Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 71 of 193
Found at i:22777307 original size:42 final size:42
Alignment explanation
Indices: 22777197--22777391 Score: 218
Period size: 42 Copynumber: 4.6 Consensus size: 42
22777187 TAAAGACTTG
* * *
22777197 ATGTATAAATGGAAGACTCATG--TCGGGATGAACATGAGATT
1 ATGTTTAAA-GGAAGACTTATGACTCGGGATGAGCATGAGATT
* **
22777238 ATGTATAAATGGAAGACTCGTGACTCGGGATGAGCATGAGATT
1 ATGTTTAAA-GGAAGACTTATGACTCGGGATGAGCATGAGATT
* *
22777281 ATGTTTAAAGGAAGACTTGTGTCTCGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTTATGACTCGGGATGAGCATGAGATT
* * * *
22777323 AAGTTTAAAGGAAGACTTATGTCTCGGTA-GAGCATAAGATT
1 ATGTTTAAAGGAAGACTTATGACTCGGGATGAGCATGAGATT
22777364 -TGTTTAAAAAGGAAGACTTATGACTCGG
1 ATGTTT--AAAGGAAGACTTATGACTCGG
22777392 TTGGAGCATA
Statistics
Matches: 139, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
40 4 0.03
41 32 0.23
42 77 0.55
43 26 0.19
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (42 bp):
ATGTTTAAAGGAAGACTTATGACTCGGGATGAGCATGAGATT
Found at i:22784101 original size:17 final size:17
Alignment explanation
Indices: 22784079--22784111 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22784069 ATACATGAGA
22784079 TATGTCGCGACAACGCG
1 TATGTCGCGACAACGCG
22784096 TATGTCGCGACAACGC
1 TATGTCGCGACAACGC
22784112 CTACAGGATG
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:0.24, C:0.30, G:0.27, T:0.18
Consensus pattern (17 bp):
TATGTCGCGACAACGCG
Found at i:22788532 original size:120 final size:120
Alignment explanation
Indices: 22788319--22788561 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
22788309 AAAGGCACGT
*
22788319 TAGTGATAGGGATTAGATCATTGGTGAAGCCCTGACTCAAGTGTGAGAAGTAGCAGATCACCTGC
1 TAGTGATAGGGATTAGATCATGGGTGAAGCCCTGACTCAAGTGTGAGAAGTAGCAGATCACCTGC
22788384 AAACATTGGCCGTTCAAGTTGACGTGTTAAGTCTGAAGTATGAATCAGAGTCAGA
66 AAACATTGGCCGTTCAAGTTGACGTGTTAAGTCTGAAGTATGAATCAGAGTCAGA
*
22788439 TAGTGATAGGGATTAGATCATGGGTGAAGCCCTGACTCAAGTGTGAGAAGTAGCAGATCACCTGT
1 TAGTGATAGGGATTAGATCATGGGTGAAGCCCTGACTCAAGTGTGAGAAGTAGCAGATCACCTGC
*
22788504 AATCATTGGCCGTTCAAGTTGACGTGTTAAGTCTGAAGTATGAATCAGAGTCAGA
66 AAACATTGGCCGTTCAAGTTGACGTGTTAAGTCTGAAGTATGAATCAGAGTCAGA
22788559 TAG
1 TAG
22788562 GGGTCAAAAG
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (120 bp):
TAGTGATAGGGATTAGATCATGGGTGAAGCCCTGACTCAAGTGTGAGAAGTAGCAGATCACCTGC
AAACATTGGCCGTTCAAGTTGACGTGTTAAGTCTGAAGTATGAATCAGAGTCAGA
Found at i:22795586 original size:25 final size:25
Alignment explanation
Indices: 22795540--22795707 Score: 171
Period size: 25 Copynumber: 6.7 Consensus size: 25
22795530 ACAAAGTTTA
22795540 GCTCTTACGAGCCTAGAT-AGAATATC
1 GCTCTTACGAGCC-AG-TCAGAATATC
* * *
22795566 GCTCTTATGAGCTAGTCAGAACATC
1 GCTCTTACGAGCCAGTCAGAATATC
* * *
22795591 GCTCTTACGAGCTAGACAAAATATC
1 GCTCTTACGAGCCAGTCAGAATATC
**
22795616 GCTCTTACGAGCCA-AAAGGAATATC
1 GCTCTTACGAGCCAGTCA-GAATATC
* *
22795641 ACTCTTACGAGCCAGACAGAATATC
1 GCTCTTACGAGCCAGTCAGAATATC
*
22795666 GCTCTTACGAGCCAGAT-AGAATGTC
1 GCTCTTACGAGCCAG-TCAGAATATC
*
22795691 GCTCTTATGAGCCAGTC
1 GCTCTTACGAGCCAGTC
22795708 TTCAGTAAAT
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
24 4 0.03
25 104 0.86
26 13 0.11
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (25 bp):
GCTCTTACGAGCCAGTCAGAATATC
Found at i:22795667 original size:75 final size:75
Alignment explanation
Indices: 22795514--22795705 Score: 215
Period size: 75 Copynumber: 2.5 Consensus size: 75
22795504 CAGAAATTTA
* * * * * * * *
22795514 GCTCATACGAGCCCAGACAAAGTTTAGCTCTTACGAGCCTAGATAGAATATCGCTCTTATGAGCT
1 GCTCTTACGAG-CCAGACAAAATATCGCTCTTACGAGCC-AGAAAGAATATCACTCTTACGAGCC
*
22795579 AGTCAGAACATC
64 AGACAGAACATC
*
22795591 GCTCTTACGAGCTAGACAAAATATCGCTCTTACGAGCCA-AAAGGAATATCACTCTTACGAGCCA
1 GCTCTTACGAGCCAGACAAAATATCGCTCTTACGAGCCAGAAA-GAATATCACTCTTACGAGCCA
*
22795655 GACAGAATATC
65 GACAGAACATC
* * * *
22795666 GCTCTTACGAGCCAGATAGAATGTCGCTCTTATGAGCCAG
1 GCTCTTACGAGCCAGACAAAATATCGCTCTTACGAGCCAG
22795706 TCTTCAGTAA
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
74 2 0.02
75 62 0.64
76 23 0.24
77 10 0.10
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (75 bp):
GCTCTTACGAGCCAGACAAAATATCGCTCTTACGAGCCAGAAAGAATATCACTCTTACGAGCCAG
ACAGAACATC
Found at i:22795696 original size:50 final size:50
Alignment explanation
Indices: 22795540--22795705 Score: 201
Period size: 50 Copynumber: 3.3 Consensus size: 50
22795530 ACAAAGTTTA
* * * *
22795540 GCTCTTACGAGCCTAGATAGAATATCGCTCTTATGAGCTAG-TCAGAACATC
1 GCTCTTACGAGCC-AGACAGAATATCGCTCTTACGAGCCAGAT-AGAATATC
* * *
22795591 GCTCTTACGAGCTAGACAAAATATCGCTCTTACGAGCCA-AAAGGAATATC
1 GCTCTTACGAGCCAGACAGAATATCGCTCTTACGAGCCAGATA-GAATATC
* *
22795641 ACTCTTACGAGCCAGACAGAATATCGCTCTTACGAGCCAGATAGAATGTC
1 GCTCTTACGAGCCAGACAGAATATCGCTCTTACGAGCCAGATAGAATATC
*
22795691 GCTCTTATGAGCCAG
1 GCTCTTACGAGCCAG
22795706 TCTTCAGTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
49 1 0.01
50 83 0.85
51 14 0.14
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (50 bp):
GCTCTTACGAGCCAGACAGAATATCGCTCTTACGAGCCAGATAGAATATC
Found at i:22806149 original size:15 final size:14
Alignment explanation
Indices: 22806111--22806150 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
22806101 ATACAACATT
22806111 TATTATATTTTATA
1 TATTATATTTTATA
22806125 TATATATATTTTATCA
1 TAT-TATATTTTAT-A
*
22806141 TATTTTATTT
1 TATTATATTT
22806151 CTTTCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 3 0.13
15 16 0.70
16 4 0.17
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTATATTTTATA
Found at i:22806779 original size:17 final size:18
Alignment explanation
Indices: 22806759--22806798 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
22806749 GCAAATGCGT
22806759 TGACAAATAA-AATG-CAA
1 TGACAAATAATAATGTC-A
22806776 TGAC-AATAATAATGTCA
1 TGACAAATAATAATGTCA
22806793 TGACAA
1 TGACAA
22806799 CTACATGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 5 0.25
17 13 0.65
18 2 0.10
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (18 bp):
TGACAAATAATAATGTCA
Found at i:22816553 original size:35 final size:35
Alignment explanation
Indices: 22816507--22816586 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
22816497 GTAGTTTGCT
* *
22816507 TTCCACTTCTTAGTGTGATATCCTTACACTGCTCC
1 TTCCACTTCTTAGTGTGATAGCCTTACACTACTCC
*
22816542 TTCCACTTCTTAGTGTGATAGCCTTACACTACTTC
1 TTCCACTTCTTAGTGTGATAGCCTTACACTACTCC
*
22816577 TTCCCCTTCT
1 TTCCACTTCT
22816587 GAGTTGGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.16, C:0.33, G:0.10, T:0.41
Consensus pattern (35 bp):
TTCCACTTCTTAGTGTGATAGCCTTACACTACTCC
Found at i:22832102 original size:20 final size:19
Alignment explanation
Indices: 22832050--22832106 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
22832040 TTAAAGAGTA
*
22832050 TTATGGCTGCATCTGATTC
1 TTATGGATGCATCTGATTC
* *
22832069 TGATGTGAATGCATCTGACTTG
1 TTATG-G-ATGCATCTGA-TTC
22832091 TTATGGATGCATCTGA
1 TTATGGATGCATCTGA
22832107 GTGTGTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 4 0.13
20 11 0.35
21 10 0.32
22 6 0.19
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.39
Consensus pattern (19 bp):
TTATGGATGCATCTGATTC
Found at i:22841364 original size:14 final size:14
Alignment explanation
Indices: 22841345--22841373 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22841335 AATTGCGGTC
22841345 AGAAGTTGATCCAA
1 AGAAGTTGATCCAA
22841359 AGAAGTTGATCCAA
1 AGAAGTTGATCCAA
22841373 A
1 A
22841374 ATTGTGGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (14 bp):
AGAAGTTGATCCAA
Found at i:22842881 original size:27 final size:27
Alignment explanation
Indices: 22842851--22842905 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
22842841 TGGAAATAAT
* *
22842851 AATGATCTACCTCCATTGCTGCCACAA
1 AATGATCTACCTCCAGTGCAGCCACAA
* * *
22842878 AATGTTGTTCCTCCAGTGCAGCCACAA
1 AATGATCTACCTCCAGTGCAGCCACAA
22842905 A
1 A
22842906 GAGTTAACTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (27 bp):
AATGATCTACCTCCAGTGCAGCCACAA
Found at i:22850203 original size:21 final size:21
Alignment explanation
Indices: 22850179--22850232 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
22850169 ACGAAGCACG
*
22850179 AGATAAAGGAGCAAAA-GAAGA
1 AGATAAAGAAG-AAAAGGAAGA
22850200 AGATAAAGAAGAAAAGGAAGA
1 AGATAAAGAAGAAAAGGAAGA
* *
22850221 AGAGAAGGAAGA
1 AGATAAAGAAGA
22850233 TGAAGAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.63, C:0.02, G:0.31, T:0.04
Consensus pattern (21 bp):
AGATAAAGAAGAAAAGGAAGA
Found at i:22850672 original size:16 final size:18
Alignment explanation
Indices: 22850646--22850678 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22850636 TAATTGTCAT
22850646 TGCATTTTTA-TTGTTTC
1 TGCATTTTTATTTGTTTC
22850663 TGCA-TTTTATTTGTTT
1 TGCATTTTTATTTGTTT
22850679 TAGCATATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.67
Consensus pattern (18 bp):
TGCATTTTTATTTGTTTC
Found at i:22865256 original size:20 final size:20
Alignment explanation
Indices: 22865211--22865256 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
22865201 TAGGTGCAAT
* *
22865211 GGTTTGCACACGGGCGTGTG
1 GGTTTTCACACGGACGTGTG
**
22865231 TCTTTTCACACGGACGTGTG
1 GGTTTTCACACGGACGTGTG
22865251 GGTTTT
1 GGTTTT
22865257 AGGGGGTTTG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.35, T:0.35
Consensus pattern (20 bp):
GGTTTTCACACGGACGTGTG
Found at i:22867399 original size:26 final size:24
Alignment explanation
Indices: 22867350--22867399 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
22867340 GTTGTAAATC
*
22867350 AAAAAATATCTTTAGAAATTTTCT
1 AAAAAATATCTTCAGAAATTTTCT
*
22867374 AAAATAATCTCTTCAGAGAATTTTCT
1 AAAA-AATATCTTCAGA-AATTTTCT
22867400 CTACATAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (24 bp):
AAAAAATATCTTCAGAAATTTTCT
Found at i:22867587 original size:17 final size:17
Alignment explanation
Indices: 22867565--22867661 Score: 78
Period size: 17 Copynumber: 5.7 Consensus size: 17
22867555 CTACAAGAAA
22867565 AATATTAAATTAAATTT
1 AATATTAAATTAAATTT
*
22867582 AATATTAAGATAATAATTTT
1 AATATTAA-AT--TAAATTT
**
22867602 AATATTAAATT-AATAA
1 AATATTAAATTAAATTT
*
22867618 AATACT--ATTAAGA--T
1 AATATTAAATTAA-ATTT
22867632 AAGTATTAAATTAAATTT
1 AA-TATTAAATTAAATTT
22867650 AATATTAAATTA
1 AATATTAAATTA
22867662 TTAAAATAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 5 0.08
15 4 0.06
16 9 0.14
17 24 0.38
18 5 0.08
19 2 0.03
20 14 0.22
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:22867588 original size:12 final size:12
Alignment explanation
Indices: 22867564--22867666 Score: 60
Period size: 12 Copynumber: 8.8 Consensus size: 12
22867554 TCTACAAGAA
22867564 AAATATTAAATT
1 AAATATTAAATT
22867576 AAAT-TTAATATT
1 AAATATTAA-ATT
* *
22867588 AAGATAATAATTT
1 AA-ATATTAAATT
*
22867601 TAATATTAAATT
1 AAATATTAAATT
22867613 -AATA--AAA-T
1 AAATATTAAATT
*
22867621 -ACTATTAAGA-T
1 AAATATTAA-ATT
*
22867632 AAGTATTAAATT
1 AAATATTAAATT
22867644 AAAT-TTAATATT
1 AAATATTAA-ATT
22867656 AAATTATTAAA
1 AAA-TATTAAA
22867667 ATAATACTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
8 4 0.06
9 3 0.04
10 2 0.03
11 15 0.21
12 34 0.47
13 7 0.10
14 7 0.10
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (12 bp):
AAATATTAAATT
Found at i:22867615 original size:20 final size:19
Alignment explanation
Indices: 22867565--22867617 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
22867555 CTACAAGAAA
22867565 AATATTAAATT-A-AATTT
1 AATATTAAATTAATAATTT
22867582 AATATTAAGA-TAATAATTTT
1 AATATTAA-ATTAATAA-TTT
22867602 AATATTAAATTAATAA
1 AATATTAAATTAATAA
22867618 AATACTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.29
18 2 0.06
19 3 0.10
20 17 0.55
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATTAAATTAATAATTT
Found at i:22868108 original size:9 final size:9
Alignment explanation
Indices: 22868088--22868118 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
22868078 AAAATATCAT
22868088 ATTAATTTTA
1 ATTAA-TTTA
22868098 ATTAATTTA
1 ATTAATTTA
22868107 ATTAATTTA
1 ATTAATTTA
22868116 ATT
1 ATT
22868119 TTATTTGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:22873035 original size:98 final size:97
Alignment explanation
Indices: 22872932--22873227 Score: 459
Period size: 98 Copynumber: 3.0 Consensus size: 97
22872922 ATAATATATA
*
22872932 TATATATATATTCACATAGAAAGTGCAACAATTAAACTTGAGAAGAGATTTATAAATTCATAAAG
1 TATATATAT-TTCACATAGAAAGTGCAACAATTAAACTTGAGAAGGGATTTATAAATTCATAAAG
*
22872997 ATGCAAATAGAGAATTATATAAATTGAACTTTT
65 ATGCAAATAGAGAATTATATAAATTGAACTTCT
* ** *
22873030 TATATATACTTCCACATAGAAAGAACAACAATTAAACTTGAGAAGGGATTTACAAATTCATAAAG
1 TATATATA-TTTCACATAGAAAGTGCAACAATTAAACTTGAGAAGGGATTTATAAATTCATAAAG
22873095 ATGCAAATAGAGAATTATATAAATTGAACTTCT
65 ATGCAAATAGAGAATTATATAAATTGAACTTCT
* * *
22873128 TATATATATTTCCACATAAAAAGTGCAACAATTCAACTCGAGAAGGGATTTATAAATTCATAGAA
1 TATATATATTT-CACATAGAAAGTGCAACAATTAAACTTGAGAAGGGATTTATAAATTCATA-AA
*
22873193 -ATGCAAATAAAGAATTATATAAATTGAACTTCT
64 GATGCAAATAGAGAATTATATAAATTGAACTTCT
22873226 TA
1 TA
22873228 ATAGAAATCA
Statistics
Matches: 181, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
97 2 0.01
98 176 0.97
99 3 0.02
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.31
Consensus pattern (97 bp):
TATATATATTTCACATAGAAAGTGCAACAATTAAACTTGAGAAGGGATTTATAAATTCATAAAGA
TGCAAATAGAGAATTATATAAATTGAACTTCT
Found at i:22873476 original size:3 final size:3
Alignment explanation
Indices: 22873468--22873501 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
22873458 ATTGTGTTGG
22873468 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
22873502 GATGATGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:22881031 original size:19 final size:19
Alignment explanation
Indices: 22880998--22881037 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
22880988 GAAAAGGGTA
*
22880998 TTTTCTTTTCTTTTTCTTT
1 TTTTCTTTTCTTTTTATTT
22881017 TTTTCTTTT-TATTTTATTT
1 TTTTCTTTTCT-TTTTATTT
22881036 TT
1 TT
22881038 CTTGCGGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTCTTTTCTTTTTATTT
Found at i:22881760 original size:31 final size:31
Alignment explanation
Indices: 22881705--22881839 Score: 109
Period size: 31 Copynumber: 4.5 Consensus size: 31
22881695 TCCCAAAAAA
* * *
22881705 TTTAAGTACCAACTTA-AAAAAAGTGTCAAG
1 TTTAGGTACCAAATTAGGAAAAAGTGTCAAG
*
22881735 TTTAGGTTCCAAATTAGGAAAAAGTGTCAAG
1 TTTAGGTACCAAATTAGGAAAAAGTGTCAAG
* **
22881766 TTTTGAGTACCAAATT-GGACAAAA---AAAAG
1 TTTAG-GTACCAAATTAGGA-AAAAGTGTCAAG
* **
22881795 TTTAAGTACCAAATTAAAAAAAAGTGTCAAG
1 TTTAGGTACCAAATTAGGAAAAAGTGTCAAG
* *
22881826 TTCAAGTACCAAAT
1 TTTAGGTACCAAAT
22881840 GTTATATTAA
Statistics
Matches: 83, Mismatches: 15, Indels: 13
0.75 0.14 0.12
Matches are distributed among these distances:
28 14 0.17
29 7 0.08
30 13 0.16
31 36 0.43
32 13 0.16
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.27
Consensus pattern (31 bp):
TTTAGGTACCAAATTAGGAAAAAGTGTCAAG
Found at i:22883001 original size:22 final size:24
Alignment explanation
Indices: 22882961--22883004 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
22882951 TGATAAAGTA
22882961 TTTTGATATAATAAATTAAAATGT
1 TTTTGATATAATAAATTAAAATGT
*
22882985 TTTTGA-AT-ATAAGTTAAAAT
1 TTTTGATATAATAAATTAAAAT
22883005 TGACAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (24 bp):
TTTTGATATAATAAATTAAAATGT
Found at i:22883126 original size:20 final size:20
Alignment explanation
Indices: 22883097--22883152 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
22883087 ATTTTAAAAT
* * *
22883097 CAAGTTAAAATGGTTTTAAA
1 CAAGTCAAAATGATTTCAAA
*
22883117 CAAGTCAAAATGATTTCAAC
1 CAAGTCAAAATGATTTCAAA
*
22883137 CAAGTCAAAATCATTT
1 CAAGTCAAAATGATTT
22883153 TAACACTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (20 bp):
CAAGTCAAAATGATTTCAAA
Found at i:22889760 original size:17 final size:17
Alignment explanation
Indices: 22889739--22889772 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22889729 ACATAAGTAA
*
22889739 AAAAAAAAAATAACAACT
1 AAAAAAAGAA-AACAACT
22889757 AAAAAAAGAAAACAAC
1 AAAAAAAGAAAACAAC
22889773 CATGGGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.79, C:0.12, G:0.03, T:0.06
Consensus pattern (17 bp):
AAAAAAAGAAAACAACT
Found at i:22889819 original size:6 final size:6
Alignment explanation
Indices: 22889798--22889888 Score: 94
Period size: 6 Copynumber: 15.0 Consensus size: 6
22889788 AATGCATAAT
* * *
22889798 AAAATA GAAATAA AAAATA AAAATA AAAA-A GAAAATG AAAATG AAAATA
1 AAAATA AAAAT-A AAAATA AAAATA AAAATA -AAAATA AAAATA AAAATA
* * * *
22889847 AAAATG AAAATG AAAATG AAAATG AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
22889889 CATAAAACTA
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
5 1 0.01
6 70 0.92
7 5 0.07
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:22891970 original size:20 final size:20
Alignment explanation
Indices: 22891943--22891986 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
22891933 ATTAAAATGT
22891943 AAAA-ATTAAATTAAAAACA
1 AAAATATTAAATTAAAAACA
* *
22891962 AAAATATTAAATTACAAATA
1 AAAATATTAAATTAAAAACA
22891982 AAAAT
1 AAAAT
22891987 GGCTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATATTAAATTAAAAACA
Found at i:22893079 original size:31 final size:31
Alignment explanation
Indices: 22893044--22893102 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
22893034 GGCCTGGCAC
* *
22893044 ATGGCCTTATGCCCAGCCCGTGTGGCTCTTA
1 ATGGCCGTATGCCCAACCCGTGTGGCTCTTA
* *
22893075 ATGGCCGTGTGTCCAACCCGTGTGGCTC
1 ATGGCCGTATGCCCAACCCGTGTGGCTC
22893103 CTAAAATCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.12, C:0.32, G:0.29, T:0.27
Consensus pattern (31 bp):
ATGGCCGTATGCCCAACCCGTGTGGCTCTTA
Found at i:22896610 original size:37 final size:37
Alignment explanation
Indices: 22896569--22896643 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 37
22896559 CTTTATTTTG
22896569 ATTGAAC-TCAATTGCTTTATTGGTATTTATAGATACA
1 ATTGAACTTCAA-TGCTTTATTGGTATTTATAGATACA
* *
22896606 ATTGAACTTGAATGCTTTATTGGTATTTTTAGATACA
1 ATTGAACTTCAATGCTTTATTGGTATTTATAGATACA
22896643 A
1 A
22896644 GCTATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 32 0.91
38 3 0.09
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (37 bp):
ATTGAACTTCAATGCTTTATTGGTATTTATAGATACA
Found at i:22897150 original size:20 final size:20
Alignment explanation
Indices: 22897111--22897205 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 20
22897101 TTTTGAAACA
*
22897111 ATTTTAAAATCAAGTTAAAATG
1 ATTTT-AAA-CAAGTCAAAATG
22897133 ATTTTAAACAAGTCAAAATG
1 ATTTTAAACAAGTCAAAATG
* * * *
22897153 ATTTCAACCAAGTCAAAGTC
1 ATTTTAAACAAGTCAAAATG
**
22897173 ATTTT-AACACTTCAAAAT-
1 ATTTTAAACAAGTCAAAATG
22897191 ATTTTTCAAACAAGT
1 A-TTTT-AAACAAGT
22897206 AATAATAGCT
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
18 1 0.02
19 13 0.22
20 31 0.53
21 8 0.14
22 5 0.09
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (20 bp):
ATTTTAAACAAGTCAAAATG
Found at i:22897286 original size:18 final size:18
Alignment explanation
Indices: 22897251--22897292 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
22897241 TTTGGCCAAG
*
22897251 TATCGATAACTCTTGAAA
1 TATCGATAACCCTTGAAA
22897269 TATCGAT-ACCCTTAGAAA
1 TATCGATAACCCTT-GAAA
*
22897287 AATCGA
1 TATCGA
22897293 GACCAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (18 bp):
TATCGATAACCCTTGAAA
Found at i:22912533 original size:26 final size:24
Alignment explanation
Indices: 22912503--22912566 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
22912493 TCAAGTCTTC
*
22912503 CAGAATTTGACTCAAACGAGTCCAGA
1 CAGAATTCG-CTCAAACGAG-CCAGA
* *
22912529 GAGAATATCGCTCATACGAGCCAGA
1 CAGAAT-TCGCTCAAACGAGCCAGA
22912554 CAGAATTACGCTC
1 CAGAATT-CGCTC
22912567 TTATGAGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 1 0.03
25 15 0.47
26 14 0.44
27 2 0.06
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (24 bp):
CAGAATTCGCTCAAACGAGCCAGA
Found at i:22912558 original size:25 final size:25
Alignment explanation
Indices: 22912513--22912578 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
22912503 CAGAATTTGA
* *
22912513 CTCAAACGAGTCCAGAGAGAA-TATCG
1 CTCATACGAG-CCAGACAGAATTA-CG
22912539 CTCATACGAGCCAGACAGAATTACG
1 CTCATACGAGCCAGACAGAATTACG
* *
22912564 CTCTTATGAGCCAGA
1 CTCATACGAGCCAGA
22912579 ATTAGAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.69
26 11 0.31
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (25 bp):
CTCATACGAGCCAGACAGAATTACG
Found at i:22918976 original size:15 final size:15
Alignment explanation
Indices: 22918956--22918988 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
22918946 AGTCTTATAC
22918956 AAGTTAAATGAA-AAT
1 AAGTTAAAT-AACAAT
22918971 AAGTTAAATAACAAT
1 AAGTTAAATAACAAT
22918986 AAG
1 AAG
22918989 CACATACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (15 bp):
AAGTTAAATAACAAT
Found at i:22922072 original size:22 final size:22
Alignment explanation
Indices: 22922030--22922072 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
22922020 TAAAGTGAGC
*
22922030 CATGCAAATTAATTTAATTAAG
1 CATGCAAATTAATTCAATTAAG
*
22922052 CATG-AAATTATATTCATTTAA
1 CATGCAAATTA-ATTCAATTAA
22922073 TGGACATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (22 bp):
CATGCAAATTAATTCAATTAAG
Found at i:22929427 original size:53 final size:53
Alignment explanation
Indices: 22929347--22929549 Score: 256
Period size: 53 Copynumber: 3.9 Consensus size: 53
22929337 AATAAAAAAG
* *
22929347 TCCTTTATGGATTATG-GGATCTGATGACTATGTGTCATCGTGAGTATATGAAA
1 TCCTTTACGGATTATGAGG-TCCGATGACTATGTGTCATCGTGAGTATATGAAA
* *
22929400 TCCTTTACGGATTATGGGGTCCGATGACTACGTGTCATCGTGAGTATATGAAA
1 TCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAAA
* *
22929453 TCCTTTACGGATTATGAGGTCCGATGACTATATGTCATCGTGAG-ATTATG-AT
1 TCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTA-TATGAAA
* * *
22929505 TCCTTTATAGG-TTAAGAGGTCTGATGAC--TGTGTCATCGTGAGTAT
1 TCCTTTA-CGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTAT
22929550 TAAATGAAAA
Statistics
Matches: 135, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
50 14 0.10
51 1 0.01
52 24 0.18
53 94 0.70
54 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (53 bp):
TCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAAA
Found at i:22934085 original size:25 final size:25
Alignment explanation
Indices: 22934037--22934086 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
22934027 TTTAACATAG
*
22934037 TGGCATGCTTAACATGTGAATCAAA
1 TGGCATGCTTAACATGTCAATCAAA
22934062 TGGCATGCTTAACATG-CAAGTCAAA
1 TGGCATGCTTAACATGTCAA-TCAAA
22934087 ATCAGGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (25 bp):
TGGCATGCTTAACATGTCAATCAAA
Found at i:22939300 original size:19 final size:18
Alignment explanation
Indices: 22939265--22939302 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22939255 TGGTTTTCTT
*
22939265 AAAATGGAAATAGAAATG
1 AAAATGAAAATAGAAATG
22939283 AAAATGAAAATGAGAAATG
1 AAAATGAAAAT-AGAAATG
22939302 A
1 A
22939303 TTCATTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (18 bp):
AAAATGAAAATAGAAATG
Found at i:22941784 original size:3 final size:3
Alignment explanation
Indices: 22941778--22941828 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
22941768 ATAACTTTGT
* *
22941778 TAA TAA TAT TAA TAA TAA TAA TTAA T-A TTA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA T-AA TAA TAA TAA
*
22941824 AAA TA
1 TAA TA
22941829 GAAAGTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.80
4 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:22941816 original size:22 final size:22
Alignment explanation
Indices: 22941777--22941821 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
22941767 AATAACTTTG
22941777 TTAATAATATTAATAATAATAA
1 TTAATAATATTAATAATAATAA
*
22941799 TTAATATTA-TAATAAATAATAA
1 TTAATAATATTAAT-AATAATAA
22941821 T
1 T
22941822 AAAAATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATAATATTAATAATAATAA
Found at i:22942199 original size:34 final size:34
Alignment explanation
Indices: 22942156--22942236 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
22942146 CGTGAGGGGA
* *
22942156 AGAAGGGTGTGTGCTGCAAATAGACGACGGCCAG
1 AGAAGGGTGTGTGCTGCAAACAGAAGACGGCCAG
*
22942190 AGAAGGGTGTGTGCTGCAAACAGAAGACGGCCGG
1 AGAAGGGTGTGTGCTGCAAACAGAAGACGGCCAG
*
22942224 AGGAGGGTGTGTG
1 AGAAGGGTGTGTG
22942237 GTGATGGGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.43, T:0.15
Consensus pattern (34 bp):
AGAAGGGTGTGTGCTGCAAACAGAAGACGGCCAG
Found at i:22942997 original size:29 final size:28
Alignment explanation
Indices: 22942964--22943275 Score: 153
Period size: 29 Copynumber: 10.7 Consensus size: 28
22942954 GGACTGTTCA
*
22942964 AAAATTACCATTTTACCCTCGAACTTT-CC
1 AAAATTACCATTTTACCC-C-AAATTTACC
*
22942993 AAAATT-CCATTTTTAACCCC-GATTTAACC
1 AAAATTACCA-TTTT-ACCCCAAATTT-ACC
22943022 AAAAAATTACCATTTTACCCCTAAAGTTT-CC
1 --AAAATTACCATTTTACCCC-AAA-TTTACC
*
22943053 AAAATT-CCATTTTTAACCCC-GATTTCACC
1 AAAATTACCA-TTTT-ACCCCAAATTT-ACC
* * * *
22943082 AAAA-AACCGTTTTACCCCAAACTTCCC
1 AAAATTACCATTTTACCCCAAATTTACC
* * * *
22943109 AAAA-TCCCATTTTTAACCTCGATTTTACC
1 AAAATTACCA-TTTT-ACCCCAAATTTACC
* *
22943138 AAAAATTACCATTTTATCCCTAAACCTT-CC
1 -AAAATTACCATTTTA-CCCCAAA-TTTACC
* * *
22943168 AAAATT-TCATTTTTAACCCTAATTTCACC
1 AAAATTACCA-TTTTACCCCAAATTT-ACC
* *
22943197 AAAAATTACCATTTTACCCCTAAACTTCCC
1 -AAAATTACCATTTTACCCC-AAATTTACC
22943227 AAAATT-CCATTTTTAACCCC-AATTTCACC
1 AAAATTACCA-TTTT-ACCCCAAATTT-ACC
22943256 AAAAATTACCATTTTACCCC
1 -AAAATTACCATTTTACCCC
22943276 CAAACTCCTT
Statistics
Matches: 215, Mismatches: 35, Indels: 66
0.68 0.11 0.21
Matches are distributed among these distances:
27 21 0.10
28 31 0.14
29 71 0.33
30 58 0.27
31 27 0.13
32 4 0.02
33 3 0.01
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCAAATTTACC
Found at i:22943025 original size:59 final size:58
Alignment explanation
Indices: 22942962--22943387 Score: 522
Period size: 59 Copynumber: 7.3 Consensus size: 58
22942952 CTGGACTGTT
* *
22942962 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTAAC
1 CAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
*
22943021 CAAAAAATTACCATTTTACCCCTAAAGTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 C-AAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * * * *
22943081 CAAAAA--ACCGTTTTACCCCAAACTTCCCAAAATCCCATTTTTAACCTCGATTTTAC
1 CAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * * **
22943137 CAAAAATTACCATTTTATCCCTAAACCTTCCAAAATTTCATTTTTAACCCTAATTTCAC
1 CAAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* *
22943196 CAAAAATTACCATTTTACCCCTAAACTTCCCAAAATTCCATTTTTAACCCCAATTTCAC
1 CAAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
22943255 CAAAAATTACCATTTTACCCCCAAAC--TCCTTAAAATCCCATTTTTAACCCCAATTTCAT
1 CAAAAATTACCATTTTA-CCCCAAACTTTCC--AAAATTCCATTTTTAACCCCGATTTCAC
* * * *
22943314 AAAAAATTACCATTTTACCCCTGAA-TTTCCTAAAATCCCATTTTCAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCC-AAACTTTCC-AAAATTCCATTTTTAACCCCGATTTCAC
22943373 CAAAAATTA-CATTTT
1 CAAAAATTACCATTTT
22943388 TTACCCCCGA
Statistics
Matches: 322, Mismatches: 33, Indels: 25
0.85 0.09 0.07
Matches are distributed among these distances:
56 38 0.12
57 14 0.04
58 21 0.07
59 188 0.58
60 61 0.19
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:22943170 original size:30 final size:28
Alignment explanation
Indices: 22943136--22943363 Score: 106
Period size: 29 Copynumber: 7.8 Consensus size: 28
22943126 CTCGATTTTA
*
22943136 CCAAAAATTACCATTTTATCCCTAAACCTT
1 CCAAAAATT-CCATTTTAACCCTAAA-CTT
* *
22943166 CC-AAAATTTCATTTTTAACCCT-AATTT
1 CCAAAAATTCCA-TTTTAACCCTAAACTT
*
22943193 CACCAAAAATTACCATTTTACCCCTAAACTT
1 --CCAAAAATT-CCATTTTAACCCTAAACTT
* * *
22943224 CCCAAAATTCCATTTTTAACCC-CAATTT
1 CCAAAAATTCCA-TTTTAACCCTAAACTT
* *
22943252 CACCAAAAATTACCATTTTACCCCCAAAC-T
1 --CCAAAAATT-CCATTTTAACCCTAAACTT
* * * *
22943282 CCTTAAAATCCCATTTTTAACCC-CAATTT
1 CC-AAAAATTCCA-TTTTAACCCTAAACTT
* * * *
22943311 CATAAAAAATTACCATTTTACCCCTGAATTT
1 C--CAAAAATT-CCATTTTAACCCTAAACTT
* *
22943342 CCTAAAATCCCATTTTCAACCC
1 CCAAAAATTCCATTTT-AACCC
22943364 CGATTTCACC
Statistics
Matches: 151, Mismatches: 28, Indels: 39
0.69 0.13 0.18
Matches are distributed among these distances:
27 2 0.01
28 25 0.17
29 57 0.38
30 47 0.31
31 20 0.13
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (28 bp):
CCAAAAATTCCATTTTAACCCTAAACTT
Found at i:22943348 original size:29 final size:29
Alignment explanation
Indices: 22942962--22943421 Score: 159
Period size: 30 Copynumber: 15.7 Consensus size: 29
22942952 CTGGACTGTT
22942962 CAAAAATTACCATTTTA-CCCTCGAACTTTC
1 CAAAAATTACCATTTTACCCCT-GAA-TTTC
22942992 C-AAAATT-CCATTTTTAACCCC-G-ATTTAAC
1 CAAAAATTACCA-TTTT-ACCCCTGAATTT--C
*
22943021 CAAAAAATTACCATTTTACCCCTAAAGTTTC
1 C-AAAAATTACCATTTTACCCCTGAA-TTTC
22943052 C-AAAATT-CCATTTTTAACCCC-G-ATTTCAC
1 CAAAAATTACCA-TTTT-ACCCCTGAATTT--C
* * *
22943081 CAAAAA--ACCGTTTTACCCC-AAACTTC
1 CAAAAATTACCATTTTACCCCTGAATTTC
* * * *
22943107 CCAAAA-TCCCATTTTTA-ACCTCGATTTTAC
1 CAAAAATTACCA-TTTTACCCCT-GAATTT-C
* * *
22943137 CAAAAATTACCATTTTATCCCTAAACCTTC
1 CAAAAATTACCATTTTACCCCTGAA-TTTC
* *
22943167 C-AAAATT-TCATTTTTAACCCT-AATTTCAC
1 CAAAAATTACCA-TTTTACCCCTGAATTT--C
* *
22943196 CAAAAATTACCATTTTACCCCTAAACTTC
1 CAAAAATTACCATTTTACCCCTGAATTTC
*
22943225 CCAAAATT-CCATTTTTAACCCC--AATTTCAC
1 CAAAAATTACCA-TTTT-ACCCCTGAATTT--C
* **
22943255 CAAAAATTACCATTTTACCCC-CAAACTC
1 CAAAAATTACCATTTTACCCCTGAATTTC
* *
22943283 CTTAAAA-TCCCATTTTTAACCCC--AATTTC
1 C-AAAAATTACCA-TTTT-ACCCCTGAATTTC
*
22943312 ATAAAAAATTACCATTTTACCCCTGAATTTC
1 --CAAAAATTACCATTTTACCCCTGAATTTC
* *
22943343 CTAAAA-TCCCATTTTCAACCCC-G-ATTTCAC
1 CAAAAATTACCATTTT--ACCCCTGAATTT--C
* **
22943373 CAAAAATTA-CATTTTTTACCCCCGAAAGT-
1 CAAAAATTACCA--TTTTACCCCTGAATTTC
*
22943402 CAAAAATTACCATTTCACCC
1 CAAAAATTACCATTTTACCC
22943422 TCGGGCATCC
Statistics
Matches: 330, Mismatches: 44, Indels: 114
0.68 0.09 0.23
Matches are distributed among these distances:
26 6 0.02
27 17 0.05
28 56 0.17
29 95 0.29
30 98 0.30
31 45 0.14
32 10 0.03
33 3 0.01
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCCTGAATTTC
Found at i:22943379 original size:30 final size:29
Alignment explanation
Indices: 22942993--22943387 Score: 171
Period size: 30 Copynumber: 13.4 Consensus size: 29
22942983 CGAACTTTCC
* * *
22942993 AAAATTCCATTTTTAACCCCGATTTAACCAA
1 AAAATACCA-TTTTAACCCCAATTTCACC-A
22943024 AAAATTACCATTTT-ACCCCTAAAGTTT--CC-
1 AAAA-TACCATTTTAACCCC--AA-TTTCACCA
* *
22943053 AAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATACCA-TTTTAACCCCAATTTCACCA
* *
22943083 AAAA-ACCGTTTT-ACCCCAAACTTC-CC-
1 AAAATACCATTTTAACCCC-AATTTCACCA
* * * *
22943109 AAAATCCCATTTTTAACCTCGATTTTACCA
1 AAAATACCA-TTTTAACCCCAATTTCACCA
* * *
22943139 AAAATTACCATTTTATCCCTAAACCTT--CC-
1 AAAA-TACCATTTTAACCC-CAA-TTTCACCA
** *
22943168 AAAATTTCATTTTTAACCCTAATTTCACCA
1 AAAATACCA-TTTTAACCCCAATTTCACCA
*
22943198 AAAATTACCATTTT-ACCCCTAAACTTC-CC-
1 AAAA-TACCATTTTAACCCC--AATTTCACCA
*
22943227 AAAATTCCATTTTTAACCCCAATTTCACCA
1 AAAATACCA-TTTTAACCCCAATTTCACCA
* ** **
22943257 AAAATTACCATTTTACCCCCAAACTC-CTT
1 AAAA-TACCATTTTAACCCCAATTTCACCA
* **
22943286 AAAATCCCATTTTTAACCCCAATTTCATAA
1 AAAATACCA-TTTTAACCCCAATTTCACCA
*
22943316 AAAATTACCATTTT-ACCCCTGAATTT--CCT
1 AAAA-TACCATTTTAACCCC--AATTTCACCA
* *
22943345 AAAATCCCATTTTCAACCCCGATTTCACCA
1 AAAATACCATTTT-AACCCCAATTTCACCA
22943375 AAAATTA-CATTTT
1 AAAA-TACCATTTT
22943388 TTACCCCCGA
Statistics
Matches: 272, Mismatches: 52, Indels: 81
0.67 0.13 0.20
Matches are distributed among these distances:
26 4 0.01
27 14 0.05
28 50 0.18
29 73 0.27
30 84 0.31
31 37 0.14
32 7 0.03
33 3 0.01
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAATACCATTTTAACCCCAATTTCACCA
Found at i:22944752 original size:52 final size:54
Alignment explanation
Indices: 22944683--22944835 Score: 202
Period size: 60 Copynumber: 2.7 Consensus size: 54
22944673 TTATTTATTT
* *
22944683 ATTTATTTATCTATATTCAT-AAAATAATAAA-ACAAAATTAATATTATTTTAC
1 ATTTATTTATTTATATTCATAAAAATAATAAATAAAAAATTAATATTATTTTAC
*
22944735 ATTTATTTATTTATATTCATACAATAATAAATAAATAATAAAAAATTAATATTATTTTAT
1 ATTTATTTATTTATATTCATA-AA-AAT-AAT--A-AATAAAAAATTAATATTATTTTAC
22944795 ATTTATTTATTTATATTCATAAAAATAATAAATAAATAAAT
1 ATTTATTTATTTATATTCATAAAAATAATAAATAAA-AAAT
22944836 AAAAACAATA
Statistics
Matches: 89, Mismatches: 3, Indels: 15
0.83 0.03 0.14
Matches are distributed among these distances:
52 19 0.21
54 8 0.09
55 8 0.09
56 3 0.03
57 3 0.03
58 4 0.04
59 4 0.04
60 40 0.45
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (54 bp):
ATTTATTTATTTATATTCATAAAAATAATAAATAAAAAATTAATATTATTTTAC
Found at i:22944772 original size:60 final size:60
Alignment explanation
Indices: 22944704--22944840 Score: 215
Period size: 60 Copynumber: 2.3 Consensus size: 60
22944694 TATATTCATA
*
22944704 AAAT-AATAAAACAAAATTAATATTATTTTACATTTATTTATTTATATTCAT-ACAATAAT
1 AAATAAATAAAA-AAAATTAATATTATTTTACATTTATTTATTTATATTCATAAAAATAAT
*
22944763 AAATAAATAATAAAAAATTAATATTATTTTATATTTATTTATTTATATTCATAAAAATAAT
1 AAATAAATAA-AAAAAATTAATATTATTTTACATTTATTTATTTATATTCATAAAAATAAT
22944824 AAATAAATAAATAAAAA
1 AAATAAATAAA-AAAAA
22944841 CAATAAGAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
59 4 0.06
60 44 0.61
61 24 0.33
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (60 bp):
AAATAAATAAAAAAAATTAATATTATTTTACATTTATTTATTTATATTCATAAAAATAAT
Found at i:22945394 original size:39 final size:39
Alignment explanation
Indices: 22945351--22945699 Score: 256
Period size: 40 Copynumber: 8.8 Consensus size: 39
22945341 ATAGTTTTAA
* *
22945351 GGGTAAAAGATTGAATTGCTTCAATCTGCCCCACGGTTG
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTG
* * * * *
22945390 GGGTAAGAGATCGAATGGTCTTCAATCTGCCCTC-TGGTTA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGGTTG
* * *
22945430 GGGTACAAGATTGGATTGCTTCAATCTGTCCCATGGTCG
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTG
* * * * * *
22945469 AGGTAAGAGATGGGATGGTCTTCAATCTGCCCTC-TAGTTA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGGTTG
* *
22945509 GGGTAAAAAATTGGATTGCTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTG
* * * * * * *
22945548 AGGTAAGAGATCGGATGGTCTTCAATCTACCTTC-TGGTTA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCC-CCATGGTTG
* *
22945588 GGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCG
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTG
* * * * * * * *
22945627 AGGTAAAAGATCGGATGGTCCTCAATTTGCCTTC-TAGTTA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCC-CCATGGTTG
*
22945667 GGGTAAAAGATTCGGATGGTCTTCAATCTGCCC
1 GGGTAAAAGATT-GGATTG-CTTCAATCTGCCC
22945700 ATTTCAGCTT
Statistics
Matches: 237, Mismatches: 61, Indels: 23
0.74 0.19 0.07
Matches are distributed among these distances:
38 3 0.01
39 104 0.44
40 109 0.46
41 21 0.09
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (39 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTG
Found at i:22945487 original size:79 final size:79
Alignment explanation
Indices: 22945350--22945699 Score: 511
Period size: 79 Copynumber: 4.4 Consensus size: 79
22945340 TATAGTTTTA
* * * * *
22945350 AGGGTAAAAGATTGAATTGCTTCAATCTGCCCCACGGTTGGGGTAAGAGATCGAATGGTCTTCAA
1 AGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGGTCTTCAA
*
22945415 TCTGCCCTCTGGTT
66 TCTGCCCTCTAGTT
* * *
22945429 AGGGTACAAGATTGGATTGCTTCAATCTGTCCCATGGTCGAGGTAAGAGATGGGATGGTCTTCAA
1 AGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGGTCTTCAA
22945494 TCTGCCCTCTAGTT
66 TCTGCCCTCTAGTT
*
22945508 AGGGTAAAAAATTGGATTGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGGTCTTCAA
1 AGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGGTCTTCAA
* * *
22945573 TCTACCTTCTGGTT
66 TCTGCCCTCTAGTT
* * *
22945587 AGGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCGAGGTAAAAGATCGGATGGTCCTCAA
1 AGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGGTCTTCAA
* *
22945652 TTTGCCTTCTAGTT
66 TCTGCCCTCTAGTT
*
22945666 AGGGTAAAAGATTCGGATGGTCTTCAATCTGCCC
1 AGGGTAAAAGATT-GGATTG-CTTCAATCTGCCC
22945700 ATTTCAGCTT
Statistics
Matches: 244, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
79 227 0.93
80 5 0.02
81 12 0.05
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (79 bp):
AGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGGTCTTCAA
TCTGCCCTCTAGTT
Found at i:22945793 original size:50 final size:50
Alignment explanation
Indices: 22945736--22945863 Score: 168
Period size: 50 Copynumber: 2.6 Consensus size: 50
22945726 GTCCTTGCGA
* * *
22945736 CTTCAATCTGCCCCTCTACAACTTTAGGTGA-ATGAGATTTGCCATTGTGG
1 CTTCAATCTGCCCCTTTACAACTTTAGGT-ATATGAGATTCGCCATCGTGG
*
22945786 CTTCAATCTACCCCTTTACAACTTTAGGTATATGAGATTCGCCATCGTGG
1 CTTCAATCTGCCCCTTTACAACTTTAGGTATATGAGATTCGCCATCGTGG
* ** *
22945836 CTTTAATCTGTTCCTTTACAGCTTTAGG
1 CTTCAATCTGCCCCTTTACAACTTTAGG
22945864 GGTATAGGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.01
50 67 0.99
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (50 bp):
CTTCAATCTGCCCCTTTACAACTTTAGGTATATGAGATTCGCCATCGTGG
Found at i:22946810 original size:37 final size:37
Alignment explanation
Indices: 22946754--22946834 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
22946744 CCCATCTTTT
* *
22946754 TTTTATTTGATCCGCCCTTTACGGGTTTTCAACTCAAC
1 TTTT-TTTGAGCCGCCCTTTACAGGTTTTCAACTCAAC
* **
22946792 TTTTTTTGAGCCGTCCTTTGTAGGTTTTCAACTCAAC
1 TTTTTTTGAGCCGCCCTTTACAGGTTTTCAACTCAAC
22946829 TTTTTT
1 TTTTTT
22946835 CTTTTTTCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
37 34 0.89
38 4 0.11
ACGTcount: A:0.16, C:0.22, G:0.14, T:0.48
Consensus pattern (37 bp):
TTTTTTTGAGCCGCCCTTTACAGGTTTTCAACTCAAC
Found at i:22950693 original size:31 final size:31
Alignment explanation
Indices: 22950647--22950726 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
22950637 CGTCTTTCTC
22950647 AAACTTT-T-AATGCATGAAAATACGATGCA
1 AAACTTTATGAATGCATGAAAATACGATGCA
*
22950676 AAACTTTATGAATGCATGAAAATACGATGCG
1 AAACTTTATGAATGCATGAAAATACGATGCA
* *
22950707 TAATTTTATGAATGCATGAA
1 AAACTTTATGAATGCATGAA
22950727 TGCATATGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 7 0.15
30 1 0.02
31 38 0.83
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.30
Consensus pattern (31 bp):
AAACTTTATGAATGCATGAAAATACGATGCA
Found at i:22952813 original size:11 final size:11
Alignment explanation
Indices: 22952797--22952822 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22952787 TCGACAAAGG
22952797 AATGGAAGGGA
1 AATGGAAGGGA
22952808 AATGGAAGGGA
1 AATGGAAGGGA
22952819 AATG
1 AATG
22952823 CTAGAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.42, T:0.12
Consensus pattern (11 bp):
AATGGAAGGGA
Found at i:22954972 original size:13 final size:13
Alignment explanation
Indices: 22954954--22954981 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22954944 AATACTTCGT
22954954 TTACACATGAAAA
1 TTACACATGAAAA
22954967 TTACACATGAAAA
1 TTACACATGAAAA
22954980 TT
1 TT
22954982 GAGAAACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
TTACACATGAAAA
Found at i:22956886 original size:17 final size:17
Alignment explanation
Indices: 22956845--22956877 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22956835 GAAAATAACA
*
22956845 AATATTTCGGTTAATTG
1 AATAATTCGGTTAATTG
22956862 AATAATTCGGTTAATT
1 AATAATTCGGTTAATT
22956878 ATTTAATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (17 bp):
AATAATTCGGTTAATTG
Found at i:22958266 original size:12 final size:10
Alignment explanation
Indices: 22958223--22958278 Score: 62
Period size: 10 Copynumber: 5.8 Consensus size: 10
22958213 CTCAAATTCT
*
22958223 TCTCTC-AAT
1 TCTCTCAAAC
22958232 TCTCTCAAAC
1 TCTCTCAAAC
*
22958242 TTTCTCAAAC
1 TCTCTCAAAC
22958252 TCTCTCAAAC
1 TCTCTCAAAC
* *
22958262 CCTCT-AAAG
1 TCTCTCAAAC
22958271 TCTCTCAA
1 TCTCTCAA
22958279 CTTTTTCGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
9 13 0.33
10 26 0.67
ACGTcount: A:0.29, C:0.36, G:0.02, T:0.34
Consensus pattern (10 bp):
TCTCTCAAAC
Found at i:22962619 original size:36 final size:36
Alignment explanation
Indices: 22962578--22962663 Score: 145
Period size: 36 Copynumber: 2.4 Consensus size: 36
22962568 CATATAGTAG
* **
22962578 CATGTTTTACATGTGAATCAGATTAACAGAAAATAA
1 CATGTTTAACATGCAAATCAGATTAACAGAAAATAA
22962614 CATGTTTAACATGCAAATCAGATTAACAGAAAATAA
1 CATGTTTAACATGCAAATCAGATTAACAGAAAATAA
22962650 CATGTTTAACATGC
1 CATGTTTAACATGC
22962664 GAACTCGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (36 bp):
CATGTTTAACATGCAAATCAGATTAACAGAAAATAA
Found at i:22962624 original size:19 final size:19
Alignment explanation
Indices: 22962600--22962660 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
22962590 GTGAATCAGA
22962600 TTAACAGAAAATAACATGT
1 TTAACAGAAAATAACATGT
* *
22962619 TTAACATGCAAAT--CA-GA
1 TTAACA-GAAAATAACATGT
22962636 TTAACAGAAAATAACATGT
1 TTAACAGAAAATAACATGT
22962655 TTAACA
1 TTAACA
22962661 TGCGAACTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 4 0.12
19 13 0.38
20 5 0.15
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (19 bp):
TTAACAGAAAATAACATGT
Found at i:22981155 original size:23 final size:23
Alignment explanation
Indices: 22981096--22981158 Score: 90
Period size: 24 Copynumber: 2.7 Consensus size: 23
22981086 TATAAAACCC
*
22981096 TAAACCTTAACCTTAATAAAAAA
1 TAAACCTTAACCCTAATAAAAAA
* *
22981119 TAAAACCCTAACCCTAATAAAATA
1 T-AAACCTTAACCCTAATAAAAAA
22981143 TAAACCTTAACCCTAA
1 TAAACCTTAACCCTAA
22981159 AATACCCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 15 0.43
24 20 0.57
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAACCTTAACCCTAATAAAAAA
Found at i:22982096 original size:23 final size:24
Alignment explanation
Indices: 22982049--22982096 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
22982039 TTTCTTAGAT
*
22982049 TTAGGTTTTCAATTATTTTCTTTC
1 TTAGGTTTTCAATTATTTTCATTC
22982073 TTAGGTTTT-AGATTA-TTTCATTC
1 TTAGGTTTTCA-ATTATTTTCATTC
22982096 T
1 T
22982097 GTTCTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.60
Consensus pattern (24 bp):
TTAGGTTTTCAATTATTTTCATTC
Found at i:22982641 original size:18 final size:19
Alignment explanation
Indices: 22982608--22982644 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22982598 TCATTTACGC
*
22982608 TTTACTTTGTTTTATTTTA
1 TTTACTTTGCTTTATTTTA
22982627 TTTAC-TTGCTTTATTTTA
1 TTTACTTTGCTTTATTTTA
22982645 GTATTTCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTACTTTGCTTTATTTTA
Found at i:22983002 original size:15 final size:15
Alignment explanation
Indices: 22982982--22983034 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
22982972 AAACATCAGT
*
22982982 AATAAATTTATGCAA
1 AATAAATTAATGCAA
* *
22982997 AATAAATAGAAT-CAGT
1 AATAAAT-TAATGCA-A
22983013 AATAAATTAATGCAA
1 AATAAATTAATGCAA
22983028 AATAAAT
1 AATAAAT
22983035 AACATTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (15 bp):
AATAAATTAATGCAA
Found at i:22983012 original size:31 final size:31
Alignment explanation
Indices: 22982976--22983035 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
22982966 TAAGGAAAAC
*
22982976 ATCAGTAATAAATTTATGCAAAATAAATAGA
1 ATCAGTAATAAATTAATGCAAAATAAATAGA
22983007 ATCAGTAATAAATTAATGCAAAATAAATA
1 ATCAGTAATAAATTAATGCAAAATAAATA
22983036 ACATTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.28
Consensus pattern (31 bp):
ATCAGTAATAAATTAATGCAAAATAAATAGA
Found at i:22985398 original size:59 final size:62
Alignment explanation
Indices: 22985328--22985448 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 62
22985318 ATCACTTTAA
**
22985328 TATTAAATTAATTTAATACTTA-T-CAAGATAAATAT-TAGATTAAAATTAATA-TAAAATAT
1 TATTAAATTAATAGAATACTTACTACAAGATAAATATCTA-ATTAAAATTAATATTAAAATAT
* * *
22985387 TATTAAATTAATAGAATATTTATCTACAAGATAAATATCTAATTATATTTAATATTAAAATA
1 TATTAAATTAATAGAATACTTA-CTACAAGATAAATATCTAATTAAAATTAATATTAAAATA
22985449 ATCACTTTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
59 19 0.37
61 1 0.02
62 23 0.44
63 9 0.17
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.41
Consensus pattern (62 bp):
TATTAAATTAATAGAATACTTACTACAAGATAAATATCTAATTAAAATTAATATTAAAATAT
Found at i:22991376 original size:209 final size:207
Alignment explanation
Indices: 22991010--22991520 Score: 772
Period size: 209 Copynumber: 2.5 Consensus size: 207
22991000 CAAACTTTGC
* * * * **
22991010 TTCATTGATTTGGTCTACTTTTCTATATCTCATAAGGAAGATGATTGCCTCATTGTTTTAATCCA
1 TTCATCGATTTGGTCAACTTTTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCA
* * ** * *
22991075 CTTCTCTGCATCTCATTAGGAAGACAGATTTGGTTCATTTCTCTGCATCTCGTCAGGAAGATTAT
66 CTTCTCTGTATCTCATCAGGAAGATGGATTTGGTTCACTTCTCTGCATCTCGTCAGGAAGATTAC
* *
22991140 CATTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGGAAGATAGGGGTTTGAAGTTTCATTC
131 CACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGGAAGAT--GGGTTTGAAGTTTCACTC
*
22991205 ACATTGAGCTTCAT
194 ACATTGAGCTTCAG
*
22991219 TTCATCGATTTGGTCAACTTCTT-TGTATCTCATCAGGAAGATGACCGCCTCGTTGTTTTAATCC
1 TTCATCGATTTGGTCAACTT-TTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCC
* *
22991283 ACTTCTCAGTATCTCATCAGGAAGATGGATTTGGTTTACTTCTCTGCATCTCGTCAGGAAGATTA
65 ACTTCTCTGTATCTCATCAGGAAGATGGATTTGGTTCACTTCTCTGCATCTCGTCAGGAAGATTA
* *
22991348 CCACTTTATTGCTTCGACCCTCTTCTCTGTTTCTCATCAGGAAGATGGGTTTGAAGTTTCACTCA
130 CCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGGAAGATGGGTTTGAAGTTTCACTCA
*
22991413 CATTGAGCTTCGG
195 CATTGAGCTTCAG
* *
22991426 TTCATCGATTTGGTCAATTTTTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATTCA
1 TTCATCGATTTGGTCAACTTTTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCA
*
22991491 CTTCTCTGTATCTCATCAAGAAGATGGATT
66 CTTCTCTGTATCTCATCAGGAAGATGGATT
22991521 CGGATCTTCC
Statistics
Matches: 274, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
206 2 0.01
207 116 0.42
209 154 0.56
210 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (207 bp):
TTCATCGATTTGGTCAACTTTTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTTAATCCA
CTTCTCTGTATCTCATCAGGAAGATGGATTTGGTTCACTTCTCTGCATCTCGTCAGGAAGATTAC
CACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGGAAGATGGGTTTGAAGTTTCACTCAC
ATTGAGCTTCAG
Found at i:22991645 original size:41 final size:41
Alignment explanation
Indices: 22991524--22991905 Score: 381
Period size: 41 Copynumber: 9.1 Consensus size: 41
22991514 ATGGATTCGG
* * * *
22991524 ATCTTCCCCTCTTGATTAGGGGTAAATGATCAGAATAGTCTTCA
1 ATCTTCCCCTCTTGATTAAGGGTAAAAGAT-TGGA-A-TCTTCA
* * * * *
22991568 ATCTGCCCCTCTTGATTTAGAGGTAAAAAAGTGGAATCTTTA
1 ATCTTCCCCTCTTGATTAAG-GGTAAAAGATTGGAATCTTCA
* *
22991610 ATCTTCCCTTCTTGATTAAGGGTAAAAGACTGGAATCTTCA
1 ATCTTCCCCTCTTGATTAAGGGTAAAAGATTGGAATCTTCA
* * * *
22991651 ATCTGCTCGTCTTGATTAAGGGTAAAAGATTGGAATGGTCTTTA
1 ATCTTCCCCTCTTGATTAAGGGTAAAAGATTGGAA---TCTTCA
* * *
22991695 ATCTGCCCCTCCTGACTTAGGGGTAAAAGATTGGAATCTTCA
1 ATCTTCCCCTCTTGA-TTAAGGGTAAAAGATTGGAATCTTCA
* * * *
22991737 ATCTGT-CCTTCTTGCTTAAGGGTAAAAGACTAGAATCTTCA
1 ATCT-TCCCCTCTTGATTAAGGGTAAAAGATTGGAATCTTCA
* * *
22991778 ATCTGT-CCTTCTTGATTAAGGGTAAAAGATTAGAATCTTTA
1 ATCT-TCCCCTCTTGATTAAGGGTAAAAGATTGGAATCTTCA
* * *
22991819 ATCTGCCCCTCTTGATTAGGGGTAAAATATTGGAATCTTCA
1 ATCTTCCCCTCTTGATTAAGGGTAAAAGATTGGAATCTTCA
* * *
22991860 ATCTGCCTCTCTTGATTAGGGGTAAAAGATTGGAATCTTCA
1 ATCTTCCCCTCTTGATTAAGGGTAAAAGATTGGAATCTTCA
22991901 ATCTT
1 ATCTT
22991906 TCTAAGGTAC
Statistics
Matches: 287, Mismatches: 44, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
41 187 0.65
42 37 0.13
43 1 0.00
44 36 0.13
45 26 0.09
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (41 bp):
ATCTTCCCCTCTTGATTAAGGGTAAAAGATTGGAATCTTCA
Found at i:22991759 original size:127 final size:125
Alignment explanation
Indices: 22991533--22991904 Score: 502
Period size: 127 Copynumber: 3.0 Consensus size: 125
22991523 GATCTTCCCC
* * * * *
22991533 TCTTGATTAGGGGTAAATGATCAGAATAGTCTTCAATCTGCCCCTCTTGATTTAGAGGTAAAAAA
1 TCTTGATTAAGGGTAAAAGATTAGAAT-GTCTTTAATCTGCCCCTCTTGA-TTAGGGGTAAAAAA
* *
22991598 GTGGAATCTTTAATCT-TCCCTTCTTGATTAAGGGTAAAAGACTGGAATCTTCAATCTG-CTCG
64 TTGGAATCTTCAATCTGT-CCTTCTTGATTAAGGGTAAAAGACTGGAATCTTCAATCTGTC-CG
* * *
22991660 TCTTGATTAAGGGTAAAAGATTGGAATGGTCTTTAATCTGCCCCTCCTGACTTAGGGGTAAAAGA
1 TCTTGATTAAGGGTAAAAGATTAGAAT-GTCTTTAATCTGCCCCTCTTGA-TTAGGGGTAAAAAA
* * *
22991725 TTGGAATCTTCAATCTGTCCTTCTTGCTTAAGGGTAAAAGACTAGAATCTTCAATCTGTCCT
64 TTGGAATCTTCAATCTGTCCTTCTTGATTAAGGGTAAAAGACTGGAATCTTCAATCTGTCCG
*
22991787 TCTTGATTAAGGGTAAAAGATTAGAA--TCTTTAATCTGCCCCTCTTGATTAGGGGTAAAATATT
1 TCTTGATTAAGGGTAAAAGATTAGAATGTCTTTAATCTGCCCCTCTTGATTAGGGGTAAAAAATT
* *
22991850 GGAATCTTCAATCTG-CCTCTCTTGATTAGGGGTAAAAGATTGGAATCTTCAATCT
66 GGAATCTTCAATCTGTCCT-TCTTGATTAAGGGTAAAAGACTGGAATCTTCAATCT
22991905 TTCTAAGGTA
Statistics
Matches: 220, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
122 3 0.01
123 62 0.28
124 20 0.09
127 133 0.60
128 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (125 bp):
TCTTGATTAAGGGTAAAAGATTAGAATGTCTTTAATCTGCCCCTCTTGATTAGGGGTAAAAAATT
GGAATCTTCAATCTGTCCTTCTTGATTAAGGGTAAAAGACTGGAATCTTCAATCTGTCCG
Found at i:22992794 original size:19 final size:17
Alignment explanation
Indices: 22992775--22992836 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
22992765 CCTCAACCTC
22992775 TTCTTTTTGTTTC-TTT
1 TTCTTTTTGTTTCTTTT
* * *
22992791 CTCTTTTTCTTTTTGTTT
1 TTCTTTTTGTTTCT-TTT
22992809 TTCCTTTTTGTTTTCTTTT
1 TT-CTTTTTG-TTTCTTTT
22992828 TTCTTTTTG
1 TTCTTTTTG
22992837 GGTGAAATCT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
16 10 0.28
18 11 0.31
19 11 0.31
20 4 0.11
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (17 bp):
TTCTTTTTGTTTCTTTT
Found at i:22992809 original size:12 final size:11
Alignment explanation
Indices: 22992775--22992828 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 11
22992765 CCTCAACCTC
22992775 TTCTTTTTG-T
1 TTCTTTTTGTT
22992785 TTCTTTCTCT-TT
1 TTCTTT-T-TGTT
22992797 TTCTTTTTGTTT
1 TTCTTTTTG-TT
22992809 TTCCTTTTTGTT
1 TT-CTTTTTGTT
22992821 TTCTTTTT
1 TTCTTTTT
22992829 TCTTTTTGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
10 7 0.18
11 8 0.21
12 16 0.42
13 7 0.18
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.80
Consensus pattern (11 bp):
TTCTTTTTGTT
Found at i:22992816 original size:7 final size:6
Alignment explanation
Indices: 22992784--22992835 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
22992774 CTTCTTTTTG
* * *
22992784 TTTCTT TCTCTT TTTCTT TTTGTT TTTCCTT TTT-GT TTTCTTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT-CTT TTTCTT TTTC-TT TTTCTT
22992833 TTT
1 TTT
22992836 GGGTGAAATC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 4 0.11
6 23 0.62
7 10 0.27
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:22993606 original size:10 final size:10
Alignment explanation
Indices: 22993574--22993606 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
22993564 GAGGGTTAAC
22993574 TTTTCT-TTT
1 TTTTCTCTTT
*
22993583 TTTTCTCTCT
1 TTTTCTCTTT
22993593 TTTTCTCTTT
1 TTTTCTCTTT
22993603 TTTT
1 TTTT
22993607 TGAGGTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:22993680 original size:17 final size:16
Alignment explanation
Indices: 22993648--22993691 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
22993638 ATCTCGACCC
22993648 CTTTTTTATTT-T-TTT
1 CTTTTTT-TTTCTGTTT
22993663 CTTTATTTTTTCTGTTT
1 CTTT-TTTTTTCTGTTT
22993680 CTTTTTTTTTCT
1 CTTTTTTTTTCT
22993692 TTTTTTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.27
16 12 0.46
17 7 0.27
ACGTcount: A:0.05, C:0.11, G:0.02, T:0.82
Consensus pattern (16 bp):
CTTTTTTTTTCTGTTT
Found at i:23000343 original size:25 final size:25
Alignment explanation
Indices: 23000306--23000374 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
23000296 ACCCAGACCT
*
23000306 AGCCTTTGCGGCGAATTATCTGTAA
1 AGCCTTTGTGGCGAATTATCTGTAA
*
23000331 AGCCTTTGTGGCGAATTAGCTGTAA
1 AGCCTTTGTGGCGAATTATCTGTAA
*
23000356 AGCCTTTGTGGCGAGTTAT
1 AGCCTTTGTGGCGAATTAT
23000375 TTAGAAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (25 bp):
AGCCTTTGTGGCGAATTATCTGTAA
Found at i:23005063 original size:24 final size:24
Alignment explanation
Indices: 23005005--23005097 Score: 105
Period size: 24 Copynumber: 3.8 Consensus size: 24
23004995 TTCCAGGAAT
* * * *
23005005 TTAGCTCATACAAGCCCAGACAGAA
1 TTAGCTCTTACGAGCCCAGATAG-G
*
23005030 TTAGCTCTTACGAGCCTAGATAGG
1 TTAGCTCTTACGAGCCCAGATAGG
*
23005054 TTAGCCCTTACGAGCCCAGATAGG
1 TTAGCTCTTACGAGCCCAGATAGG
**
23005078 TTAGCTCTTATAAGCCCAGA
1 TTAGCTCTTACGAGCCCAGA
23005098 CAGAGTTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
24 39 0.67
25 19 0.33
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGATAGG
Found at i:23014031 original size:33 final size:34
Alignment explanation
Indices: 23013962--23014031 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
23013952 CATATATATG
*
23013962 TATAATAATTATAAATTTAATAACTATTAAAATA
1 TATAATAATTATAAATTTAATAAATATTAAAATA
23013996 TATAA-AATT-TAAATTTAATGATAATA-TAAAATA
1 TATAATAATTATAAATTTAAT-A-AATATTAAAATA
23014029 TAT
1 TAT
23014032 TATGATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 10 0.30
33 15 0.45
34 8 0.24
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (34 bp):
TATAATAATTATAAATTTAATAAATATTAAAATA
Found at i:23014258 original size:21 final size:22
Alignment explanation
Indices: 23014220--23014262 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23014210 CTTTATATTA
**
23014220 ATTTTTATTTTGGATTGGGTTT
1 ATTTTTATTTAAGATTGGGTTT
23014242 ATTTTTATTTAAG-TTGGGTTT
1 ATTTTTATTTAAGATTGGGTTT
23014263 CGAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.16, C:0.00, G:0.21, T:0.63
Consensus pattern (22 bp):
ATTTTTATTTAAGATTGGGTTT
Found at i:23015064 original size:17 final size:17
Alignment explanation
Indices: 23015033--23015065 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23015023 TATATGTTAG
23015033 ATAAAATAAAGTATAAA
1 ATAAAATAAAGTATAAA
23015050 ATAAATATAAA-TATAA
1 ATAAA-ATAAAGTATAA
23015066 TTTAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
ATAAAATAAAGTATAAA
Found at i:23015094 original size:18 final size:19
Alignment explanation
Indices: 23015059--23015097 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
23015049 AATAAATATA
23015059 AATATAATTTAAATTTAAT
1 AATATAATTTAAATTTAAT
23015078 AATA-AATTGTAAA-TTAAT
1 AATATAATT-TAAATTTAAT
23015096 AA
1 AA
23015098 AAAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
AATATAATTTAAATTTAAT
Found at i:23019612 original size:25 final size:27
Alignment explanation
Indices: 23019578--23019639 Score: 92
Period size: 25 Copynumber: 2.3 Consensus size: 27
23019568 AGAGGGGTTT
*
23019578 TTATTATTATTTAATATTAAT-AT-AA
1 TTATTTTTATTTAATATTAATAATAAA
23019603 TTATTTTTATTTAATATTAATAATAAA
1 TTATTTTTATTTAATATTAATAATAAA
23019630 TTATTATTTA
1 TTATT-TTTA
23019640 ATTTTTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 20 0.61
26 2 0.06
27 7 0.21
28 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TTATTTTTATTTAATATTAATAATAAA
Found at i:23019661 original size:24 final size:23
Alignment explanation
Indices: 23019585--23019662 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
23019575 TTTTTATTAT
* *
23019585 TATTTAATATTAATATAATTATTTT
1 TATTTAATATT-A-ATAATAATTTA
*
23019610 TATTTAATATTAATAATAAATTA
1 TATTTAATATTAATAATAATTTA
* *
23019633 TTATTTAATTTTTATAATACATTTA
1 -TATTTAATATTAATAATA-ATTTA
23019658 TATTT
1 TATTT
23019663 TTTGTAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
23 8 0.18
24 22 0.49
25 15 0.33
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTAATATTAATAATAATTTA
Found at i:23023549 original size:23 final size:23
Alignment explanation
Indices: 23023504--23023549 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
23023494 ACTTTCTTTA
*
23023504 TATATTCTTTAAAAAAATTTAAT
1 TATATTCTTTAAAAAAATATAAT
*
23023527 TATATT-TTTAAAATATATATAAT
1 TATATTCTTTAAAA-AAATATAAT
23023550 ATTGGAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATATTCTTTAAAAAAATATAAT
Found at i:23023609 original size:6 final size:6
Alignment explanation
Indices: 23023598--23023662 Score: 82
Period size: 6 Copynumber: 11.3 Consensus size: 6
23023588 AATTAAATTT
* * *
23023598 ATTTTA ATTTTA AATTT- ATTTTA AATTCA ATTTTA ATTTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
23023645 A-TTTA A-TTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA AT
23023663 ATTATTATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
5 14 0.27
6 37 0.73
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTTA
Found at i:23023609 original size:11 final size:11
Alignment explanation
Indices: 23023590--23023668 Score: 61
Period size: 11 Copynumber: 7.0 Consensus size: 11
23023580 CATTTTGAAA
*
23023590 TTAAATTTATT
1 TTAATTTTATT
*
23023601 TTAATTTTAAAT
1 TTAATTTT-ATT
*
23023613 TT-ATTTTAAAT
1 TTAATTTT-ATT
*
23023624 TCAATTTTAATT
1 TTAATTTT-ATT
*
23023636 TTAATTTTAAT
1 TTAATTTTATT
*
23023647 TTAATTTAATT
1 TTAATTTTATT
*
23023658 TTAATATTATT
1 TTAATTTTATT
23023669 ATAAATTTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
11 37 0.66
12 19 0.34
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (11 bp):
TTAATTTTATT
Found at i:23023610 original size:17 final size:17
Alignment explanation
Indices: 23023590--23023679 Score: 94
Period size: 17 Copynumber: 5.3 Consensus size: 17
23023580 CATTTTGAAA
23023590 TTAAATTTATTTTAATT
1 TTAAATTTATTTTAATT
*
23023607 TTAAATTTATTTTAAAT
1 TTAAATTTATTTTAATT
* *
23023624 TCAATTTTAATTTTAATT
1 TTAAATTT-ATTTTAATT
*
23023642 TT-AATTTAATTTAATT
1 TTAAATTTATTTTAATT
* *
23023658 TT-AATATTATTATAAAT
1 TTAAAT-TTATTTTAATT
23023675 TTAAA
1 TTAAA
23023680 AAGAAAAGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
16 13 0.22
17 36 0.60
18 11 0.18
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAAATTTATTTTAATT
Found at i:23023629 original size:23 final size:23
Alignment explanation
Indices: 23023581--23023662 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
23023571 GACCCAAACC
* * *
23023581 ATTTTGAAA-TTAAATTTATTTTA
1 ATTTT-AAATTTAATTTTAATTCA
23023604 ATTTTAAATTT-ATTTTAAATTCA
1 ATTTTAAATTTAATTTT-AATTCA
* *
23023627 ATTTTAATTTTAATTTTAATTTA
1 ATTTTAAATTTAATTTTAATTCA
*
23023650 A-TTTAATTTTAAT
1 ATTTTAAATTTAAT
23023663 ATTATTATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
22 19 0.37
23 27 0.53
24 5 0.10
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (23 bp):
ATTTTAAATTTAATTTTAATTCA
Found at i:23023630 original size:12 final size:11
Alignment explanation
Indices: 23023581--23023653 Score: 65
Period size: 11 Copynumber: 6.4 Consensus size: 11
23023571 GACCCAAACC
23023581 ATTTTGAAATTA
1 ATTTT-AAATTA
* **
23023593 AATTTATTTTA
1 ATTTTAAATTA
*
23023604 ATTTTAAATTT
1 ATTTTAAATTA
23023615 ATTTTAAATTCA
1 ATTTTAAATT-A
*
23023627 ATTTTAATTTTA
1 ATTTTAA-ATTA
*
23023639 ATTTTAATTTA
1 ATTTTAAATTA
23023650 ATTT
1 ATTT
23023654 AATTTTAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
11 29 0.58
12 19 0.38
13 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:23024376 original size:13 final size:13
Alignment explanation
Indices: 23024346--23024383 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
23024336 TATTAATTGT
*
23024346 ATTATTAATAAT-
1 ATTAATAATAATA
*
23024358 ATTAATGATAATA
1 ATTAATAATAATA
23024371 ATTAATAATAATA
1 ATTAATAATAATA
23024384 TCAAATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:23025705 original size:28 final size:27
Alignment explanation
Indices: 23025657--23025764 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 27
23025647 TTTGAACCCG
23025657 AAACTTCCAAAAAATTACATTTTTCCCT
1 AAACTTCC-AAAAATTACATTTTTCCCT
*
23025685 CGAACTTCCAAAAATTACATTTTTACCCCT
1 -AAACTTCCAAAAATTACATTTTT--CCCT
23025715 AAAACTTCCAAAAATTA-ATTTTGTCCCT
1 -AAACTTCCAAAAATTACATTTT-TCCCT
*
23025743 AAACTTCAAAAAATT-CATTTTT
1 AAACTTCCAAAAATTACATTTTT
23025765 GACCCCGAGA
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
26 1 0.01
27 19 0.27
28 19 0.27
29 12 0.17
30 20 0.28
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (27 bp):
AAACTTCCAAAAATTACATTTTTCCCT
Found at i:23025765 original size:28 final size:30
Alignment explanation
Indices: 23025657--23025765 Score: 113
Period size: 28 Copynumber: 3.8 Consensus size: 30
23025647 TTTGAACCCG
*
23025657 AAACTTCCAAAAAATTACA-TTTT-TCCCTC
1 AAACTT-CAAAAAATTACATTTTTGTCCCTA
* * **
23025686 GAACTTCCAAAAATTACATTTTTACCCCTA
1 AAACTTCAAAAAATTACATTTTTGTCCCTA
*
23025716 AAACTTCCAAAAATTA-A-TTTTGTCCCT-
1 AAACTTCAAAAAATTACATTTTTGTCCCTA
23025743 AAACTTCAAAAAATT-CATTTTTG
1 AAACTTCAAAAAATTACATTTTTG
23025766 ACCCCGAGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
27 15 0.22
28 24 0.35
29 10 0.15
30 19 0.28
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.36
Consensus pattern (30 bp):
AAACTTCAAAAAATTACATTTTTGTCCCTA
Found at i:23025936 original size:145 final size:146
Alignment explanation
Indices: 23025781--23026089 Score: 439
Period size: 147 Copynumber: 2.1 Consensus size: 146
23025771 GAGACTCTTG
* **
23025781 AAATTACCATTTTACCCCTGGATGTCCAAAAA-TC-C-TATTTTTTATCCCGATT-TTTCTAAAA
1 AAATTACCATTTTGCCCCTGGACATCCAAAAAGTCTCAT-TTTTTTATCCCGATTCTTTC-AAAA
* * *
23025842 ATTACCATTTTACCCTCGATTATCTAAAATATTATTTCTAACCCCAAATTTTTCCTAAAATTACC
64 ATTACCATTTTACCCCCGACTATCTAAAATATCATTTCTAACCCCAAA-TTTTCC-AAAATTACC
*
23025907 ATTTTGCCCCCGAAAGTC-C
127 ATTTTGCCCCCGAAAGTCTA
23025926 AAATTACCATTTTGCCCCTGGACATCCAAAAAGTCTCATTTTTTTATCCCGATTCTTTCAAAAAT
1 AAATTACCATTTTGCCCCTGGACATCCAAAAAGTCTCATTTTTTTATCCCGATTCTTTCAAAAAT
* * * *
23025991 TACCGTTTTACCCCCGACTATTTAAAATGTCATTTCTAACCCCAAATTTTCCCAAATTACCATTT
66 TACCATTTTACCCCCGACTATCTAAAATATCATTTCTAACCCCAAATTTTCCAAAATTACCATTT
*
23026056 TGCCCCCGAGAGTCTA
131 TGCCCCCGAAAGTCTA
23026072 AAATTACCATTTTGCCCC
1 AAATTACCATTTTGCCCC
23026090 GAGTATCCAA
Statistics
Matches: 147, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
145 54 0.37
146 26 0.18
147 62 0.42
148 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (146 bp):
AAATTACCATTTTGCCCCTGGACATCCAAAAAGTCTCATTTTTTTATCCCGATTCTTTCAAAAAT
TACCATTTTACCCCCGACTATCTAAAATATCATTTCTAACCCCAAATTTTCCAAAATTACCATTT
TGCCCCCGAAAGTCTA
Found at i:23026101 original size:27 final size:28
Alignment explanation
Indices: 23026044--23026101 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
23026034 AAATTTTCCC
*
23026044 AAATTACCATTTTGCCCCCGAGAGTCTA
1 AAATTACCATTTTGCCCCCGAGAGTCCA
23026072 AAATTACCATTTTG-CCCCGAGTA-TCCA
1 AAATTACCATTTTGCCCCCGAG-AGTCCA
23026099 AAA
1 AAA
23026102 GGTCCTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (28 bp):
AAATTACCATTTTGCCCCCGAGAGTCCA
Found at i:23027001 original size:19 final size:18
Alignment explanation
Indices: 23026966--23027008 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
23026956 GATTTCGACA
23026966 TATAAATTTTGAAATTTT
1 TATAAATTTTGAAATTTT
*
23026984 TATAAATATTTTAAATTTT
1 TATAAAT-TTTGAAATTTT
*
23027003 TTTAAA
1 TATAAA
23027009 ATTATTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TATAAATTTTGAAATTTT
Found at i:23027016 original size:20 final size:22
Alignment explanation
Indices: 23026980--23027025 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
23026970 AATTTTGAAA
23026980 TTTTTATAAATATTTTAAAT-T
1 TTTTTATAAATATTTTAAATCT
23027001 TTTTTA-AAAT-TATTTAAATCT
1 TTTTTATAAATAT-TTTAAATCT
23027022 TTTT
1 TTTT
23027026 GTAATTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.04
20 11 0.48
21 11 0.48
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTATAAATATTTTAAATCT
Found at i:23029078 original size:23 final size:24
Alignment explanation
Indices: 23029039--23029084 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
23029029 CTCTAAAATA
23029039 AGCAGAGTTTACTTGGAA-AAGAT
1 AGCAGAGTTTACTTGGAAGAAGAT
23029062 AGCAGAGTTTAGC-TGGAAGAAGA
1 AGCAGAGTTTA-CTTGGAAGAAGA
23029085 ATATGAGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (24 bp):
AGCAGAGTTTACTTGGAAGAAGAT
Found at i:23030103 original size:23 final size:23
Alignment explanation
Indices: 23030072--23030118 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
23030062 CACCTTCCAT
23030072 AATTACAAATATTATTTAGTTTA
1 AATTACAAATATTATTTAGTTTA
*
23030095 AATTGCAAATATTATTTAGTTTA
1 AATTACAAATATTATTTAGTTTA
23030118 A
1 A
23030119 TTAATGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (23 bp):
AATTACAAATATTATTTAGTTTA
Found at i:23030774 original size:19 final size:20
Alignment explanation
Indices: 23030738--23030775 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
23030728 AATTGGATTA
* *
23030738 TTTTAAGTTTTTATATTTTT
1 TTTTAAGTTTTGAAATTTTT
23030758 TTTTAA-TTTTGAAATTTT
1 TTTTAAGTTTTGAAATTTT
23030776 AATCTTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTAAGTTTTGAAATTTTT
Found at i:23037096 original size:38 final size:36
Alignment explanation
Indices: 23037054--23037130 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 36
23037044 TACAACAAAT
* *
23037054 TTAAAAAATATA-TAATATATCAAATACACTTAAAAACA
1 TTAAAAAATA-ACTAA-ATATAAAATACA-TTAAAAAAA
*
23037092 TTAAAAAATAACTAAATTTAAAATACATTAAAAAAA
1 TTAAAAAATAACTAAATATAAAATACATTAAAAAAA
23037128 TTA
1 TTA
23037131 TATTAAGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 11 0.31
37 11 0.31
38 13 0.37
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (36 bp):
TTAAAAAATAACTAAATATAAAATACATTAAAAAAA
Found at i:23037319 original size:21 final size:21
Alignment explanation
Indices: 23037295--23037344 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
23037285 AAACAACATT
*
23037295 AAAAACAAT-AAAAATAGCAAG
1 AAAAACAATAAAAAATAAC-AG
23037316 AAAAACAATAAAAAATAACAG
1 AAAAACAATAAAAAATAACAG
23037337 AAAAACAA
1 AAAAACAA
23037345 CACGAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.76, C:0.10, G:0.06, T:0.08
Consensus pattern (21 bp):
AAAAACAATAAAAAATAACAG
Found at i:23037428 original size:23 final size:23
Alignment explanation
Indices: 23037369--23037437 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
23037359 CTAAAACAGT
* *
23037369 AAAAA-AGCAA-CAAAACAGCAA
1 AAAAACAGCAACCAAAATAGTAA
*
23037390 AAAAACA--ATACAAAAATAGTAA
1 AAAAACAGCA-ACCAAAATAGTAA
23037412 AAAAACAGCAACCAAAATAGTAA
1 AAAAACAGCAACCAAAATAGTAA
23037435 AAA
1 AAA
23037438 CAGCATCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.03
21 6 0.15
22 16 0.41
23 15 0.38
24 1 0.03
ACGTcount: A:0.71, C:0.14, G:0.07, T:0.07
Consensus pattern (23 bp):
AAAAACAGCAACCAAAATAGTAA
Found at i:23043736 original size:16 final size:16
Alignment explanation
Indices: 23043715--23043747 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23043705 ATAACAAAGG
23043715 GTAGTAATCTGAGACT
1 GTAGTAATCTGAGACT
23043731 GTAGTAATCTGAGACT
1 GTAGTAATCTGAGACT
23043747 G
1 G
23043748 CACTAATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.30
Consensus pattern (16 bp):
GTAGTAATCTGAGACT
Found at i:23043754 original size:16 final size:16
Alignment explanation
Indices: 23043719--23043754 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23043709 CAAAGGGTAG
* *
23043719 TAATCTGAGACTGTAG
1 TAATCTGAGACTGCAC
23043735 TAATCTGAGACTGCAC
1 TAATCTGAGACTGCAC
23043751 TAAT
1 TAAT
23043755 GAGATGTTTG
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:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (16 bp):
TAATCTGAGACTGCAC
Found at i:23045301 original size:76 final size:76
Alignment explanation
Indices: 23045211--23045369 Score: 318
Period size: 76 Copynumber: 2.1 Consensus size: 76
23045201 ACAACCTAAA
23045211 AAATAAGCAGATGGTTGTTAAAAGTCCAAAGAGCCCCCTTAACCACTCTTATCATGTCAGCCTCA
1 AAATAAGCAGATGGTTGTTAAAAGTCCAAAGAGCCCCCTTAACCACTCTTATCATGTCAGCCTCA
23045276 CAATAAAATTG
66 CAATAAAATTG
23045287 AAATAAGCAGATGGTTGTTAAAAGTCCAAAGAGCCCCCTTAACCACTCTTATCATGTCAGCCTCA
1 AAATAAGCAGATGGTTGTTAAAAGTCCAAAGAGCCCCCTTAACCACTCTTATCATGTCAGCCTCA
23045352 CAATAAAATTG
66 CAATAAAATTG
23045363 AAATAAG
1 AAATAAG
23045370 AATCGTTGTT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 83 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (76 bp):
AAATAAGCAGATGGTTGTTAAAAGTCCAAAGAGCCCCCTTAACCACTCTTATCATGTCAGCCTCA
CAATAAAATTG
Found at i:23045684 original size:27 final size:25
Alignment explanation
Indices: 23045655--23045705 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
23045645 GAAAAACCAA
23045655 AAAACCAATGCT-ACAGGAGAGCATAC
1 AAAACC-ATGCTAAC-GGAGAGCATAC
*
23045681 AAAATCATGCTAACGGAGAGCATAC
1 AAAACCATGCTAACGGAGAGCATAC
23045706 TATAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.14
Consensus pattern (25 bp):
AAAACCATGCTAACGGAGAGCATAC
Found at i:23046289 original size:3 final size:3
Alignment explanation
Indices: 23046283--23046325 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
23046273 AAAAAAACCA
*
23046283 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23046326 GTTATTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23046693 original size:15 final size:16
Alignment explanation
Indices: 23046672--23046718 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
23046662 AACAATTAAT
23046672 TTAAAAATATATAAAA
1 TTAAAAATATATAAAA
*
23046688 -TAAAAATATTTAAAA
1 TTAAAAATATATAAAA
*
23046703 TTCAAAAAAATATAAA
1 TT-AAAAATATATAAA
23046719 GAAAAGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 14 0.54
16 1 0.04
17 11 0.42
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAATATATAAAA
Found at i:23049525 original size:72 final size:72
Alignment explanation
Indices: 23049392--23049525 Score: 164
Period size: 72 Copynumber: 1.9 Consensus size: 72
23049382 TACAAATTCA
* * * * * *
23049392 TTTAATAAAATTAGAATTCTTATTTATAAGTATAATAAAACTTTTATTACGTAAATTTATATGAC
1 TTTAATAAAATTAAAATTCTTATTTATAAATATAATAAAACTTTAAATACATAAATATATATGAC
23049457 CAAATAT
66 CAAATAT
* *
23049464 TTTAATAAAATTAAAATTCTTATTTATAAATATGATAAATCTTATAAATA-ATAAGA-ATATAT
1 TTTAATAAAATTAAAATTCTTATTTATAAATATAATAAAACTT-TAAATACATAA-ATATATAT
23049526 TTAAAATGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
72 47 0.90
73 5 0.10
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (72 bp):
TTTAATAAAATTAAAATTCTTATTTATAAATATAATAAAACTTTAAATACATAAATATATATGAC
CAAATAT
Found at i:23063263 original size:12 final size:12
Alignment explanation
Indices: 23063246--23063278 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
23063236 AATAAAAAAA
23063246 TTTATTTTTAAG
1 TTTATTTTTAAG
23063258 TTTATTTTTAAG
1 TTTATTTTTAAG
*
23063270 TCTATTTTT
1 TTTATTTTT
23063279 GGTGAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (12 bp):
TTTATTTTTAAG
Found at i:23092393 original size:21 final size:21
Alignment explanation
Indices: 23092339--23092394 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
23092329 CCACAAAAAC
*
23092339 CAGATGCAGCCACATCAGAAT
1 CAGATGCAGCCACACCAGAAT
* *
23092360 CATATGTAGCCACACCAGAAT
1 CAGATGCAGCCACACCAGAAT
*
23092381 CAGATGCAACCACA
1 CAGATGCAGCCACA
23092395 ACACACTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.39, C:0.30, G:0.16, T:0.14
Consensus pattern (21 bp):
CAGATGCAGCCACACCAGAAT
Found at i:23097697 original size:18 final size:19
Alignment explanation
Indices: 23097657--23097706 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
23097647 GTTAGTAAGT
*
23097657 ATTGTCATTTCA--TTCCA
1 ATTGTCATTGCATTTTCCA
23097674 ATTGTCATTGCATTTTCC-
1 ATTGTCATTGCATTTTCCA
23097692 ATTGTCATTGCATTT
1 ATTGTCATTGCATTT
23097707 GAGTGTTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 11 0.37
18 15 0.50
19 4 0.13
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTGTCATTGCATTTTCCA
Found at i:23099924 original size:19 final size:19
Alignment explanation
Indices: 23099894--23099954 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
23099884 AAATATTTCA
23099894 ACATTT-ATCACATCA-TC
1 ACATTTAATCACATCAGTC
*
23099911 ACATATTAATCACATTTAGTC
1 ACAT-TTAATCACA-TCAGTC
*
23099932 ACATTTAATCACATTAGTC
1 ACATTTAATCACATCAGTC
23099951 ACAT
1 ACAT
23099955 GAATATTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
17 4 0.10
18 2 0.05
19 16 0.41
20 11 0.28
21 6 0.15
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (19 bp):
ACATTTAATCACATCAGTC
Found at i:23099935 original size:10 final size:10
Alignment explanation
Indices: 23099908--23100020 Score: 66
Period size: 10 Copynumber: 10.4 Consensus size: 10
23099898 TTATCACATC
23099908 ATCACATATTA
1 ATCACAT-TTA
23099919 ATCACATTTA
1 ATCACATTTA
*
23099929 GTCACATTTA
1 ATCACATTTA
23099939 ATCACA-TTA
1 ATCACATTTA
* *
23099948 GTCACATGAATA
1 ATCACAT--TTA
*
23099960 TTTCAGCATTTATCA
1 -ATCA-CA-TT-T-A
23099975 CATCACATATTA
1 -ATCACAT-TTA
*
23099987 ATCCCATTTA
1 ATCACATTTA
* *
23099997 GTTACATTTA
1 ATCACATTTA
23100007 ATCACATTTA
1 ATCACATTTA
23100017 ATCA
1 ATCA
23100021 AATGAACATT
Statistics
Matches: 79, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
9 8 0.10
10 39 0.49
11 13 0.16
12 3 0.04
13 5 0.06
14 6 0.08
15 5 0.06
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.38
Consensus pattern (10 bp):
ATCACATTTA
Found at i:23100005 original size:68 final size:71
Alignment explanation
Indices: 23099858--23100036 Score: 247
Period size: 68 Copynumber: 2.5 Consensus size: 71
23099848 TTTAACACAA
* * *
23099858 CACATATTAATCGCATTTAATCACATAAATATTTCAACATTTATCACATCATCACATATTAATCA
1 CACAT-TTAATCACATTTAATCACATGAATATTTCAGCATTTAT-ACATCATCACATATTAATCA
23099923 CATTTAGT
64 CATTTAGT
* *
23099931 CACATTTAATCACA-TTAGTCACATGAATATTTCAGCATTTAT-CA-CATCACATATTAATCCCA
1 CACATTTAATCACATTTAATCACATGAATATTTCAGCATTTATACATCATCACATATTAATCACA
23099993 TTTAGT
66 TTTAGT
* * *
23099999 TACATTTAATCACATTTAATCAAATGAACATTTCAGCA
1 CACATTTAATCACATTTAATCACATGAATATTTCAGCA
23100037 CAAATCACAT
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
68 36 0.38
69 22 0.23
71 25 0.26
72 8 0.08
73 5 0.05
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (71 bp):
CACATTTAATCACATTTAATCACATGAATATTTCAGCATTTATACATCATCACATATTAATCACA
TTTAGT
Found at i:23100080 original size:23 final size:23
Alignment explanation
Indices: 23100016--23100324 Score: 359
Period size: 23 Copynumber: 13.3 Consensus size: 23
23100006 AATCACATTT
* * * *
23100016 AATCAAATGAACATTTCAGCACA
1 AATCACATTAACATTTAAGCATA
*
23100039 AATCACATT-ATATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
*
23100061 AATCATATTAACATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
*
23100084 AATCACATTAATATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
* * *
23100107 AATCATATTAACATTTAAACTTA
1 AATCACATTAACATTTAAGCATA
*
23100130 AATCACATTAATATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
* *
23100153 AATCACATTAATATTTAAGCACA
1 AATCACATTAACATTTAAGCATA
* *
23100176 AATCACATTAATATTTAAGAATA
1 AATCACATTAACATTTAAGCATA
*
23100199 AATCATATTAACATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
*
23100222 AATCATATTAACATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
* *
23100245 AATCACATTAATATTTAAGTATA
1 AATCACATTAACATTTAAGCATA
* * *
23100268 AATCATATTAACATTTAATCTTA
1 AATCACATTAACATTTAAGCATA
* * *
23100291 AATTACATTTAATATTTAACGTATA
1 AATCACA-TTAACATTTAA-GCATA
23100316 TAATCACAT
1 -AATCACAT
23100325 ACAACACACA
Statistics
Matches: 244, Mismatches: 38, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
22 18 0.07
23 207 0.85
24 10 0.04
25 3 0.01
26 6 0.02
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (23 bp):
AATCACATTAACATTTAAGCATA
Found at i:23100363 original size:10 final size:10
Alignment explanation
Indices: 23100341--23100408 Score: 75
Period size: 10 Copynumber: 6.9 Consensus size: 10
23100331 CACATAAGTA
*
23100341 ACATATAATC
1 ACATTTAATC
*
23100351 ACATTTAACC
1 ACATTTAATC
*
23100361 ACATATAATC
1 ACATTTAATC
*
23100371 AGATTTAATC
1 ACATTTAATC
23100381 ACATTT-ATC
1 ACATTTAATC
*
23100390 ACATATAATC
1 ACATTTAATC
*
23100400 ATATTTAAT
1 ACATTTAAT
23100409 AATCACATTA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
9 8 0.17
10 39 0.83
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (10 bp):
ACATTTAATC
Found at i:23100392 original size:29 final size:30
Alignment explanation
Indices: 23100346--23100408 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
23100336 AAGTAACATA
23100346 TAATCACATTTAACCACATATAATCAGATT
1 TAATCACATTTAACCACATATAATCAGATT
* *
23100376 TAATCACATTT-ATCACATATAATCATATT
1 TAATCACATTTAACCACATATAATCAGATT
23100405 TAAT
1 TAAT
23100409 AATCACATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (30 bp):
TAATCACATTTAACCACATATAATCAGATT
Found at i:23100474 original size:10 final size:10
Alignment explanation
Indices: 23100447--23100621 Score: 69
Period size: 10 Copynumber: 16.7 Consensus size: 10
23100437 TATTTATCAC
23100447 ATCACATATTA
1 ATCACAT-TTA
23100458 ATCACATTTA
1 ATCACATTTA
*
23100468 GTCACA-TTA
1 ATCACATTTA
*
23100477 ATCACATTTG
1 ATCACATTTA
*
23100487 ATCACATGAATA
1 ATCACAT--TTA
*
23100499 TTTCAACATTT-
1 -ATC-ACATTTA
23100510 ATCAC----A
1 ATCACATTTA
23100516 A-CACATATTA
1 ATCACAT-TTA
23100526 ATCACATTTA
1 ATCACATTTA
*
23100536 GTCACATTTA
1 ATCACATTTA
23100546 ATCACATGAATGT-
1 ATCACAT---T-TA
*
23100559 TTCAACATTTATCA
1 ATC-ACA-TT-T-A
23100573 CATCACATATTA
1 -ATCACAT-TTA
*
23100585 ATTACATTTA
1 ATCACATTTA
*
23100595 GTCACATTTA
1 ATCACATTTA
*
23100605 ATCATATTTA
1 ATCACATTTA
23100615 ATCACAT
1 ATCACAT
23100622 GAATATTATA
Statistics
Matches: 123, Mismatches: 19, Indels: 45
0.66 0.10 0.24
Matches are distributed among these distances:
5 3 0.02
6 1 0.01
9 10 0.08
10 64 0.52
11 18 0.15
12 5 0.04
13 7 0.06
14 12 0.10
15 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.38
Consensus pattern (10 bp):
ATCACATTTA
Found at i:23100543 original size:59 final size:59
Alignment explanation
Indices: 23100460--23100608 Score: 230
Period size: 59 Copynumber: 2.6 Consensus size: 59
23100450 ACATATTAAT
* * *
23100460 CACAT-TTAGTCACA-TTAATCACATTTGATCACATGAATATTTCAACATTTATCACAA
1 CACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTCAACATTTATCACAA
* *
23100517 CACATATTAATCACATTTAGTCACATTTAATCACATGAATGTTTCAACATTTATCACAT
1 CACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTCAACATTTATCACAA
*
23100576 CACATATTAATTACATTTAGTCACATTTAATCA
1 CACATATTAATCACATTTAGTCACATTTAATCA
23100609 TATTTAATCA
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
57 5 0.06
58 8 0.10
59 71 0.85
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (59 bp):
CACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTCAACATTTATCACAA
Done.