAAA-ACGTCGCTATAGATCTGACCTTTTGCGGCATTTGTTCCAAAACGCCGCTA
* *
1145388 TAGATCTCGACCTTTTGCGACATTTGTTCCTAAAACGCCGC
130 TAGAACTCGACCTTTTGCGACATTTGTTCCAAAAACGCCGC
* * *
1145429 TATAGATATCGACCTTTTGCGGTGTTT-TTCCTAAAACGCCACTATATATATCAACCTTTGGCGG
1 TATAGATATCGACCTTTTGCGGCGTTTGTTCC-AAAACGACACTATAGATATCAACCTTTGGCGG
* *
1145493 CGTTT-ATTCAAAAAACGTCGCTATAGTTCTTGACCTATTGCGGCATTT
65 CGTTTGATTCAAAAAACGTCGCTATAGATC-TGACCTTTTGCGGCATTT
1145541 TTTGTTCTCA
Statistics
Matches: 227, Mismatches: 46, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
167 1 0.00
168 24 0.11
169 180 0.79
170 21 0.09
171 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.36
Consensus pattern (170 bp):
TATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAACGACACTATAGATATCAACCTTTGGCGGC
GTTTGATTCAAAAAACGTCGCTATAGATCTGACCTTTTGCGGCATTTGTTCCAAAACGCCGCTAT
AGAACTCGACCTTTTGCGACATTTGTTCCAAAAACGCCGC
Found at i:1145536 original size:43 final size:42
Alignment explanation
Indices: 1145092--1145536 Score: 405
Period size: 42 Copynumber: 10.5 Consensus size: 42
1145082 TTGTATCTTT
*
1145092 TATAGATC-TGACCTTTTACGGCGTTTGTTTC-AAAACGCCGC
1 TATAGATCTTGACCTTTTGCGGCGTTTG-TTCAAAAACGCCGC
* * * * * *
1145133 TATAGATCTCGATCGTTTGCGACATTTGTTCTTAAAACGCCGC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTC-AAAAACGCCGC
* * * *
1145176 TGTAGATC-TGACCTTTTGCGACATTTGTTCTAAAACGCCGC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCAAAAACGCCGC
* *
1145217 TATAGAACTTGATCTTTTGCGGCGTTTGTTTCAAAAACGCCGC
1 TATAGATCTTGACCTTTTGCGGCGTTTG-TTCAAAAACGCCGC
* * *
1145260 TATAGATCTTGATCTTTTGCGGCGTTTGTTCCAAAACGACGC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCAAAAACGCCGC
* * * ***
1145302 TATAGATTTTGATCTTTTGCGTCGTTTGTTTCAAAAATATCGC
1 TATAGATCTTGACCTTTTGCGGCGTTTG-TTCAAAAACGCCGC
* * *
1145345 TATAGATC-TGACCTTTTGCGGTGTTTGTTCCAAAACGCCTC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCAAAAACGCCGC
* * * *
1145386 TATAGATCTCGACCTTTTGCGACATTTGTTCCTAAAACGCCGC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTT-CAAAAACGCCGC
* * * * *
1145429 TATAGATATCGACCTTTTGCGGTGTTT-TTCCTAAAACGCCAC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTT-CAAAAACGCCGC
* * ** * * *
1145471 TATATATATCAACCTTTGGCGGCGTTTATTCAAAAAACGTCGC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTC-AAAAACGCCGC
* *
1145514 TATAGTTCTTGACCTATTGCGGC
1 TATAGATCTTGACCTTTTGCGGC
1145537 ATTTTTTGTT
Statistics
Matches: 335, Mismatches: 59, Indels: 18
0.81 0.14 0.04
Matches are distributed among these distances:
41 45 0.13
42 157 0.47
43 133 0.40
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (42 bp):
TATAGATCTTGACCTTTTGCGGCGTTTGTTCAAAAACGCCGC
Found at i:1145542 original size:85 final size:86
Alignment explanation
Indices: 1145092--1145536 Score: 408
Period size: 85 Copynumber: 5.3 Consensus size: 86
1145082 TTGTATCTTT
* * * * * * *
1145092 TATAGATC-TGACCTTTTACGGCGTTTGTTTCAAAACGCCGCTATAGATCTCGATCGTTTGCGAC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGCCACTATAGATATCGACCTTTTGCGGC
* **
1145156 ATTTG-TTCTTAAAACGCCGC
66 GTTTGTTTCAAAAAACGCCGC
* * * * * * *
1145176 TGTAGATC-TGACCTTTTGCGACATTTGTTCTAAAACGCCGCTATAGA-ACTTGATCTTTTGCGG
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGCCACTATAGATA-TCGACCTTTTGCGG
1145239 CGTTTGTTTC-AAAAACGCCGC
65 CGTTTGTTTCAAAAAACGCCGC
* * * * * * *
1145260 TATAGATCTTGATCTTTTGCGGCGTTTGTTCCAAAACGACGCTATAGATTTTGATCTTTTGCGTC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGCCACTATAGATATCGACCTTTTGCGGC
*
1145325 GTTTGTTTCAAAAATA--TCGC
66 GTTTGTTTCAAAAA-ACGCCGC
* * * *
1145345 TATAGATC-TGACCTTTTGCGGTGTTTGTTCCAAAACGCCTCTATAGATCTCGACCTTTTGCGAC
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGCCACTATAGATATCGACCTTTTGCGGC
* **
1145409 ATTTG-TTCCTAAAACGCCGC
66 GTTTGTTTCAAAAAACGCCGC
* * * * * *
1145429 TATAGATATCGACCTTTTGCGGTGTTT-TTCCTAAAACGCCACTATATATATCAACCTTTGGCGG
1 TATAGATCTTGACCTTTTGCGGCGTTTGTTCC-AAAACGCCACTATAGATATCGACCTTTTGCGG
* *
1145493 CGTTT-ATTCAAAAAACGTCGC
65 CGTTTGTTTCAAAAAACGCCGC
* *
1145514 TATAGTTCTTGACCTATTGCGGC
1 TATAGATCTTGACCTTTTGCGGC
1145537 ATTTTTTGTT
Statistics
Matches: 300, Mismatches: 50, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
82 1 0.00
83 6 0.02
84 140 0.47
85 148 0.49
86 4 0.01
87 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (86 bp):
TATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGCCACTATAGATATCGACCTTTTGCGGC
GTTTGTTTCAAAAAACGCCGC
Found at i:1146867 original size:22 final size:22
Alignment explanation
Indices: 1146842--1146901 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
1146832 ATTGACCGAG
* *
1146842 TCAGACCGCTGACTTTTACCTA
1 TCAGACCGTTGACTTTTACATA
*
1146864 TCAGACCGTTAACTTTTACATA
1 TCAGACCGTTGACTTTTACATA
*
1146886 TCAGACCATTGACTTT
1 TCAGACCGTTGACTTT
1146902 GATTGGTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (22 bp):
TCAGACCGTTGACTTTTACATA
Found at i:1149204 original size:31 final size:31
Alignment explanation
Indices: 1149150--1149277 Score: 132
Period size: 31 Copynumber: 4.1 Consensus size: 31
1149140 GAACCTCGGC
* * ** *
1149150 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCTTAGAACATAGGTA
*
1149181 AACTCTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCTTAGAACATAGGTA
* ** *
1149212 TACTGTCCATATG-TCCCAAAAGACATAGGTA
1 AACTGTCCATATGTTCCTTAGA-ACATAGGTA
*
1149243 ATTCTGTCCATATGTTCCTTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCTTAGAACATAGGTA
1149275 AAC
1 AAC
1149278 CCTCGAATCT
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
30 5 0.06
31 46 0.60
32 21 0.27
33 5 0.06
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (31 bp):
AACTGTCCATATGTTCCTTAGAACATAGGTA
Found at i:1149270 original size:63 final size:62
Alignment explanation
Indices: 1149151--1149274 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 62
1149141 AACCTCGGCA
* *
1149151 ACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTCTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATAGGTCCCAAAGAACATAGGTAAACTCTCCATATGTTCCTTAGAACATAGGTAT
* * *
1149213 ACTGTCCATATGTCCCAAA-AGACATAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTA
1 ACTGTCCATAGGTCCCAAAGA-ACATAGGTAA-ACTCTCCATATGTTCCTTAGAACATAGGTA
1149275 AACCCTCGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 1 0.02
62 26 0.47
63 28 0.51
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (62 bp):
ACTGTCCATAGGTCCCAAAGAACATAGGTAAACTCTCCATATGTTCCTTAGAACATAGGTAT
Found at i:1152043 original size:31 final size:30
Alignment explanation
Indices: 1152007--1152106 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 30
1151997 AAGATCCTTG
1152007 GGTAGGCTCTGCGGCCCCGAGATCTTTCTTA
1 GGTAGGC-CTGCGGCCCCGAGATCTTTCTTA
* * * *
1152038 TGTAGGCCATGCAGCCCTGAGAT-TTCTCTTG
1 GGTAGGCC-TGCGGCCCCGAGATCTT-TCTTA
* *
1152069 GGTAGGCCCTGTGGCCCCGAGAACTTTCTT-
1 GGTAGG-CCTGCGGCCCCGAGATCTTTCTTA
1152099 GGATAGGC
1 GG-TAGGC
1152107 TCTTAGGCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
30 6 0.11
31 45 0.82
32 4 0.07
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.28
Consensus pattern (30 bp):
GGTAGGCCTGCGGCCCCGAGATCTTTCTTA
Found at i:1152465 original size:34 final size:34
Alignment explanation
Indices: 1152397--1152492 Score: 147
Period size: 34 Copynumber: 2.7 Consensus size: 34
1152387 TCTGAATCAA
*
1152397 TGCAACTATTGACGTTAGTTTAAAAGGATTAAACCAG
1 TGCAACTATTGACGTTAG--T-AAGGGATTAAACCAG
1152434 TGCAACTATTGACGTTAGTAAGGGATTAAACCAG
1 TGCAACTATTGACGTTAGTAAGGGATTAAACCAG
*
1152468 TGCAACTATTGACGTCAGTAAGGGA
1 TGCAACTATTGACGTTAGTAAGGGA
1152493 GCCCCATCGG
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
34 38 0.67
35 1 0.02
37 18 0.32
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (34 bp):
TGCAACTATTGACGTTAGTAAGGGATTAAACCAG
Found at i:1153812 original size:2 final size:2
Alignment explanation
Indices: 1153807--1154034 Score: 129
Period size: 2 Copynumber: 115.5 Consensus size: 2
1153797 AAATTAAAAA
*
1153807 AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AA AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
1153846 AA ACT AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT -T AT AA ACT
1 AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T
* * * *
1153887 AT AT AT AT AT AA AT -T AT AT TT AT GT GA- ACT AT AT AT AT AA ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT AT A-T
* * * * * *
1153930 AT GT AT AT A- AA AT AT AT AT GT AT AA ACT AT AA AA AGT AT AT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT A-T
* * *
1153974 TT AT A- AA AT AT -T AT TT 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 AT
1154014 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
1154035 CTACTAGAAA
Statistics
Matches: 174, Mismatches: 31, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
1 12 0.07
2 154 0.89
3 8 0.05
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1153859 original size:15 final size:15
Alignment explanation
Indices: 1153841--1153960 Score: 86
Period size: 15 Copynumber: 7.9 Consensus size: 15
1153831 TATAAAATTA
1153841 TATATAAACTATATTT
1 TATATAAACTATA-TT
1153857 ATATTATAAACTATATAAT
1 -TA-TATAAACTATAT--T
*
1153876 TATTATAAACTATATA
1 TA-TATAAACTATATT
*
1153892 TATATAAATTATATT
1 TATATAAACTATATT
* *
1153907 TATGTGAACTATA--
1 TATATAAACTATATT
*
1153920 TATATAAAC--TATG
1 TATATAAACTATATT
* *
1153933 TATATAAAATATATA
1 TATATAAACTATATT
*
1153948 TGTATAAACTATA
1 TATATAAACTATA
1153961 AAAAGTATAT
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
11 2 0.02
13 15 0.18
15 35 0.42
16 2 0.02
17 3 0.04
18 26 0.31
19 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (15 bp):
TATATAAACTATATT
Found at i:1154180 original size:13 final size:13
Alignment explanation
Indices: 1154162--1154206 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
1154152 GTCATAAATC
*
1154162 TATGACGCACATT
1 TATGACACACATT
*
1154175 TATGACACGCATT
1 TATGACACACATT
1154188 TATGACACACATT
1 TATGACACACATT
1154201 TATGAC
1 TATGAC
1154207 GCTCTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (13 bp):
TATGACACACATT
Found at i:1154607 original size:41 final size:41
Alignment explanation
Indices: 1154550--1154646 Score: 169
Period size: 41 Copynumber: 2.4 Consensus size: 41
1154540 ATACAAAATA
* *
1154550 TGTCATGACATCAAAGCCTTGAGCAGATAAAACATATAATG
1 TGTCATGACATCAAAGCCTTGAGCAGAGAAAACAGATAATG
1154591 TGTCATGACATCAAAGCCTTGAGCAGAGAAAACAGATAATG
1 TGTCATGACATCAAAGCCTTGAGCAGAGAAAACAGATAATG
1154632 TGTCATGACAT-AAAG
1 TGTCATGACATCAAAG
1154647 TAGGTCAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
40 4 0.07
41 50 0.93
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (41 bp):
TGTCATGACATCAAAGCCTTGAGCAGAGAAAACAGATAATG
Found at i:1159102 original size:9 final size:9
Alignment explanation
Indices: 1159090--1159120 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
1159080 TATATGTATG
1159090 TATAACTAA
1 TATAACTAA
1159099 TATAACTAA
1 TATAACTAA
1159108 TATAACTAA
1 TATAACTAA
1159117 TATA
1 TATA
1159121 TATTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (9 bp):
TATAACTAA
Found at i:1159210 original size:14 final size:14
Alignment explanation
Indices: 1159189--1159233 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
1159179 TAGTTTATAA
1159189 AAATCCTAAACCCT
1 AAATCCTAAACCCT
* * *
1159203 ATATCCTAAAACAT
1 AAATCCTAAACCCT
*
1159217 AAACCCTAAACCCT
1 AAATCCTAAACCCT
1159231 AAA
1 AAA
1159234 CTTTATAAAC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATCCTAAACCCT
Found at i:1159403 original size:2 final size:2
Alignment explanation
Indices: 1159396--1159428 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
1159386 GTGTAGTATT
1159396 TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
1159429 AAGTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1159513 original size:7 final size:7
Alignment explanation
Indices: 1159503--1159599 Score: 69
Period size: 7 Copynumber: 14.6 Consensus size: 7
1159493 TAGTTTATAA
1159503 AAACCCT
1 AAACCCT
1159510 AAACCCT
1 AAACCCT
**
1159517 AAACTTT
1 AAACCCT
**
1159524 AAGTCCT
1 AAACCCT
*
1159531 AAAACCT
1 AAACCCT
1159538 AAACCCT
1 AAACCCT
* **
1159545 GATTCCT
1 AAACCCT
**
1159552 AAA-TAT
1 AAACCCT
1159558 AAA-CCT
1 AAACCCT
1159564 AAA-CCT
1 AAACCCT
1159570 AAACCCT
1 AAACCCT
1159577 AAA-CCT
1 AAACCCT
1159583 AAA-CCT
1 AAACCCT
1159589 AAACCCT
1 AAACCCT
1159596 AAAC
1 AAAC
1159600 ATAAACAATA
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
6 26 0.37
7 44 0.63
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:1159566 original size:12 final size:12
Alignment explanation
Indices: 1159557--1159605 Score: 71
Period size: 13 Copynumber: 3.9 Consensus size: 12
1159547 TTCCTAAATA
1159557 TAAACCTAAACC
1 TAAACCTAAACC
1159569 TAAACCCTAAACC
1 TAAA-CCTAAACC
1159582 TAAACCTAAACCC
1 TAAACCTAAA-CC
*
1159595 TAAACATAAAC
1 TAAACCTAAAC
1159606 AATAGTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.32
13 23 0.68
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (12 bp):
TAAACCTAAACC
Found at i:1159581 original size:19 final size:19
Alignment explanation
Indices: 1159557--1159605 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1159547 TTCCTAAATA
1159557 TAAACCTAAACCTAAACCC
1 TAAACCTAAACCTAAACCC
1159576 TAAACCTAAACCTAAACCC
1 TAAACCTAAACCTAAACCC
*
1159595 TAAACATAAAC
1 TAAACCTAAAC
1159606 AATAGTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (19 bp):
TAAACCTAAACCTAAACCC
Found at i:1159606 original size:6 final size:6
Alignment explanation
Indices: 1159557--1159605 Score: 71
Period size: 6 Copynumber: 7.8 Consensus size: 6
1159547 TTCCTAAATA
*
1159557 TAAACC TAAACC TAAACCC TAAACC TAAACC TAAACCC TAAACA TAAAC
1 TAAACC TAAACC TAAA-CC TAAACC TAAACC TAAA-CC TAAACC TAAAC
1159606 AATAGTTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 28 0.70
7 12 0.30
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (6 bp):
TAAACC
Found at i:1159657 original size:24 final size:23
Alignment explanation
Indices: 1159614--1159658 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1159604 ACAATAGTTA
*
1159614 ATATATATAATGTAACCTATAGT
1 ATATATATAATGTAAACTATAGT
*
1159637 ATATGTATACATGTAAACTATA
1 ATATATATA-ATGTAAACTATA
1159659 TATGTAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (23 bp):
ATATATATAATGTAAACTATAGT
Found at i:1159721 original size:20 final size:19
Alignment explanation
Indices: 1159682--1159784 Score: 84
Period size: 20 Copynumber: 5.1 Consensus size: 19
1159672 GTATTAGTAC
1159682 ATGTATCATGTATGTATAAACT
1 ATGTAT-ATGTA--TATAAACT
1159704 ATGTATAGTGTATATAAACT
1 ATGTATA-TGTATATAAACT
*
1159724 ATGTATA--TATATAACCT
1 ATGTATATGTATATAAACT
* *
1159741 ATAGTATATATATATACCATCT
1 AT-GTATATGTATATA--AACT
*
1159763 ATTTATATGTTATATAAACT
1 ATGTATATG-TATATAAACT
1159783 AT
1 AT
1159785 ATATGTAACC
Statistics
Matches: 69, Mismatches: 5, Indels: 16
0.77 0.06 0.18
Matches are distributed among these distances:
17 11 0.16
18 5 0.07
20 26 0.38
21 6 0.09
22 21 0.30
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (19 bp):
ATGTATATGTATATAAACT
Found at i:1159750 original size:16 final size:16
Alignment explanation
Indices: 1159707--1159752 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
1159697 ATAAACTATG
*
1159707 TATAGTGTATATAAAC
1 TATAGTATATATAAAC
1159723 TAT-GTATATATATAACC
1 TATAGTATATATA-AA-C
1159740 TATAGTATATATA
1 TATAGTATATATA
1159753 TATACCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 8 0.31
16 5 0.19
17 4 0.15
18 9 0.35
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (16 bp):
TATAGTATATATAAAC
Found at i:1159883 original size:21 final size:21
Alignment explanation
Indices: 1159831--1159883 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1159821 TAGTGTACTA
* *
1159831 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
* *
1159852 TATGGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
1159873 TATAGTTTATA
1 TATAGTTTATA
1159884 TTAATGTACT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.47
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:1159975 original size:65 final size:64
Alignment explanation
Indices: 1159901--1160110 Score: 202
Period size: 65 Copynumber: 3.3 Consensus size: 64
1159891 ACTATATAGT
* * * *
1159901 TTATATTAATGTTAATTATCTTAACCATAATTTATATTAATATAGTATATAGTTTATAAACTATA
1 TTATATTAATATTAATTAT-TTAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
* * *
1159966 TTATATTAATATTAATTATATTAACTATAGTTTATA--AACTATACTATATAATTTAT-GACATA
1 TTATATTAATATTAATTAT-TTAACTATAATTTATATTAA-TATAATATATAATTTATAAAC-TA
1160028 TA
63 TA
* *
1160030 GTTTATATTAATATTAATGT-TATAGACTAT-ATTT-TATTAATATTAAT-TATAAATTATAAAC
1 --TTATATTAATATTAAT-TATTTA-ACTATAATTTATATTAATA-TAATATATAATTTATAAAC
1160091 TATA
61 TATA
1160095 TTATATTAATA-TAATT
1 TTATATTAATATTAATT
1160111 TAATATTAAT
Statistics
Matches: 123, Mismatches: 12, Indels: 24
0.77 0.08 0.15
Matches are distributed among these distances:
61 1 0.01
62 4 0.03
63 15 0.12
64 21 0.17
65 52 0.42
66 29 0.24
67 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.49
Consensus pattern (64 bp):
TTATATTAATATTAATTATTTAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
Found at i:1160015 original size:14 final size:14
Alignment explanation
Indices: 1159955--1160016 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
1159945 GTATATAGTT
1159955 TATAAACTATATTA
1 TATAAACTATATTA
*
1159969 TATTAA-TATTAATTA
1 TATAAACTA-T-ATTA
*
1159984 TATTAACTATAGTT-
1 TATAAACTATA-TTA
*
1159998 TATAAACTATACTA
1 TATAAACTATATTA
1160012 TATAA
1 TATAA
1160017 TTTATGACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.08
14 22 0.55
15 13 0.32
16 2 0.05
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (14 bp):
TATAAACTATATTA
Found at i:1160045 original size:6 final size:6
Alignment explanation
Indices: 1160034--1160152 Score: 59
Period size: 6 Copynumber: 19.3 Consensus size: 6
1160024 CATATAGTTT
* * * * *
1160034 ATATTA ATATTA ATGTTA TAGACT- ATATT- TTATTA ATATTA ATTATAA
1 ATATTA ATATTA ATATTA -ATATTA ATATTA ATATTA ATATTA A-TATTA
* *
1160082 ATTATAA ACTATATT ATATTA ATA-TA AT-TTA ATATTA ATATTA AT-TATA
1 A-TATTA A-TAT-TA ATATTA ATATTA ATATTA ATATTA ATATTA ATAT-TA
*
1160131 ATATTA ATTATAA ATAGTTA AT
1 ATATTA A-TATTA ATA-TTA AT
1160153 TAATAAAAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
5 16 0.18
6 41 0.47
7 30 0.34
8 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (6 bp):
ATATTA
Found at i:1160059 original size:66 final size:65
Alignment explanation
Indices: 1159859--1160066 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 65
1159849 ACCTATGGTA
* * * *
1159859 TATAATTTATAAACTATAGTTTAT-ATTAATGTACTATATAGTTTATATTAATGTTAATTATCTT
1 TATAATTTATAAACTATAGTATATAATTTATG-AC-ATATAGTTTATATTAATATTAATTAT-AT
1159923 AAC
63 AAC
* * *
1159926 CATAATTTATATTAA-TATAGTATATAGTTTAT-AAACTATA--TTATATTAATATTAATTATAT
1 TATAATTTATA--AACTATAGTATATAATTTATGACA-TATAGTTTATATTAATATTAATTATA-
1159987 TAAC
62 TAAC
* *
1159991 TATAGTTTATAAACTATACTATATAATTTATGACATATAGTTTATATTAATATTAATGT-TATAG
1 TATAATTTATAAACTATAGTATATAATTTATGACATATAGTTTATATTAATATTAAT-TATATA-
1160055 AC
64 AC
*
1160057 TATATTTTAT
1 TATAATTTAT
1160067 TAATATTAAT
Statistics
Matches: 117, Mismatches: 13, Indels: 23
0.76 0.08 0.15
Matches are distributed among these distances:
63 2 0.02
64 19 0.16
65 35 0.30
66 30 0.26
67 16 0.14
68 9 0.08
69 6 0.05
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (65 bp):
TATAATTTATAAACTATAGTATATAATTTATGACATATAGTTTATATTAATATTAATTATATAAC
Found at i:1160095 original size:129 final size:133
Alignment explanation
Indices: 1159859--1160131 Score: 325
Period size: 129 Copynumber: 2.1 Consensus size: 133
1159849 ACCTATGGTA
* * * *
1159859 TATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTATATTAATGTTAATTATCTTA
1 TATAATTTATAAACTATACTATATATTAATGTACTATATAGTTTATATTAATATTAATTATCATA
* **
1159924 ACCATAATTTATATTAATATAGTATATAGTTTATAAACTATATTATATTAATATTAA-TT-ATAT
66 ACCATAATTTATATTAATATAATATATAAATTATAAACTATATTATATTAATA-TAATTTAATAT
1159987 TAAC
130 TAAC
* *
1159991 TATAGTTTATAAACTATACTATATAATTTATG-AC-ATATAGTTTATATTAATATTAATGT-T-A
1 TATAATTTATAAACTATACTATAT-ATTAATGTACTATATAGTTTATATTAATATTAAT-TATCA
*
1160052 TAGACTAT-ATTT-TATTAATATTAAT-TATAAATTATAAACTATATTATATTAATATAATTTAA
64 TA-ACCATAATTTATATTAATA-TAATATATAAATTATAAACTATATTATATTAATATAATTTAA
1160114 TATTAA-
127 TATTAAC
1160120 TATTAA-TTATAA
1 TA-TAATTTATAA
1160132 TATTAATTAT
Statistics
Matches: 123, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
128 3 0.02
129 45 0.37
130 18 0.15
131 27 0.22
132 24 0.20
133 6 0.05
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (133 bp):
TATAATTTATAAACTATACTATATATTAATGTACTATATAGTTTATATTAATATTAATTATCATA
ACCATAATTTATATTAATATAATATATAAATTATAAACTATATTATATTAATATAATTTAATATT
AAC
Found at i:1160118 original size:16 final size:17
Alignment explanation
Indices: 1160064--1160143 Score: 78
Period size: 16 Copynumber: 4.6 Consensus size: 17
1160054 GACTATATTT
1160064 TATTAATATTAATTATAA
1 TATTAATA-TAATTATAA
*
1160082 -ATT-ATA-AACTATATTA
1 TATTAATATAA-T-TATAA
1160098 TATTAATATAATT-TAA
1 TATTAATATAATTATAA
1160114 TATTAATATTAATTATAA
1 TATTAATA-TAATTATAA
1160132 TATTAATTATAA
1 TATTAA-TATAA
1160144 ATAGTTAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 2 0.04
15 1 0.02
16 17 0.33
17 12 0.23
18 16 0.31
19 4 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTAATATAATTATAA
Found at i:1160132 original size:12 final size:12
Alignment explanation
Indices: 1160067--1160154 Score: 74
Period size: 12 Copynumber: 7.0 Consensus size: 12
1160057 TATATTTTAT
1160067 TAATATTAATTA
1 TAATATTAATTA
*
1160079 TAAATTATAAACTATA
1 T-AA-TATTAA-T-TA
*
1160095 TTATATTAA-TA
1 TAATATTAATTA
1160106 TAAT-TTAA-TA
1 TAATATTAATTA
1160116 TTAATATTAATTA
1 -TAATATTAATTA
1160129 TAATATTAATTA
1 TAATATTAATTA
1160141 TAAATAGTTAATTA
1 T-AATA-TTAATTA
1160155 ATAAAAATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
10 6 0.10
11 9 0.14
12 18 0.29
13 8 0.13
14 17 0.27
15 2 0.03
16 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (12 bp):
TAATATTAATTA
Found at i:1160883 original size:12 final size:12
Alignment explanation
Indices: 1160868--1160895 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1160858 CCCAAACCCT
1160868 AACCTGAATTCA
1 AACCTGAATTCA
1160880 AACCTGAATTCA
1 AACCTGAATTCA
1160892 AACC
1 AACC
1160896 CGAACCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (12 bp):
AACCTGAATTCA
Found at i:1161203 original size:17 final size:17
Alignment explanation
Indices: 1161162--1161194 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1161152 AATTTCTAGC
1161162 TACTGTTGATTTGTTTA
1 TACTGTTGATTTGTTTA
1161179 TACTGTTGATTTGTTT
1 TACTGTTGATTTGTTT
1161195 GTGTTGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.18, T:0.61
Consensus pattern (17 bp):
TACTGTTGATTTGTTTA
Found at i:1161364 original size:102 final size:101
Alignment explanation
Indices: 1161179--1161398 Score: 334
Period size: 102 Copynumber: 2.2 Consensus size: 101
1161169 GATTTGTTTA
*
1161179 TACTGTTGATTTGTTTGTGTTGTTGGATGTTCATTTGATTGCTTTTATAAAGTTATTAGCTACCT
1 TACTGTTGATTTGTTTATGTTGTTGGATGTTCATTTGATTGCTTTTATAAAGTTATTAGCTACCT
* *
1161244 TTATTTATAGTTTAAATAAATTGTTTAATTTGTAGC
66 TTATTTACAGTTTAAATAAACTGTTTAATTTGTAGC
* * * *
1161280 TACTGTTGATTTGTTTATGTTGTTGGTTGTTCATTTGGATTGCTTTTATAAGGTTGTTAGCTGCC
1 TACTGTTGATTTGTTTATGTTGTTGGATGTTCATTT-GATTGCTTTTATAAAGTTATTAGCTACC
*
1161345 TTTATTTACAGTTTAAATAAACTGTTTAATTTTTAGC
65 TTTATTTACAGTTTAAATAAACTGTTTAATTTGTAGC
* *
1161382 TATTGTTG-GTTGTTTAT
1 TACTGTTGATTTGTTTAT
1161399 TCGAATTGCT
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 42 0.39
102 66 0.61
ACGTcount: A:0.21, C:0.07, G:0.18, T:0.53
Consensus pattern (101 bp):
TACTGTTGATTTGTTTATGTTGTTGGATGTTCATTTGATTGCTTTTATAAAGTTATTAGCTACCT
TTATTTACAGTTTAAATAAACTGTTTAATTTGTAGC
Found at i:1163012 original size:195 final size:196
Alignment explanation
Indices: 1162670--1163061 Score: 741
Period size: 195 Copynumber: 2.0 Consensus size: 196
1162660 GCCTGTTGCA
*
1162670 TGCTGTCTATTGTTGCCTTGTATTTTATTTTGTTGGTCTGACTTAAATAGACTGTTGAAACTGCC
1 TGCTGCCTATTGTTGCCTTGTATTTTATTTTGTTGGTCTGACTTAAATAGACTGTTGAAACTGCC
1162735 ATTTTTTTTCGAAATAACTACTCATGTTAAATTATGTTGGTAGCTTTAATAGTTGCCCGTAATTT
66 ATTTTTTTTCGAAATAACTACTCATGTTAAATTATGTTGGTAGCTTTAATAGTTGCCCGTAATTT
1162800 AACAATGTTGGCAGCTATTTCGATATAAAAGCTCGATGAAGAAATTTTTGGTAGCAAAGTTAGAC
131 AACAATGTTGGCAGCTATTTCGATATAAAAGCTCGATGAAGAAATTTTTGGTAGCAAAGTTAGAC
1162865 T
196 T
* * *
1162866 TGCTGCCTGTTGTTGCCTTGTATTTTATTTTGTTGGTTTGACTTAAATAGACTGTTGAAACTGTC
1 TGCTGCCTATTGTTGCCTTGTATTTTATTTTGTTGGTCTGACTTAAATAGACTGTTGAAACTGCC
1162931 A-TTTTTTTCGAAATAACTACTCATGTTAAATTATGTTGGTAGCTTTAATAGTTGCCCGTAATTT
66 ATTTTTTTTCGAAATAACTACTCATGTTAAATTATGTTGGTAGCTTTAATAGTTGCCCGTAATTT
1162995 AACAATGTTGGCAGCTATTTCGATATAAAAGCTCGATGAAGAAATTTTTGGTAGCAAAGTTAGAC
131 AACAATGTTGGCAGCTATTTCGATATAAAAGCTCGATGAAGAAATTTTTGGTAGCAAAGTTAGAC
1163060 T
196 T
1163061 T
1 T
1163062 TTAGCCTTAT
Statistics
Matches: 192, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
195 130 0.68
196 62 0.32
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (196 bp):
TGCTGCCTATTGTTGCCTTGTATTTTATTTTGTTGGTCTGACTTAAATAGACTGTTGAAACTGCC
ATTTTTTTTCGAAATAACTACTCATGTTAAATTATGTTGGTAGCTTTAATAGTTGCCCGTAATTT
AACAATGTTGGCAGCTATTTCGATATAAAAGCTCGATGAAGAAATTTTTGGTAGCAAAGTTAGAC
T
Found at i:1163355 original size:23 final size:24
Alignment explanation
Indices: 1163311--1163364 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
1163301 TTAATCACAT
*
1163311 TTAA-TATTAATTTATTATC-AAA
1 TTAATTATTAATTTATTACCAAAA
* *
1163333 TTAATTATTATTTTATTGCCAAAA
1 TTAATTATTAATTTATTACCAAAA
*
1163357 TTATTTAT
1 TTAATTAT
1163365 ATTATTAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 4 0.15
23 12 0.46
24 10 0.38
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.54
Consensus pattern (24 bp):
TTAATTATTAATTTATTACCAAAA
Found at i:1163452 original size:14 final size:14
Alignment explanation
Indices: 1163433--1163479 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
1163423 ATTTTTTCTT
1163433 TATATAAATTAAAC
1 TATATAAATTAAAC
1163447 TATAT-AATT----
1 TATATAAATTAAAC
1163456 TATATAAATTAAAC
1 TATATAAATTAAAC
*
1163470 TATATTAATT
1 TATATAAATT
1163480 TTTCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:1163457 original size:23 final size:24
Alignment explanation
Indices: 1163431--1163480 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
1163421 TTATTTTTTC
1163431 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
1163454 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
1163478 TTT
1 TTT
1163481 TTCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:1163776 original size:16 final size:16
Alignment explanation
Indices: 1163738--1163793 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
1163728 AATCATTTAC
* *
1163738 AGGTCAGATTAAAAAC
1 AGGTCAGGTTAAAAAT
**
1163754 AAATCAGGTTAAAAAT
1 AGGTCAGGTTAAAAAT
*
1163770 AGGTCAGGTTGAAAAT
1 AGGTCAGGTTAAAAAT
*
1163786 ATGTCAGG
1 AGGTCAGG
1163794 ATGAAAACAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (16 bp):
AGGTCAGGTTAAAAAT
Found at i:1163798 original size:16 final size:16
Alignment explanation
Indices: 1163765--1163800 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1163755 AATCAGGTTA
*
1163765 AAAATAGGTCAGGTTG
1 AAAATAGGTCAGGATG
*
1163781 AAAATATGTCAGGATG
1 AAAATAGGTCAGGATG
1163797 AAAA
1 AAAA
1163801 CAATCGGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (16 bp):
AAAATAGGTCAGGATG
Found at i:1167643 original size:16 final size:16
Alignment explanation
Indices: 1167619--1167653 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1167609 AGAAAAAGAA
* *
1167619 AAAATAATAATAAAAT
1 AAAACAATAAGAAAAT
1167635 AAAACAATAAGAAAAT
1 AAAACAATAAGAAAAT
1167651 AAA
1 AAA
1167654 GAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAACAATAAGAAAAT
Found at i:1167673 original size:38 final size:37
Alignment explanation
Indices: 1167631--1167719 Score: 94
Period size: 38 Copynumber: 2.4 Consensus size: 37
1167621 AATAATAATA
*
1167631 AAATAAAACAATAA-GAAAATAA-AGAAAATAAAAACATT
1 AAATAAAACAA-AAGGAAAA-AATA-AAAATAAAAACAAT
*
1167669 AAATAAATCAAAAGGGAAAAAATAAAAATAAAAACAAT
1 AAATAAAACAAAA-GGAAAAAATAAAAATAAAAACAAT
*
1167707 AAA-AAAATAAAAG
1 AAATAAAACAAAAG
1167720 TTAGATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
36 1 0.02
37 9 0.20
38 28 0.64
39 6 0.14
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.13
Consensus pattern (37 bp):
AAATAAAACAAAAGGAAAAAATAAAAATAAAAACAAT
Found at i:1169111 original size:20 final size:20
Alignment explanation
Indices: 1169073--1169109 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
1169063 TGAACCTGAC
*
1169073 AATAAAATGAAAGTAAAATT
1 AATAAAATGAAAGAAAAATT
1169093 AATAAAA-GAAAGAAAAA
1 AATAAAATGAAAGAAAAA
1169110 ATAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (20 bp):
AATAAAATGAAAGAAAAATT
Found at i:1169173 original size:23 final size:24
Alignment explanation
Indices: 1169147--1169191 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1169137 AATATATTAT
1169147 TATATAA-A-ATATTTTCTAAAATC
1 TATATAATATATATTTTC-AAAATC
1169170 TATATAATATATATTTTCAAAA
1 TATATAATATATATTTTCAAAA
1169192 GTATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (24 bp):
TATATAATATATATTTTCAAAATC
Found at i:1169217 original size:36 final size:35
Alignment explanation
Indices: 1169158--1169600 Score: 323
Period size: 36 Copynumber: 12.6 Consensus size: 35
1169148 ATATAAAATA
1169158 TTTTCTAAAATCTATATA--ATATATATTTTCAAAAG
1 TTTT-TAAAA-CTATATATTATATATATTTTCAAAAG
* *
1169193 TATTTTAAAATTATATATTATATAT-TTTTAAAAAAATG
1 T-TTTTAAAACTATATATTATATATATTTT--CAAAA-G
* *
1169231 TTTTT----C-A-AAATTATATA-GTTTTCAAAAATG
1 TTTTTAAAACTATATATTATATATATTTTC-AAAA-G
*
1169261 TTTTTAAAACTATATATTATA-A-GTTTTCAAAATG
1 TTTTTAAAACTATATATTATATATATTTTCAAAA-G
* * *
1169295 ATTTCAAAACTATATAATATATATATGTTTTTCAAAATG
1 TTTTTAAAACTATAT-AT-TATATAT-ATTTTCAAAA-G
* *
1169334 TTTTT--AA--A-A-ACTCTATATATTTTCAAAA-
1 TTTTTAAAACTATATATTATATATATTTTCAAAAG
* * *
1169362 TGTTTAAAAACTATATAATATATATATTTTCAAAAT
1 T-TTTTAAAACTATATATTATATATATTTTCAAAAG
*
1169398 TTTTTAAAAACTATATATTATATTTATTTTCAAAATG
1 TTTTT-AAAACTATATATTATATATATTTTCAAAA-G
* *
1169435 TTTTAAAAACTATATAATATATATATTTTCAAAAATG
1 TTTTTAAAACTATATATTATATATATTTTC-AAAA-G
* * *
1169472 TTTTAAAAACTATATATTATATTTATTTTCAAAAC
1 TTTTTAAAACTATATATTATATATATTTTCAAAAG
* *
1169507 TTTTAAAAACTATATAATATATAAATATTTTCAAACATG
1 TTTTTAAAACTATAT-AT-TATATATATTTTCAAA-A-G
* * *
1169546 TTTTCAAAACTATATATTATATATATATT-AAAAT
1 TTTTTAAAACTATATATTATATATATTTTCAAAAG
*
1169580 TTTTTAAAACTATATAATATA
1 TTTTTAAAACTATATATTATA
1169601 AAAAATGGGA
Statistics
Matches: 338, Mismatches: 36, Indels: 69
0.76 0.08 0.16
Matches are distributed among these distances:
28 1 0.00
29 3 0.01
30 20 0.06
31 21 0.06
32 2 0.01
33 1 0.00
34 47 0.14
35 57 0.17
36 80 0.24
37 73 0.22
38 5 0.01
39 28 0.08
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (35 bp):
TTTTTAAAACTATATATTATATATATTTTCAAAAG
Found at i:1169247 original size:31 final size:29
Alignment explanation
Indices: 1169209--1169278 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
1169199 AAAATTATAT
1169209 ATTATATATTTTTAAAAAAATGTTTTTCAAA
1 ATTATATATTTTT-AAAAAATGTTTTT-AAA
* *
1169240 ATTATATAGTTTTCAAAAATGTTTTTAAA
1 ATTATATATTTTTAAAAAATGTTTTTAAA
*
1169269 ACTATATATT
1 ATTATATATT
1169279 ATAAGTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 11 0.31
30 12 0.34
31 12 0.34
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (29 bp):
ATTATATATTTTTAAAAAATGTTTTTAAA
Found at i:1169247 original size:38 final size:35
Alignment explanation
Indices: 1169135--1169247 Score: 106
Period size: 38 Copynumber: 3.1 Consensus size: 35
1169125 AATGATAATA
*
1169135 ATAATATATTATTATATAAAA-TATTTTCTAAAATCTAT
1 ATAATATA-TATTTTA-AAAAGTATTTTC-AAAAT-TAT
*
1169173 ATAATATATATTTTCAAAAGTATTTT-AAAATTAT
1 ATAATATATATTTTAAAAAGTATTTTCAAAATTAT
*
1169207 ATATTATATATTTTTAAAAAAATGT-TTTTCAAAATTAT
1 ATAATATATA-TTTT--AAAAA-GTATTTTCAAAATTAT
1169245 ATA
1 ATA
1169248 GTTTTCAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
34 12 0.18
35 9 0.14
36 4 0.06
37 19 0.29
38 21 0.32
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.48
Consensus pattern (35 bp):
ATAATATATATTTTAAAAAGTATTTTCAAAATTAT
Found at i:1169320 original size:74 final size:72
Alignment explanation
Indices: 1169242--1169600 Score: 413
Period size: 73 Copynumber: 5.0 Consensus size: 72
1169232 TTTTCAAAAT
*
1169242 TATATAGTTTTCAAAAATGTTTTTAAAACTATATATTATA-AGTTTTCAAAATGATTTCAAAACT
1 TATATA-TTTTCAAAAATGTTTTTAAAACTATATATTATATA-TTTTCAAAATG-TTTAAAAACT
1169306 ATATAATATA
63 ATATAATATA
* * *
1169316 TATATGTTTTTC-AAAATGTTTTTAAAA--A-CT-CTATATATTTTCAAAATGTTTAAAAACTAT
1 TATAT-ATTTTCAAAAATGTTTTTAAAACTATATATTATATATTTTCAAAATGTTTAAAAACTAT
1169376 AT-A-ATA
65 ATAATATA
1169382 TATATATTTTC-AAAAT-TTTTTAAAAACTATATATTATATTTATTTTCAAAATGTTTTAAAAAC
1 TATATATTTTCAAAAATGTTTTT-AAAACTATATATTATA--TATTTTCAAAATG-TTTAAAAAC
1169445 TATAT-A-ATA
62 TATATAATATA
*
1169454 TATATATTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCAAAACT-TTTAAAAACT
1 TATATATTTTCAAAAATGTTTTTAAAACTATATATTATA--TATTTTCAAAA-TGTTTAAAAACT
1169518 ATATAATATA
63 ATATAATATA
* * * * *
1169528 TAAATATTTTCAAACATGTTTTCAAAACTATATATTATATATATATT-AAAATTTTTTAAAACTA
1 TATATATTTTCAAAAATGTTTTTAAAACTATATATTATATAT-T-TTCAAAATGTTTAAAAACTA
1169592 TATAATATA
64 TATAATATA
1169601 AAAAATGGGA
Statistics
Matches: 255, Mismatches: 12, Indels: 37
0.84 0.04 0.12
Matches are distributed among these distances:
64 5 0.02
65 14 0.05
66 8 0.03
67 2 0.01
68 14 0.05
69 19 0.07
70 2 0.01
71 14 0.05
72 47 0.18
73 74 0.29
74 56 0.22
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.46
Consensus pattern (72 bp):
TATATATTTTCAAAAATGTTTTTAAAACTATATATTATATATTTTCAAAATGTTTAAAAACTATA
TAATATA
Found at i:1169339 original size:140 final size:130
Alignment explanation
Indices: 1169163--1169600 Score: 332
Period size: 140 Copynumber: 3.1 Consensus size: 130
1169153 AAATATTTTC
* *
1169163 TAAAATCTATAT-A-ATATATATTTTCAAAA-GTATTTTAAAATTATATATTATATATTTTTAAA
1 TAAAAACTATATAATATATATATTTTCAAAATGT-TTTTAAAATTATATATTATATATGTTT--A
* * *
1169225 AAAATGTTTTTCAAAATTATATAGTTTTCAAAAATGTTTTT-AAAACTATATATTATA-AGTTTT
63 AAAA-CTATAT-AAAA-TATATA-TTTTC-AAAAT-TTTTTAAAAACTATATATTATATA-TTTT
1169288 CAAAATGATT
121 CAAAATGATT
* * *
1169298 TCAAAACTATATAATATATATATGTTTTTCAAAATGTTTTTAAAAACTCTATATATTTTCAAAAT
1 TAAAAACTATATAATATATATA---TTTTCAAAATGTTTTT-AAAA-T-TATATATTAT--ATAT
*
1169363 GTTTAAAAACTATATAATATATATATTTTCAAAATTTTTTAAAAACTATATATTATATTTATTTT
58 GTTTAAAAACTATATAAAATATATATTTTCAAAATTTTTTAAAAACTATATATTATA--TATTTT
*
1169428 CAAAATGTTT
121 CAAAATGATT
* *
1169438 TAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATTTATTTTCA
1 TAAAAACTATATAATATATATATTTTC-AAAATGTTTTTAAAATTATATATTATA--TA---T--
* * * *
1169503 AAACTTTTAAAAACTATATAATATATAAATATTTTCAAACATGTTTTCAAAACTATATATTATAT
58 ----GTTTAAAAACTATATAA-A-ATATATATTTTCAAA-ATTTTTTAAAAACTATATATTATAT
*
1169568 ATATATT-AAAAT-TTT
116 AT-T-TTCAAAATGATT
*
1169583 TTAAAACTATATAATATA
1 TAAAAACTATATAATATA
1169601 AAAAATGGGA
Statistics
Matches: 250, Mismatches: 21, Indels: 54
0.77 0.06 0.17
Matches are distributed among these distances:
133 1 0.00
135 20 0.08
136 1 0.00
137 21 0.08
138 32 0.13
139 5 0.02
140 53 0.21
141 10 0.04
142 4 0.02
143 14 0.06
144 16 0.06
145 29 0.12
146 20 0.08
147 24 0.10
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (130 bp):
TAAAAACTATATAATATATATATTTTCAAAATGTTTTTAAAATTATATATTATATATGTTTAAAA
ACTATATAAAATATATATTTTCAAAATTTTTTAAAAACTATATATTATATATTTTCAAAATGATT
Found at i:1169388 original size:37 final size:36
Alignment explanation
Indices: 1169242--1169600 Score: 329
Period size: 36 Copynumber: 10.1 Consensus size: 36
1169232 TTTTCAAAAT
*
1169242 TATATAGTTTTCAAAAATGTTTTTAAAACTATATAT-TA
1 TATATA-TTTTC-AAAATG-TTTAAAAACTATATATATA
* *
1169280 TA-A-GTTTTCAAAATGATTTCAAAACTATATAATATA
1 TATATATTTTCAAAATG-TTTAAAAACTATAT-ATATA
* ** * *
1169316 TATATGTTTTTCAAAATGTTT-TTAA--A-A-A-CTC
1 TATAT-ATTTTCAAAATGTTTAAAAACTATATATATA
1169347 TATATATTTTCAAAATGTTTAAAAACTATATA-ATA
1 TATATATTTTCAAAATGTTTAAAAACTATATATATA
*
1169382 TATATATTTTCAAAATTTTTTAAAAACTATATAT-TA
1 TATATATTTTCAAAA-TGTTTAAAAACTATATATATA
*
1169418 TATTTATTTTCAAAATGTTTTAAAAACTATATA-ATA
1 TATATATTTTCAAAATG-TTTAAAAACTATATATATA
1169454 TATATATTTTCAAAAATGTTTTAAAAACTATATAT-TA
1 TATATATTTTC-AAAATG-TTTAAAAACTATATATATA
*
1169491 TATTTATTTTCAAAACT-TTTAAAAACTATATAATATA
1 TATATATTTTCAAAA-TGTTTAAAAACTATAT-ATATA
* *
1169528 TAAATATTTTCAAACATGTTTTCAAAACTATATAT-TA
1 TATATATTTTCAAA-ATG-TTTAAAAACTATATATATA
* * *
1169565 TATATATATT-AAAATTTTTTAAAACTATATA-ATA
1 TATATATTTTCAAAATGTTTAAAAACTATATATATA
1169599 TA
1 TA
1169601 AAAAATGGGA
Statistics
Matches: 273, Mismatches: 25, Indels: 50
0.78 0.07 0.14
Matches are distributed among these distances:
30 14 0.05
31 8 0.03
32 1 0.00
33 1 0.00
34 39 0.14
35 42 0.15
36 72 0.26
37 64 0.23
38 8 0.03
39 24 0.09
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.46
Consensus pattern (36 bp):
TATATATTTTCAAAATGTTTAAAAACTATATATATA
Found at i:1170442 original size:84 final size:81
Alignment explanation
Indices: 1170193--1170942 Score: 754
Period size: 81 Copynumber: 9.2 Consensus size: 81
1170183 GAATGTAATT
* * * * * *
1170193 GAACTCGAAGG-CCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGGTGCCT
1 GAACTCGAAGGTCTTTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGAT-GTGCCT
* *
1170257 TTGAGCTGAGTGTAATC
65 TGGAGCTGAGTGTAGTC
* *
1170274 GAACTCGAAGGTC-TTTGGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTT
1 GAACTCGAAGGTCTTTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT
* *
1170338 GGAGCTAAGCGTAGTC
66 GGAGCTGAGTGTAGTC
** * *
1170354 GAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTATCCTTGAGTTATGTTGCAAAT-ATTGGT
1 GAACTCGAAGGTC--TT-TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGA-T-GT
* *
1170418 GCCTTTGAGCTGAGTGTA-TT
61 GCCTTGGAGCTGAGTGTAGTC
* * *
1170438 GAACTCGAAGGTC-TTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGACGTGCCTT
1 GAACTCGAAGGTCTTTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT
*
1170502 GGAGCTGAGCGTAGTC
66 GGAGCTGAGTGTAGTC
* * *
1170518 GAACT---AGGTCTTTGTTGACAGATAACCCTTCTA-ACATTGAGTTATGCTGTAAATGATGTGC
1 GAACTCGAAGGTC-TT-TTGGCAGATAACCCTTCTAGAC-TTAAGTTATGCTGCAAATGATGTG-
* * *
1170579 CCTCGAAGCTGAGTGTAATC
62 CCTTGGAGCTGAGTGTAGTC
* * *
1170599 AAACTCG-AGAGTC-TTTGGCAGATAACCCTTCTA-ACATTGAGTTATGCTGTAAATGATGTGCC
1 GAACTCGAAG-GTCTTTTGGCAGATAACCCTTCTAGAC-TTAAGTTATGCTGCAAATGATGTG-C
* * *
1170661 CTCGAAGCTGAGTGTAATC
63 CTTGGAGCTGAGTGTAGTC
* * *
1170680 AAACTCG-AGAGTC-TTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCT
1 GAACTCGAAG-GTCTTTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCT
*
1170743 TGGAGCTGAGCGTAGTC
65 TGGAGCTGAGTGTAGTC
* * * *
1170760 GAACTCGAAGGTCTTTGGTTTGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGC
1 GAACTCGAAGGTC-TT--TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
*
1170825 CTTGGAGCTGAGTATAGTC
63 CTTGGAGCTGAGTGTAGTC
* * * * * * *
1170844 AAACTCGAAGGTCTTTTGCTGGCAGATATCCCTTCTAGCCCTGAGCTATGCTACAAATGATGTGC
1 GAACTCGAAGGTC-TTT--TGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
*
1170909 CTTGGAGCTAAGTGTAGTC
63 CTTGGAGCTGAGTGTAGTC
*
1170928 AAACTCGAAGGTCTT
1 GAACTCGAAGGTCTT
1170943 GGCTGACAGA
Statistics
Matches: 576, Mismatches: 68, Indels: 48
0.83 0.10 0.07
Matches are distributed among these distances:
77 5 0.01
79 21 0.04
80 134 0.23
81 194 0.34
82 6 0.01
83 6 0.01
84 193 0.34
85 17 0.03
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (81 bp):
GAACTCGAAGGTCTTTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT
GGAGCTGAGTGTAGTC
Found at i:1172252 original size:93 final size:92
Alignment explanation
Indices: 1172070--1172311 Score: 307
Period size: 93 Copynumber: 2.7 Consensus size: 92
1172060 GGCTAGCTGG
* ** *
1172070 ATCCATAAAGTC-GGGCGTTTAACTAATTGCTTTAGAGGGACAACTCAA--TAGA-TAT-TA-TA
1 ATCCATAAAGTCGGGGCGTTTAACCAATTGCTTTAGAGGGA-AACTCAAGCTTTATTGTATATTA
1172129 ATCACCTTTATCAGGCTAGCTGAATATT
65 ATCACCTTTATCAGGCTAGCTGAATATT
* *
1172157 ATCCATAAAGCCGGGGCGTTTATCCAATTGCTTTAGAGGGATAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGTCGGGGCGTTTAACCAATTGCTTTAGAGGGA-AACTCAAGCTTTATTGTATATTA
*
1172222 ATCACCTTTATCAGGCTAGCTGAATCTT
65 ATCACCTTTATCAGGCTAGCTGAATATT
* ** ** *
1172250 ATCCATAAAGTCGGGGCTTTTAACCAATTATTTTCTAGGGACACTCAAGCTTTATTGTATAT
1 ATCCATAAAGTCGGGGCGTTTAACCAATTGCTTTAGAGGGAAACTCAAGCTTTATTGTATAT
1172312 ATATAATATT
Statistics
Matches: 133, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
87 11 0.08
88 33 0.25
90 2 0.02
91 2 0.02
92 22 0.17
93 63 0.47
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (92 bp):
ATCCATAAAGTCGGGGCGTTTAACCAATTGCTTTAGAGGGAAACTCAAGCTTTATTGTATATTAA
TCACCTTTATCAGGCTAGCTGAATATT
Found at i:1176148 original size:16 final size:16
Alignment explanation
Indices: 1176124--1176158 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1176114 AGGAAAAGAA
* *
1176124 AAAATAATAATAAAAT
1 AAAACAATAAGAAAAT
1176140 AAAACAATAAGAAAAT
1 AAAACAATAAGAAAAT
1176156 AAA
1 AAA
1176159 GAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAACAATAAGAAAAT
Found at i:1176212 original size:14 final size:14
Alignment explanation
Indices: 1176195--1176280 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
1176185 AAGGGAAAGG
1176195 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
1176209 AAAAACAATAAAAGA-
1 AAAAA-AATAAAA-AT
*
1176224 AAAATAAA-AACAAT
1 AAAA-AAATAAAAAT
1176238 -AAAAAATAAAAAAT
1 AAAAAAAT-AAAAAT
** *
1176252 AATGAACTAAAAAT
1 AAAAAAATAAAAAT
*
1176266 AAGAAAAACAAAAAT
1 AA-AAAAATAAAAAT
1176281 GCACCAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
12 3 0.05
13 4 0.07
14 21 0.38
15 25 0.45
16 2 0.04
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:1176213 original size:7 final size:7
Alignment explanation
Indices: 1176196--1176253 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
1176186 AGGGAAAGGA
1176196 AAAAAAT
1 AAAAAAT
1176203 -AAAAAT
1 AAAAAAT
1176209 AAAAACAAT
1 -AAAA-AAT
1176218 AAAAGAA-
1 AAAA-AAT
*
1176225 AAATAA-
1 AAAAAAT
*
1176231 AAACAAT
1 AAAAAAT
1176238 AAAAAAT
1 AAAAAAT
1176245 AAAAAAT
1 AAAAAAT
1176252 AA
1 AA
1176254 TGAACTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 13 0.30
7 18 0.42
8 9 0.21
9 3 0.07
ACGTcount: A:0.83, C:0.03, G:0.02, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:1176221 original size:20 final size:20
Alignment explanation
Indices: 1176198--1176241 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
1176188 GGAAAGGAAA
*
1176198 AAAATAAAAATAAAAACAAT
1 AAAAGAAAAATAAAAACAAT
1176218 AAAAGAAAAATAAAAACAAT
1 AAAAGAAAAATAAAAACAAT
1176238 AAAA
1 AAAA
1176242 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.82, C:0.05, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAGAAAAATAAAAACAAT
Found at i:1177581 original size:20 final size:20
Alignment explanation
Indices: 1177544--1177582 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1177534 ATGGACTGAC
*
1177544 AATAAAATGAAAATAAAATT
1 AATAAAATGAAAAAAAAATT
1177564 AATAAAA-GAAAGAAAAAAT
1 AATAAAATGAAA-AAAAAAT
1177583 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (20 bp):
AATAAAATGAAAAAAAAATT
Found at i:1177720 original size:30 final size:27
Alignment explanation
Indices: 1177685--1177749 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
1177675 AAAATTATAT
1177685 ATTATATAGTTTTTAAAAAATGTTTTTAAA
1 ATTATATAG-TTTT--AAAATGTTTTTAAA
*
1177715 ATTATATAGTTTTCAAATGTTTTTAAA
1 ATTATATAGTTTTAAAATGTTTTTAAA
*
1177742 ACTATATA
1 ATTATATA
1177750 TTATAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 20 0.61
29 4 0.12
30 9 0.27
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (27 bp):
ATTATATAGTTTTAAAATGTTTTTAAA
Found at i:1177798 original size:61 final size:64
Alignment explanation
Indices: 1177652--1177804 Score: 154
Period size: 61 Copynumber: 2.4 Consensus size: 64
1177642 CCAAAAACTA
* * * *
1177652 TATATATATTTTCAAA-GTATTTTAAAATTATATATTATATAGTTTTTAAAAAATGTTTTTAAAA
1 TATATA-ATTATCAAATGT-TTTTAAAACTATATATTATATAGTTTTTAAAAAATGATTTCAAAA
*
1177716 T
64 C
* * *
1177717 TATATAGTTTTCAAATGTTTTTAAAACTATATATTATA-AG-TTTT-CAAAATGATTTCAAAAC
1 TATATAATTATCAAATGTTTTTAAAACTATATATTATATAGTTTTTAAAAAATGATTTCAAAAC
*
1177778 TATATAATATAT-ATATGTTTTTCAAAA
1 TATATAAT-TATCAAATGTTTTT-AAAA
1177805 TGTTTTTAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
61 29 0.38
62 10 0.13
63 2 0.03
64 27 0.36
65 8 0.11
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (64 bp):
TATATAATTATCAAATGTTTTTAAAACTATATATTATATAGTTTTTAAAAAATGATTTCAAAAC
Found at i:1177814 original size:73 final size:71
Alignment explanation
Indices: 1177717--1178041 Score: 388
Period size: 71 Copynumber: 4.6 Consensus size: 71
1177707 TTTTTAAAAT
*
1177717 TATATAGTTTTC-AAATGTTTTTAAAACTATATATTATA-AGTTTTCAAAATGATTTCAAAACTA
1 TATATAGTTTTCAAAATGTTTTTAAAACTATATATTATATA-TTTTCAAAATGATTTAAAAACTA
1177780 TATAATA
65 TATAATA
1177787 TATATATGTTTTTCAAAATGTTTTTAAAAC----TA-TATATATTTTCAAAATG-TTTAAAAACT
1 TATATA-G-TTTTCAAAATGTTTTTAAAACTATATATTATATATTTTCAAAATGATTTAAAAACT
1177846 ATATAATA
64 ATATAATA
* * *
1177854 TATATA-TTTTCAAAAATGTTTTAAAAATTATATATTATATTTATTTTCAAAATGTTTTAAAAAC
1 TATATAGTTTTC-AAAATGTTTTTAAAACTATATATTATA--TATTTTCAAAATGATTTAAAAAC
1177918 TATAT-A-A
63 TATATAATA
*
1177925 TATATA-TTTTCAAAAATGTTTTTAAAACTATATATTATATTTATTTTCAAAA-CATTTTAAAAA
1 TATATAGTTTTC-AAAATGTTTTTAAAACTATATATTATA--TATTTTCAAAATGA-TTTAAAAA
1177988 CTATATAATA
62 CTATATAATA
* *
1177998 TATAAATGTTTTCAAACATGTTTTCAAAACTATATATTATATAT
1 TATATA-GTTTTCAAA-ATGTTTTTAAAACTATATATTATATAT
1178042 ATGTTTTAAA
Statistics
Matches: 227, Mismatches: 9, Indels: 35
0.84 0.03 0.13
Matches are distributed among these distances:
64 5 0.02
65 14 0.06
67 23 0.10
68 15 0.07
69 5 0.02
70 10 0.04
71 66 0.29
72 20 0.09
73 38 0.17
74 3 0.01
75 28 0.12
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (71 bp):
TATATAGTTTTCAAAATGTTTTTAAAACTATATATTATATATTTTCAAAATGATTTAAAAACTAT
ATAATA
Found at i:1177820 original size:28 final size:28
Alignment explanation
Indices: 1177787--1177850 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
1177777 CTATATAATA
* *
1177787 TATATATGTTTTTCAAAATGTTTTTAAAAC
1 TATATAT-ATTTTCAAAATG-TTTAAAAAC
1177817 TATATATATTTTCAAAATGTTTAAAAAC
1 TATATATATTTTCAAAATGTTTAAAAAC
1177845 TATATA
1 TATATA
1177851 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 14 0.44
29 11 0.34
30 7 0.22
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (28 bp):
TATATATATTTTCAAAATGTTTAAAAAC
Found at i:1177877 original size:37 final size:37
Alignment explanation
Indices: 1177817--1178076 Score: 311
Period size: 37 Copynumber: 7.1 Consensus size: 37
1177807 TTTTTAAAAC
1177817 TATATATATTTTC-AAAATG-TTTAAAAACTATATAA
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATAA
* *
1177852 TATATATATTTTCAAAAATGTTTTAAAAATTATATAT
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATAA
*
1177889 TATATTTATTTTC-AAAATGTTTTAAAAACTATAT-A
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATAA
* *
1177924 -ATATATATTTTCAAAAATGTTTTTAAAACTATATAT
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATAA
*
1177960 TATATTTATTTTCAAAACA--TTTTAAAAACTATATAA
1 TATATATATTTTCAAAA-ATGTTTTAAAAACTATATAA
* * * *
1177996 TATATAAATGTTTTCAAACATGTTTTCAAAACTATATAT
1 TATAT--ATATTTTCAAAAATGTTTTAAAAACTATATAA
* * *
1178035 TATATATATGTTTTAAAAATGTTTT-TAAACTATATAG
1 TATATATAT-TTTCAAAAATGTTTTAAAAACTATATAA
1178072 TATAT
1 TATAT
1178077 TAAAAAAATG
Statistics
Matches: 193, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
34 11 0.06
35 33 0.17
36 46 0.24
37 60 0.31
38 23 0.12
39 20 0.10
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (37 bp):
TATATATATTTTCAAAAATGTTTTAAAAACTATATAA
Found at i:1186725 original size:22 final size:22
Alignment explanation
Indices: 1186699--1186745 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1186689 AATTGCATAA
1186699 ATATAAACATAAGAA-GGAAATG
1 ATATAAA-ATAAGAATGGAAATG
* *
1186721 ATATAAAATAATAATTGAAATG
1 ATATAAAATAAGAATGGAAATG
1186743 ATA
1 ATA
1186746 GAATGAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.60, C:0.02, G:0.13, T:0.26
Consensus pattern (22 bp):
ATATAAAATAAGAATGGAAATG
Found at i:1186879 original size:18 final size:18
Alignment explanation
Indices: 1186827--1186881 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
1186817 GTGAAGTATG
* *
1186827 AATGGCGTTGTCGTGGCA
1 AATGGTGTTGTCGTGGTA
1186845 AATGGTGTTGTCGTGGTA
1 AATGGTGTTGTCGTGGTA
1186863 AATGGTGTTGTCGTGGTA
1 AATGGTGTTGTCGTGGTA
1186881 A
1 A
1186882 GTGTTGTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.18, C:0.09, G:0.38, T:0.35
Consensus pattern (18 bp):
AATGGTGTTGTCGTGGTA
Found at i:1205798 original size:32 final size:32
Alignment explanation
Indices: 1205730--1205800 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
1205720 ATGTATTCTT
* * ** *
1205730 AATGGAATATTGACTCTGCTATGCGTTATCTA
1 AATGCAATATTGACTATGCTATGCACTATATA
* *
1205762 AATGCAATATTGACTATGTTATGCACTATATG
1 AATGCAATATTGACTATGCTATGCACTATATA
1205794 AATGCAA
1 AATGCAA
1205801 AACTAACTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
AATGCAATATTGACTATGCTATGCACTATATA
Found at i:1212272 original size:31 final size:31
Alignment explanation
Indices: 1212203--1212279 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
1212193 TAATGATCAA
* *
1212203 TGACCAAGTAGTTACAAATCGATAACGTTAG
1 TGACCAATTTGTTACAAATCGATAACGTTAG
1212234 TGACCAATTTGTTACAAATCGATAACGTTAG
1 TGACCAATTTGTTACAAATCGATAACGTTAG
1212265 TGACCAATTTGTTAC
1 TGACCAATTTGTTAC
1212280 TTTTAAAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (31 bp):
TGACCAATTTGTTACAAATCGATAACGTTAG
Found at i:1212675 original size:2 final size:2
Alignment explanation
Indices: 1212668--1212719 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1212658 CATAAAATTA
1212668 AT AT AT AT AT 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 AT
1212710 AT AT AT AT AT
1 AT AT AT AT AT
1212720 GACAATAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1213958 original size:95 final size:95
Alignment explanation
Indices: 1213784--1214007 Score: 272
Period size: 95 Copynumber: 2.4 Consensus size: 95
1213774 GTACCGAACG
* * ** *
1213784 AGGTGGTATCAATACCATGGTTGGGGTATCGATACCGGGTGACATCGAACCTAATTTTGGTATTG
1 AGGTAGTATCAATACCATGGTAGGGGTATCGATACCGGGACACATCGAACCTAAATTTGGTATTG
* * *
1213849 ATACCATATAGGGGTATCGGTACCATAGT-
66 ATACCAGATAGGGGTATCGATACCAAAGTA
* * * *
1213878 AGAGTAGTATTAATACCATGGTAAGGGTATCGATACTGGGACACATCGAATCTAAATTTGGTATT
1 AG-GTAGTATCAATACCATGGTAGGGGTATCGATACCGGGACACATCGAACCTAAATTTGGTATT
**
1213943 GATACTGGA-AGGGGGTATCGATACCAAAGTA
65 GATACCAGATA-GGGGTATCGATACCAAAGTA
* *
1213974 AGGTAGTGTCGATACCATGGTAGGGGTATCGATA
1 AGGTAGTATCAATACCATGGTAGGGGTATCGATA
1214008 TTGAAGGGTC
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
94 3 0.03
95 104 0.95
96 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (95 bp):
AGGTAGTATCAATACCATGGTAGGGGTATCGATACCGGGACACATCGAACCTAAATTTGGTATTG
ATACCAGATAGGGGTATCGATACCAAAGTA
Found at i:1214007 original size:20 final size:21
Alignment explanation
Indices: 1213954--1214007 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
1213944 ATACTGGAAG
1213954 GGGGTATCGATACCAAAGTAA
1 GGGGTATCGATACCAAAGTAA
* * **
1213975 GGTAGTGTCGATACCATGGT-A
1 GG-GGTATCGATACCAAAGTAA
1213996 GGGGTATCGATA
1 GGGGTATCGATA
1214008 TTGAAGGGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 8 0.31
21 5 0.19
22 13 0.50
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (21 bp):
GGGGTATCGATACCAAAGTAA
Found at i:1214586 original size:45 final size:45
Alignment explanation
Indices: 1214448--1214713 Score: 294
Period size: 45 Copynumber: 6.1 Consensus size: 45
1214438 AAAGGATGCC
* * *
1214448 ATAGTTGAAATGTATATGGGTACGTTATCAACAAAAAAG--TA-T
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* * *
1214490 ATAGTTGAAATGTATATGGGTAC-TTATCGATAG-AAAGTATAC-
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
** * *
1214532 -TAGTTGAAATGCATATAAGTGCATTATCAACAGAAAAGTATGCT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* *
1214576 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATACT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* * * * *
1214621 ATAGTTGAAATGTATATGGGTAAATTTTCAACAAAAAAGTATATT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
1214666 ATAGTCGAAATGCATATGGGTGCATTATCAACAGAAAAATATGCT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
1214711 ATA
1 ATA
1214714 TATTAAAGTG
Statistics
Matches: 187, Mismatches: 30, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
40 4 0.02
41 25 0.13
42 33 0.18
43 8 0.04
45 117 0.63
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (45 bp):
ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:1214659 original size:90 final size:88
Alignment explanation
Indices: 1214448--1214713 Score: 326
Period size: 90 Copynumber: 3.0 Consensus size: 88
1214438 AAAGGATGCC
* * *
1214448 ATAGTTGAAATGTATATGGGTACGTTATCAACAAAAAAGTA-TATAGTTGAAATGTATATGGGTA
1 ATAGTTGAAATGTATATGGGTACATTATCAACAAAAAAGTATTATAGTTGAAATGCATATGGGTG
* * *
1214512 C-TTATCGATAG-AAAGTATAC-
66 CATTATCAACAGAAAAATATACT
* ** * *
1214532 -TAGTTGAAATGCATATAAGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGG
1 ATAGTTGAAATGTATATGGGTACATTATCAACAAAAAAGTAT--TATAGTTGAAATGCATATGGG
1214596 TGCATTATCAACAGAAAAATATACT
64 TGCATTATCAACAGAAAAATATACT
* * *
1214621 ATAGTTGAAATGTATATGGGTAAATTTTCAACAAAAAAGTATATTATAGTCGAAATGCATATGGG
1 ATAGTTGAAATGTATATGGGTACATTATCAACAAAAAAG--TATTATAGTTGAAATGCATATGGG
*
1214686 TGCATTATCAACAGAAAAATATGCT
64 TGCATTATCAACAGAAAAATATACT
1214711 ATA
1 ATA
1214714 TATTAAAGTG
Statistics
Matches: 153, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
83 34 0.22
86 22 0.14
87 8 0.05
88 8 0.05
90 78 0.51
92 3 0.02
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (88 bp):
ATAGTTGAAATGTATATGGGTACATTATCAACAAAAAAGTATTATAGTTGAAATGCATATGGGTG
CATTATCAACAGAAAAATATACT
Found at i:1229103 original size:29 final size:31
Alignment explanation
Indices: 1229035--1229100 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 31
1229025 TATTCAAAGT
*
1229035 TTGGCCACCAACCAAGATGAAATTTCCAATAAG
1 TTGGCCACCAACCAAGATGAAATTTCC-A-AAC
1229068 TTGGCCACCAACCAAGATGAAATTTCC-AAC
1 TTGGCCACCAACCAAGATGAAATTTCCAAAC
1229098 TTG
1 TTG
1229101 CCAACTCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 5 0.16
33 27 0.84
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (31 bp):
TTGGCCACCAACCAAGATGAAATTTCCAAAC
Done.