Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 73 of 167
Found at i:23241026 original size:40 final size:40
Alignment explanation
Indices: 23240970--23241295 Score: 456
Period size: 40 Copynumber: 8.2 Consensus size: 40
23240960 GAGAATTGAG
23240970 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
23241010 AGTGATATATCTGGGCTAAGTCTCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
23241050 AGTGATATACCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
23241090 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
23241130 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
23241170 AGTGATATACCCGGGCCAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
23241210 AGAGTTATA-CCAGGGTTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCC-GGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * * * * *
23241250 GGTGTTATATTCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
23241290 GGTGAT
1 AGTGAT
23241296 GTGTATTCGG
Statistics
Matches: 259, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
39 2 0.01
40 256 0.99
41 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:23245116 original size:47 final size:47
Alignment explanation
Indices: 23245065--23245208 Score: 225
Period size: 47 Copynumber: 3.1 Consensus size: 47
23245055 TTAGGATTTT
* * *
23245065 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
23245112 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
23245159 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
23245206 ATG
1 ATG
23245209 CGAAACGTGT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 89 1.00
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:23245271 original size:46 final size:46
Alignment explanation
Indices: 23245182--23245272 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
23245172 GAACATGAAT
* * * *
23245182 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
23245228 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
23245273 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:23245525 original size:37 final size:37
Alignment explanation
Indices: 23245417--23245525 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
23245407 GGAAATATAT
*
23245417 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
23245454 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
23245491 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
23245526 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:23249624 original size:17 final size:17
Alignment explanation
Indices: 23249587--23249630 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
23249577 CTATTGATTT
*
23249587 TTATTTGTTTATTTTTC
1 TTATTTATTTATTTTTC
23249604 TTATTTATTTA-TTTTC
1 TTATTTATTTATTTTTC
23249620 GTTATTTATTT
1 -TTATTTATTT
23249631 TTATCTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (17 bp):
TTATTTATTTATTTTTC
Found at i:23254210 original size:15 final size:15
Alignment explanation
Indices: 23254190--23254221 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
23254180 TGAAGGCTTG
23254190 GTAGATGGTTCATAA
1 GTAGATGGTTCATAA
23254205 GTAGATGGTTCATAA
1 GTAGATGGTTCATAA
23254220 GT
1 GT
23254222 TTTGTCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.34
Consensus pattern (15 bp):
GTAGATGGTTCATAA
Found at i:23261975 original size:21 final size:23
Alignment explanation
Indices: 23261935--23261976 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23261925 TCTTACTTTC
23261935 TCATCACATATCGAAATCCTATG
1 TCATCACATATCGAAATCCTATG
*
23261958 TCATGACATAT-G-AATCCTA
1 TCATCACATATCGAAATCCTA
23261977 GCTATTCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (23 bp):
TCATCACATATCGAAATCCTATG
Found at i:23266499 original size:9 final size:9
Alignment explanation
Indices: 23266487--23266543 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
23266477 TTTGATAAAC
23266487 ATGATATGT
1 ATGATATGT
*
23266496 ATGATATGCAC
1 ATGATATG--T
*
23266507 ATGACATGT
1 ATGATATGT
*
23266516 ATGATATGCAC
1 ATGATATG--T
23266527 ATGATATGT
1 ATGATATGT
23266536 ATGATATG
1 ATGATATG
23266544 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:23266510 original size:20 final size:20
Alignment explanation
Indices: 23266485--23266547 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
23266475 ATTTTGATAA
23266485 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23266505 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
23266525 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
23266545 ACA
1 ACA
23266548 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:23266740 original size:25 final size:24
Alignment explanation
Indices: 23266601--23266744 Score: 195
Period size: 24 Copynumber: 6.0 Consensus size: 24
23266591 CAGGAAGTGC
*
23266601 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
23266625 AAAACGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
23266649 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23266673 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23266696 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
23266721 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23266745 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
23 29 0.26
24 51 0.46
25 21 0.19
26 9 0.08
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:23266973 original size:31 final size:31
Alignment explanation
Indices: 23266938--23267001 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
23266928 CGTTTACAGT
23266938 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
23266969 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
23267000 AA
1 AA
23267002 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:23274706 original size:65 final size:65
Alignment explanation
Indices: 23274601--23274730 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
23274591 GCCCAACAGT
23274601 AGTGTTATGAAAAATGAAATATGAAAAGGGCTACGACCCAGTACATGTTGAGATTGGATTTGGGC
1 AGTGTTATGAAAAATGAAATATGAAAAGGGCTACGACCCAGTACATGTTGAGATTGGATTTGGGC
* *
23274666 AGTGTTATGAAAATTGAAATATGAAAAGGGCTACGGCCCAGTACATGTTGAGATTGGATTTGGGC
1 AGTGTTATGAAAAATGAAATATGAAAAGGGCTACGACCCAGTACATGTTGAGATTGGATTTGGGC
23274731 TTAGGCCCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (65 bp):
AGTGTTATGAAAAATGAAATATGAAAAGGGCTACGACCCAGTACATGTTGAGATTGGATTTGGGC
Found at i:23279845 original size:37 final size:37
Alignment explanation
Indices: 23279800--23279921 Score: 101
Period size: 37 Copynumber: 3.2 Consensus size: 37
23279790 CAATTTAATT
23279800 CATTCAATCTTCTATACTTAAGTTCTCTTTTATATCA
1 CATTCAATCTTCTATACTTAAGTTCTCTTTTATATCA
* * ** *
23279837 CATTCAATCATGTTCGT-T-TTGTAACATTAC-AATTTA-AT-T
1 CATTCAATC---TTC-TATACT-TAA-GTT-CTCTTTTATATCA
23279876 CATTCAATCTTCTATACTTAAGTTCTCTTTTATATCA
1 CATTCAATCTTCTATACTTAAGTTCTCTTTTATATCA
23279913 CATTCAATC
1 CATTCAATC
23279922 ATGTTCGTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 24
0.65 0.10 0.25
Matches are distributed among these distances:
34 1 0.02
35 7 0.11
36 9 0.14
37 19 0.30
39 10 0.16
40 9 0.14
41 7 0.11
42 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (37 bp):
CATTCAATCTTCTATACTTAAGTTCTCTTTTATATCA
Found at i:23279863 original size:76 final size:76
Alignment explanation
Indices: 23279736--23279966 Score: 435
Period size: 76 Copynumber: 3.0 Consensus size: 76
23279726 TATAAACACA
* * *
23279736 TATACTTAAGTTCTTTTTTATATCACATTCAATCATGTTCATTTTGCAACATTACAATTTAATTC
1 TATACTTAAGTTCTCTTTTATATCACATTCAATCATGTTCGTTTTGTAACATTACAATTTAATTC
23279801 ATTCAATCTTC
66 ATTCAATCTTC
23279812 TATACTTAAGTTCTCTTTTATATCACATTCAATCATGTTCGTTTTGTAACATTACAATTTAATTC
1 TATACTTAAGTTCTCTTTTATATCACATTCAATCATGTTCGTTTTGTAACATTACAATTTAATTC
23279877 ATTCAATCTTC
66 ATTCAATCTTC
23279888 TATACTTAAGTTCTCTTTTATATCACATTCAATCATGTTCGTTTTGTAACATTACAATTTAATTC
1 TATACTTAAGTTCTCTTTTATATCACATTCAATCATGTTCGTTTTGTAACATTACAATTTAATTC
23279953 ATTCAATCTTC
66 ATTCAATCTTC
23279964 TAT
1 TAT
23279967 TCACACTCAA
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 152 1.00
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.48
Consensus pattern (76 bp):
TATACTTAAGTTCTCTTTTATATCACATTCAATCATGTTCGTTTTGTAACATTACAATTTAATTC
ATTCAATCTTC
Found at i:23294784 original size:6 final size:6
Alignment explanation
Indices: 23294754--23294872 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
23294744 AAGAAACATT
* * *
23294754 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
23294803 ATCAGA ATCAGA ATTAG- GTGACAAA ATTAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
23294854 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
23294873 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 5 0.06
6 68 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:23294808 original size:25 final size:25
Alignment explanation
Indices: 23294775--23294844 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
23294765 AATCAAAATG
23294775 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
23294800 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
23294825 AAAATTAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
23294845 TATCAGGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:23294812 original size:31 final size:30
Alignment explanation
Indices: 23294775--23294872 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 30
23294765 AATCAAAATG
23294775 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
* *
23294806 AGAATCAGAAT----T-AGGTGACAAAATT
1 AGAATCAGAATCAGATCAGGTGACAGAATC
*
23294831 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
23294862 AAAATCAGAAT
1 AGAATCAGAAT
23294873 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 22 0.40
26 1 0.02
30 1 0.02
31 31 0.56
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGATCAGGTGACAGAATC
Found at i:23294859 original size:25 final size:25
Alignment explanation
Indices: 23294775--23294872 Score: 97
Period size: 25 Copynumber: 3.7 Consensus size: 25
23294765 AATCAAAATG
*
23294775 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
23294800 AGAATCAGAATCAGAATTAGGTGACAAAATT
1 AGAATCAGAATCAGAATCAGGT-----AA-C
*
23294831 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
23294856 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
23294873 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
25 36 0.61
26 2 0.03
30 1 0.02
31 20 0.34
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:23295328 original size:256 final size:256
Alignment explanation
Indices: 23294873--23295387 Score: 1021
Period size: 256 Copynumber: 2.0 Consensus size: 256
23294863 AAATCAGAAT
23294873 GTGAATGCAATCCTAACCCAATCCAGCCGTATACACCCCCGTACCAACCTTACACCATATGGGGA
1 GTGAATGCAATCCTAACCCAATCCAGCCGTATACACCCCCGTACCAACCTTACACCATATGGGGA
23294938 GACTACTCGACCCACCCAACCGCTACACACCACAGAAATTGCAGCGAGGCTGCCAGATATTGTGA
66 GACTACTCGACCCACCCAACCGCTACACACCACAGAAATTGCAGCGAGGCTGCCAGATATTGTGA
23295003 CGAAGTCACCAGATACAGATATTATGGCTAGGCCACCAGAAGAGATATATATATGTGGCGAAGCC
131 CGAAGTCACCAGATACAGATATTATGGCTAGGCCACCAGAAGAGATATATATATGTGGCGAAGCC
*
23295068 ACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGC
196 ACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACAAGAACAGATATATGTGGC
23295129 GTGAATGCAATCCTAACCCAATCCAGCCGTATACACCCCCGTACCAACCTTACACCATATGGGGA
1 GTGAATGCAATCCTAACCCAATCCAGCCGTATACACCCCCGTACCAACCTTACACCATATGGGGA
23295194 GACTACTCGACCCACCCAACCGCTACACACCACAGAAATTGCAGCGAGGCTGCCAGATATTGTGA
66 GACTACTCGACCCACCCAACCGCTACACACCACAGAAATTGCAGCGAGGCTGCCAGATATTGTGA
23295259 CGAAGTCACCAGATACAGATATTATGGCTAGGCCACCAGAAGAGATATATATATGTGGCGAAGCC
131 CGAAGTCACCAGATACAGATATTATGGCTAGGCCACCAGAAGAGATATATATATGTGGCGAAGCC
23295324 ACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACAAGAACAGATATATGTGGC
196 ACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACAAGAACAGATATATGTGGC
23295385 GTG
1 GTG
23295388 GCCACCAGAT
Statistics
Matches: 258, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 258 1.00
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.18
Consensus pattern (256 bp):
GTGAATGCAATCCTAACCCAATCCAGCCGTATACACCCCCGTACCAACCTTACACCATATGGGGA
GACTACTCGACCCACCCAACCGCTACACACCACAGAAATTGCAGCGAGGCTGCCAGATATTGTGA
CGAAGTCACCAGATACAGATATTATGGCTAGGCCACCAGAAGAGATATATATATGTGGCGAAGCC
ACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACAAGAACAGATATATGTGGC
Found at i:23295945 original size:27 final size:27
Alignment explanation
Indices: 23295631--23295934 Score: 367
Period size: 27 Copynumber: 11.2 Consensus size: 27
23295621 TTAACACCCT
* * *
23295631 AGGGATAAAATGGTAATTTTATAAATTG
1 AGGG-TAAAATGGTAATTCTGTAAATCG
* *
23295659 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
** *
23295686 AGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTAAAATGGTAATTCTGTAAATCG
* * * *
23295713 AGGGTAAAATAGTAATTTTATAAATTG
1 AGGGTAAAATGGTAATTCTGTAAATCG
**
23295740 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
* * *
23295767 AGGGTAAAACGATAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
*
23295794 AGGGTAAAATAGG-AATTCTATAAATCG
1 AGGGTAAAAT-GGTAATTCTGTAAATCG
* *
23295821 AGGGTAAAATGGTAATTTTGTAAATTG
1 AGGGTAAAATGGTAATTCTGTAAATCG
* **
23295848 AAGGTAAAAAAGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
*
23295875 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
23295902 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCG
23295929 AGGGTA
1 AGGGTA
23295935 CTTTGGTAAT
Statistics
Matches: 241, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 234 0.97
28 5 0.02
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTCTGTAAATCG
Found at i:23295945 original size:81 final size:81
Alignment explanation
Indices: 23295631--23295934 Score: 430
Period size: 81 Copynumber: 3.7 Consensus size: 81
23295621 TTAACACCCT
* * * *
23295631 AGGGATAAAATGGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
1 AGGG-TAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
*
23295696 AGTAATTCTGTAAATCA
65 AGTAATTCTGTAAATCG
* * *
23295713 AGGGTAAAATAGTAATTTTATAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC-
1 AGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACA
*
23295777 GATAATTTTGTAAATCG
66 G-TAATTCTGTAAATCG
* * * * * *
23295794 AGGGTAAAATAGGAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATTGAAGGTAAAAAA
1 AGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACA
23295859 GTAATTCTGTAAATCG
66 GTAATTCTGTAAATCG
* *
23295875 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
1 AGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
23295935 CTTTGGTAAT
Statistics
Matches: 200, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.00
81 194 0.97
82 5 0.03
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (81 bp):
AGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACA
GTAATTCTGTAAATCG
Found at i:23296017 original size:27 final size:26
Alignment explanation
Indices: 23295911--23296026 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 26
23295901 GAGGGTAAAA
* *
23295911 TGGTAATTCTGTA-AATCGAGGGTACTT
1 TGGTAATT-T-TACAATCAAGGGTATTT
23295938 TGGTAATTTTACAAGTCAAGGGTATTT
1 TGGTAATTTTACAA-TCAAGGGTATTT
** * *
23295965 CAGTAATTTTACAGGTCGAGGGTATTT
1 TGGTAATTTTACA-ATCAAGGGTATTT
* *
23295992 TGGTAATTTTACAAACTAGGGATATTT
1 TGGTAATTTTACAATCAAGGG-TATTT
23296019 TGGTAATT
1 TGGTAATT
23296027 CTATCCTACA
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
25 2 0.03
26 8 0.11
27 64 0.86
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (26 bp):
TGGTAATTTTACAATCAAGGGTATTT
Found at i:23296045 original size:27 final size:27
Alignment explanation
Indices: 23296015--23296088 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
23296005 AACTAGGGAT
* * *
23296015 ATTTTGGTAATTCTATCCTACATGGGC
1 ATTTTAGTAATTCTACCCTACAAGGGC
*
23296042 ATTTTAGTAATTCTACCCTACAAGGGT
1 ATTTTAGTAATTCTACCCTACAAGGGC
* * *
23296069 ATTTCAGTAATGCTAGCCTA
1 ATTTTAGTAATTCTACCCTA
23296089 TAGATATGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (27 bp):
ATTTTAGTAATTCTACCCTACAAGGGC
Found at i:23297994 original size:25 final size:25
Alignment explanation
Indices: 23297961--23298027 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
23297951 AACCAAAATG
* *
23297961 AGAAGCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
23297986 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
23298011 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
23298028 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.16
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:23298251 original size:67 final size:67
Alignment explanation
Indices: 23298130--23298264 Score: 227
Period size: 67 Copynumber: 2.0 Consensus size: 67
23298120 CACCACAGAA
* *
23298130 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGGTATATGTGGCGAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGAGAGGCCACC
23298195 AG
66 AG
*
23298197 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGATAGGCCAC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGAGAGGCCAC
23298261 CAG
65 CAG
23298264 A
1 A
23298265 ACAGATATAT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 57 0.89
68 7 0.11
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGAGAGGCCACC
AG
Found at i:23298314 original size:98 final size:98
Alignment explanation
Indices: 23298176--23298362 Score: 313
Period size: 98 Copynumber: 1.9 Consensus size: 98
23298166 CCAGAACAGG
*
23298176 TATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATAC
1 TATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-AC
*
23298241 AGATAT-TGTGGATAGGCCACCAGAACAGATATA
65 AGATATATGTGGAGAGGCCACCAGAACAGATATA
*
23298274 TATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTTCCAGATATTGTGACGAAGTCACCAGAACA
1 TATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACA
* *
23298339 GGTATATGTGGCGAGGCCACCAGA
66 GATATATGTGGAGAGGCCACCAGA
23298363 TTGCAGCGAG
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
97 7 0.08
98 76 0.92
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.20
Consensus pattern (98 bp):
TATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACA
GATATATGTGGAGAGGCCACCAGAACAGATATA
Found at i:23298368 original size:67 final size:67
Alignment explanation
Indices: 23298274--23298448 Score: 332
Period size: 67 Copynumber: 2.6 Consensus size: 67
23298264 AACAGATATA
* *
23298274 TATATGTGGCGAAGCCACCAGATTGCAGCGAGGCTTCCAGATATTGTGACGAAGTCACCAGAACA
1 TATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACA
23298339 GG
66 GG
23298341 TATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACA
1 TATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACA
23298406 GG
66 GG
23298408 TATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
1 TATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
23298449 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 106 1.00
ACGTcount: A:0.28, C:0.23, G:0.31, T:0.18
Consensus pattern (67 bp):
TATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACA
GG
Found at i:23298402 original size:165 final size:165
Alignment explanation
Indices: 23298130--23298429 Score: 548
Period size: 165 Copynumber: 1.8 Consensus size: 165
23298120 CACCACAGAA
23298130 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGGTATATGTGGCGAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGGTATATGTGGCGAGGCCACC
*
23298195 AGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGATAGGCC
66 AGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGAGAGGCC
23298259 ACCAGAACAGATATATATATGTGGCGAAGCCACCAG
130 ACCAGAACAGATATATATATGTGGCGAAGCCACCAG
*
23298295 ATTGCAGCGAGGCTTCCAGATATTGTGACGAAGTCACCAGAACAGGTATATGTGGCGAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGGTATATGTGGCGAGGCCACC
* *
23298360 AGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGGTATATGTGGCGAGGCCA
66 AGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGAGAGGCCA
23298425 CCAGA
131 CCAGA
23298430 TTGCAGCGAG
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
164 7 0.05
165 123 0.95
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (165 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGGTATATGTGGCGAGGCCACC
AGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGAGAGGCCA
CCAGAACAGATATATATATGTGGCGAAGCCACCAG
Found at i:23298696 original size:27 final size:27
Alignment explanation
Indices: 23298666--23299075 Score: 523
Period size: 27 Copynumber: 15.2 Consensus size: 27
23298656 AACACCCTAG
*
23298666 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23298693 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23298720 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23298747 GGGTAAAATAGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23298774 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23298801 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23298828 GGGTAAAATAGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* * * *
23298855 GGGTAAAACGATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23298882 GGGTAAAATAGAAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23298909 GGGTAAAATGGTAATTTTTTAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23298936 GGGTAAAATAGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* * *
23298963 GGGTAAAATGGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23298990 GGCTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
* * *
23299017 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTCTATAAATCGA
* *
23299044 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTATAAATCGA
23299071 GGGTA
1 GGGTA
23299076 CTTTGGTAAT
Statistics
Matches: 332, Mismatches: 51, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 332 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTCTATAAATCGA
Found at i:23299086 original size:81 final size:81
Alignment explanation
Indices: 23298666--23299075 Score: 633
Period size: 81 Copynumber: 5.1 Consensus size: 81
23298656 AACACCCTAG
*
23298666 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAG
23298731 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
23298747 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAG
23298812 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* *
23298828 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATAG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAG
* *
23298893 AAATTCTATAAATCGA
66 TAATTCTGTAAATCGA
* * * * *
23298909 GGGTAAAATGGTAATTTTTTAAATCGAGGGTAAAA-TAGTAATTCTATAAATTGAGGGTAAAATG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAATA
* *
23298973 GTAATTTTGTAAATTGA
65 GTAATTCTGTAAATCGA
* * * * * **
23298990 GGCTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAG
23299055 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
23299071 GGGTA
1 GGGTA
23299076 CTTTGGTAAT
Statistics
Matches: 298, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
80 1 0.00
81 297 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (81 bp):
GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAG
TAATTCTGTAAATCGA
Found at i:23299097 original size:27 final size:27
Alignment explanation
Indices: 23299064--23299221 Score: 142
Period size: 27 Copynumber: 5.9 Consensus size: 27
23299054 GTAATTCTGT
23299064 AAATCGAGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCGGTAATTTTAC
* * * *
23299091 AAGTCGAAGGTATTTCAGTAATTTTAT
1 AAATCGAGGGTATTTCGGTAATTTTAC
** ** *
23299118 AGGTCGAGGGTATTTCAATAATTTCAC
1 AAATCGAGGGTATTTCGGTAATTTTAC
23299145 AAATC-AGAGGTATTTCGGTAATTTTAC
1 AAATCGAG-GGTATTTCGGTAATTTTAC
* *
23299172 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATCGA-GGGTATTTCGGTAATTTTAC
* * *
23299199 AAACCAAGGGTATTTTGGTAATT
1 AAATCGAGGGTATTTCGGTAATT
23299222 CTACCCTACA
Statistics
Matches: 110, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 6 0.05
27 101 0.92
28 3 0.03
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
AAATCGAGGGTATTTCGGTAATTTTAC
Found at i:23299271 original size:27 final size:27
Alignment explanation
Indices: 23299216--23299285 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
23299206 GGGTATTTTG
* *
23299216 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTCCA
*
23299243 GTAATTCTACCCTACAAGGGTATTCCA
1 GTAATTCTACCCTACAAGGGCATTCCA
* *
23299270 GTAATGCTAGCCTACA
1 GTAATTCTACCCTACA
23299286 GATATCAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTCCA
Found at i:23300561 original size:44 final size:43
Alignment explanation
Indices: 23300430--23300590 Score: 170
Period size: 42 Copynumber: 3.8 Consensus size: 43
23300420 TAATGCCAAC
* * *
23300430 GTCCCAGACGTGGTCTTACATGT-AATTCAGATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCAGATCGATGCCTGT
* * * *
23300472 TTCCCAAACAGGGTCTTATACG-AAA-TCAGATACGATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAGAT-CGATGCCTG-T
*
23300514 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAGATCGATGCCTGT
*
23300558 GTCCCAGACACGGTCTTACACG-ATAATTCAGAT
1 GTCCCAGACATGGTCTTACACGTA-AATTCAGAT
23300591 TAATACCAAC
Statistics
Matches: 97, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
41 6 0.06
42 44 0.45
43 10 0.10
44 31 0.32
45 6 0.06
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAGATCGATGCCTGT
Found at i:23303271 original size:30 final size:30
Alignment explanation
Indices: 23303235--23303296 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
23303225 TAAGTAGCCG
23303235 AAGCTAGTTTAAATC-TCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGT-ACACTTAGTGCCA
23303265 AAGCTAGTTTAAATCGTACACTTAGTGCCA
1 AAGCTAGTTTAAATCGTACACTTAGTGCCA
23303295 AA
1 AA
23303297 ACTTCCGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGTACACTTAGTGCCA
Found at i:23313081 original size:78 final size:78
Alignment explanation
Indices: 23312946--23313089 Score: 184
Period size: 78 Copynumber: 1.8 Consensus size: 78
23312936 TTGAATGATG
* *
23312946 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCAGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
23313011 GTGCGAGATACTA
66 GTGCGAGATACTA
* * * * * *
23313024 TCCGGGTTAAGTCCAGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCAGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
23313087 TTG
64 TTG
23313090 AACGAGGAGC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
77 1 0.02
78 48 0.86
79 7 0.12
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCAGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTA
Found at i:23313083 original size:40 final size:39
Alignment explanation
Indices: 23312947--23313089 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 39
23312937 TGAATGATGT
* * *
23312947 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* *
23312986 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAT-
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
23313025 CCGGGTTAAGTCCAGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-A
*
23313065 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23313090 AACGAGGAGC
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
37 1 0.01
38 32 0.37
40 45 0.52
41 8 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:23316983 original size:26 final size:26
Alignment explanation
Indices: 23316954--23317061 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
23316944 TGGTACAAAT
*
23316954 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
23316980 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23317006 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
23317032 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23317058 TGAT
1 TGAT
23317062 GGACATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:23322130 original size:21 final size:21
Alignment explanation
Indices: 23322104--23322145 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23322094 GGGTGGATGG
23322104 AAGAGGAATGACGCACAAGCA
1 AAGAGGAATGACGCACAAGCA
* *
23322125 AAGAGGAATGCCTCACAAGCA
1 AAGAGGAATGACGCACAAGCA
23322146 GCTAGGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.07
Consensus pattern (21 bp):
AAGAGGAATGACGCACAAGCA
Found at i:23322914 original size:29 final size:30
Alignment explanation
Indices: 23322857--23322914 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
23322847 CTTTTGAAAA
* * **
23322857 TATTTACAAAAAGAGGCATCTAGTTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
23322887 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
23322915 AAAATACTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:23337707 original size:40 final size:41
Alignment explanation
Indices: 23337652--23337746 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
23337642 CATTTATTTG
23337652 TGGCACTTAGTGTGCGA-ATCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAGATCGACATAGCTTCGGCTATATA
* * * *
23337692 TGGCACTTAGTGTGCGAGATCGAGATAGGTTTGGCTATATT
1 TGGCACTTAGTGTGCGAGATCGACATAGCTTCGGCTATATA
23337733 TGGCACTTAGTGTG
1 TGGCACTTAGTGTG
23337747 TGATGTAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 17 0.34
41 33 0.66
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGAGATCGACATAGCTTCGGCTATATA
Found at i:23341031 original size:20 final size:21
Alignment explanation
Indices: 23341008--23341051 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
23340998 TCCCTTTCTA
23341008 ATTTTC-TTACTTT-CATTTGC
1 ATTTTCATTACTTTCCA-TTGC
23341028 A-TTTCATTACTTTCCATTGC
1 ATTTTCATTACTTTCCATTGC
23341048 ATTT
1 ATTT
23341052 ACTTTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.18, C:0.20, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTCATTACTTTCCATTGC
Found at i:23344005 original size:5 final size:5
Alignment explanation
Indices: 23343995--23344128 Score: 252
Period size: 5 Copynumber: 27.0 Consensus size: 5
23343985 TATAAAATAT
23343995 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
23344045 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
*
23344095 TATTA TATTA TATTA TATCA TATTA TATTA -ATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
23344129 AATAAAGTAA
Statistics
Matches: 127, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
4 4 0.03
5 123 0.97
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:23350493 original size:36 final size:36
Alignment explanation
Indices: 23350446--23350517 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
23350436 TTGAATTTAG
23350446 TTTCTACATGTTTGCCATTGGTGCATGAGAAGAGGC
1 TTTCTACATGTTTGCCATTGGTGCATGAGAAGAGGC
23350482 TTTCTACATGTTTGCCATTGGTGCATGAGAAGAGGC
1 TTTCTACATGTTTGCCATTGGTGCATGAGAAGAGGC
23350518 ATTCCTACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (36 bp):
TTTCTACATGTTTGCCATTGGTGCATGAGAAGAGGC
Found at i:23352112 original size:46 final size:45
Alignment explanation
Indices: 23352052--23352143 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 45
23352042 TTTTTTCATA
23352052 ATTTTTTTTCTTTCTTGTCTAAAGTGTGCTTGAGCTTGTAGAAAT
1 ATTTTTTTTCTTTCTTGTCTAAAGTGTGCTTGAGCTTGTAGAAAT
23352097 ATTTTTTTATCTTTCTTGTCTAAAGTGTGCTTGAGCTTGTAGAAAT
1 ATTTTTTT-TCTTTCTTGTCTAAAGTGTGCTTGAGCTTGTAGAAAT
23352143 A
1 A
23352144 CAAGTGATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 8 0.17
46 38 0.83
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (45 bp):
ATTTTTTTTCTTTCTTGTCTAAAGTGTGCTTGAGCTTGTAGAAAT
Found at i:23354894 original size:27 final size:27
Alignment explanation
Indices: 23354856--23355063 Score: 222
Period size: 27 Copynumber: 7.7 Consensus size: 27
23354846 CAAATTGGTG
* * *
23354856 AATGACTGTTTTGCCTTTTTGAGGTAA
1 AATGATTGTTTTGCCCTTATGAGGTAA
*
23354883 AATGATTGTTTTCCCCTTATG-GTGTAA
1 AATGATTGTTTTGCCCTTATGAG-GTAA
* * *
23354910 AATGACTGTTTTGCCCTCT-TGTGGTTA
1 AATGATTGTTTTGCCCT-TATGAGGTAA
*
23354937 TATGATTGTTTTGCCCTTATGAGGTAA
1 AATGATTGTTTTGCCCTTATGAGGTAA
* *
23354964 AATAATTGTTTTGCCCTTATGGGGTAA
1 AATGATTGTTTTGCCCTTATGAGGTAA
* * *
23354991 AATGATTGTTTTTCCTTTATGAGGTAT
1 AATGATTGTTTTGCCCTTATGAGGTAA
* *
23355018 AATGACTGTTTTGCCCTTATGAAGTAA
1 AATGATTGTTTTGCCCTTATGAGGTAA
* * *
23355045 AATAACTATTTTGCCCTTA
1 AATGATTGTTTTGCCCTTA
23355064 CGTGGTTAAA
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 147 0.97
28 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (27 bp):
AATGATTGTTTTGCCCTTATGAGGTAA
Found at i:23354918 original size:54 final size:54
Alignment explanation
Indices: 23354856--23355116 Score: 247
Period size: 54 Copynumber: 4.8 Consensus size: 54
23354846 CAAATTGGTG
*
23354856 AATGACTGTTTTGCCTTTTTGAGGTAAAATGATTGTTTTCCCCTTATG-GTGTAA
1 AATGACTGTTTTGCCCTTTTGAGGTAAAATGATTGTTTTCCCCTTATGAG-GTAA
* * * * *
23354910 AATGACTGTTTTGCCCTCTTGTGGTTATATGATTGTTTTGCCCTTATGAGGTAA
1 AATGACTGTTTTGCCCTTTTGAGGTAAAATGATTGTTTTCCCCTTATGAGGTAA
* * * * * * *
23354964 AATAATTGTTTTGCCCTTATGGGGTAAAATGATTGTTTTTCCTTTATGAGGTAT
1 AATGACTGTTTTGCCCTTTTGAGGTAAAATGATTGTTTTCCCCTTATGAGGTAA
* * * * * * * * *
23355018 AATGACTGTTTTGCCCTTATGAAGTAAAATAACTATTTTGCCCTTACGTGGTTA
1 AATGACTGTTTTGCCCTTTTGAGGTAAAATGATTGTTTTCCCCTTATGAGGTAA
* ** *
23355072 AATAACTGTTTCCCCCTTTT-ATGGTAAAATGATTATTTTACCCCT
1 AATGACTGTTTTGCCCTTTTGA-GGTAAAATGATTGTTTT-CCCCT
23355117 ATGTAATGTA
Statistics
Matches: 167, Mismatches: 37, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
53 1 0.01
54 161 0.96
55 5 0.03
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (54 bp):
AATGACTGTTTTGCCCTTTTGAGGTAAAATGATTGTTTTCCCCTTATGAGGTAA
Found at i:23355028 original size:81 final size:80
Alignment explanation
Indices: 23354856--23355082 Score: 267
Period size: 81 Copynumber: 2.8 Consensus size: 80
23354846 CAAATTGGTG
* * * * *
23354856 AATGACTGTTTTGCCTTTTTGAGGTAAAATGATTGTTTTCCCCTTATGGTGTAAAATGACTGTTT
1 AATGACTGTTTTGCCCTTATGAGGTAAAATAATTGTTTTGCCCTTATGGGGTAAAATGACTGTTT
*
23354921 TGCCCTCTTGTGGTT
66 TGCCCTCTTGAGGTT
* *
23354936 ATATGATTGTTTTGCCCTTATGAGGTAAAATAATTGTTTTGCCCTTATGGGGTAAAATGATTGTT
1 A-ATGACTGTTTTGCCCTTATGAGGTAAAATAATTGTTTTGCCCTTATGGGGTAAAATGACTGTT
* *
23355001 TT-TCCTTTATGAGGTAT
65 TTGCCCTCT-TGAGGT-T
* * * * * * *
23355018 AATGACTGTTTTGCCCTTATGAAGTAAAATAACTATTTTGCCCTTACGTGGTTAAATAACTGTTT
1 AATGACTGTTTTGCCCTTATGAGGTAAAATAATTGTTTTGCCCTTATGGGGTAAAATGACTGTTT
23355083 CCCCCTTTTA
Statistics
Matches: 125, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 5 0.04
81 118 0.94
82 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (80 bp):
AATGACTGTTTTGCCCTTATGAGGTAAAATAATTGTTTTGCCCTTATGGGGTAAAATGACTGTTT
TGCCCTCTTGAGGTT
Found at i:23358658 original size:20 final size:20
Alignment explanation
Indices: 23358633--23358672 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23358623 ACTGTCACTC
23358633 TCTTTCCCTCTTAACACTTT
1 TCTTTCCCTCTTAACACTTT
23358653 TCTTTCCCTCTTAACACTTT
1 TCTTTCCCTCTTAACACTTT
23358673 CGGTTGTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (20 bp):
TCTTTCCCTCTTAACACTTT
Found at i:23359709 original size:27 final size:27
Alignment explanation
Indices: 23359675--23359853 Score: 227
Period size: 27 Copynumber: 6.7 Consensus size: 27
23359665 ACCCTCAAGT
23359675 TGGT-AAATGATTGTTTTGCCCTTATG
1 TGGTAAAATGATTGTTTTGCCCTTATG
* *
23359701 AGGTAAAATGGTTGTTTTGCCCTTATG
1 TGGTAAAATGATTGTTTTGCCCTTATG
*
23359728 AGGTAAAATGATTGTTTTGCCCTTATG
1 TGGTAAAATGATTGTTTTGCCCTTATG
* *
23359755 TGGTAAAATGACTAGTTTT-CTCTTATG
1 TGGTAAAATGA-TTGTTTTGCCCTTATG
* *
23359782 TGGTAAAATGACTATTTTGCCCTTATG
1 TGGTAAAATGATTGTTTTGCCCTTATG
* * *
23359809 TGGTAAAATAATTGTTTTGCCCTTTTA
1 TGGTAAAATGATTGTTTTGCCCTTATG
* *
23359836 TGGTAAGATGGTTGTTTT
1 TGGTAAAATGATTGTTTT
23359854 ACCCCAATGT
Statistics
Matches: 132, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.05
27 119 0.90
28 6 0.05
ACGTcount: A:0.23, C:0.11, G:0.22, T:0.44
Consensus pattern (27 bp):
TGGTAAAATGATTGTTTTGCCCTTATG
Found at i:23361202 original size:34 final size:34
Alignment explanation
Indices: 23361159--23361226 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
23361149 TGAGCTCGTA
*
23361159 GGAAAGGAAATTAGTTGTGTTTTCATGAAGTTTT
1 GGAAAGGAAATTAGTTATGTTTTCATGAAGTTTT
23361193 GGAAAGGAAATTAGTTATGTTTTCATGAAGTTTT
1 GGAAAGGAAATTAGTTATGTTTTCATGAAGTTTT
23361227 CACTTTCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.25, T:0.41
Consensus pattern (34 bp):
GGAAAGGAAATTAGTTATGTTTTCATGAAGTTTT
Found at i:23363271 original size:21 final size:22
Alignment explanation
Indices: 23363233--23363277 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
23363223 ATTATGAATA
*
23363233 TTAATTTATAATATAATTAATT
1 TTAATTTATAATACAATTAATT
* *
23363255 TTAATTT-TAATCCAATTTATT
1 TTAATTTATAATACAATTAATT
23363276 TT
1 TT
23363278 CGGTTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTTATAATACAATTAATT
Found at i:23367981 original size:35 final size:35
Alignment explanation
Indices: 23367902--23367981 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
23367892 TGGTCATTTG
* *
23367902 GGGCGACACCGTGTAAATGGTATATAGATCCTTCA
1 GGGCGACACCATGTAAATGGTATATAGATCCTACA
* * * *
23367937 GGGCAACACCATGTAAATGTTATATAGGTCCTACT
1 GGGCGACACCATGTAAATGGTATATAGATCCTACA
23367972 GGGCGACACC
1 GGGCGACACC
23367982 TCGAAAGGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (35 bp):
GGGCGACACCATGTAAATGGTATATAGATCCTACA
Found at i:23372658 original size:23 final size:25
Alignment explanation
Indices: 23372614--23372659 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
23372604 TCTCAATTAA
23372614 TAAAAAAACATAAATTGAATAATAC
1 TAAAAAAACATAAATTGAATAATAC
* *
23372639 TAAAGAAA-ATAATTTG-ATAAT
1 TAAAAAAACATAAATTGAATAAT
23372660 CAAAATTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 7 0.37
25 7 0.37
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (25 bp):
TAAAAAAACATAAATTGAATAATAC
Found at i:23374998 original size:49 final size:50
Alignment explanation
Indices: 23374921--23375165 Score: 289
Period size: 49 Copynumber: 4.9 Consensus size: 50
23374911 ACTATTGTGA
* *
23374921 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
* * * * *
23374970 GGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TGT
* * ** ** *
23375021 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
*
23375071 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG--ACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATG-T
* * *
23375120 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
23375166 GCTTCGGCTA
Statistics
Matches: 163, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.01
49 81 0.50
50 42 0.26
51 38 0.23
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
Found at i:23375111 original size:101 final size:98
Alignment explanation
Indices: 23374923--23375165 Score: 308
Period size: 100 Copynumber: 2.4 Consensus size: 98
23374913 TATTGTGAGG
* *
23374923 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATAGGTCACATGTGTAGTACT
* *
23374988 AAGTGTAGGCTACTATGCGTACCCGAAAACTG-TGA
66 AAGTGCAGGCTACTACGCGTA-CC--AAACTGTTGA
** **
23375023 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT-AGGTCACATGTGTAGTAC
* * *
23375088 TAAGTGCAGGCTACTACGTGTACCAGACTGTTGG
65 TAAGTGCAGGCTACTACGCGTACCAAACTGTTGA
* * * *
23375122 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
23375166 GCTTCGGCTA
Statistics
Matches: 123, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
98 5 0.04
99 39 0.32
100 43 0.35
101 36 0.29
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATAGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCAAACTGTTGA
Found at i:23383376 original size:37 final size:37
Alignment explanation
Indices: 23383326--23383396 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
23383316 AATAGGATTA
23383326 AGTCTCATTTGCCCATCAACTT-TAGCTCTTTCGCTTG
1 AGTCTCATTTGCCCATCAA-TTCTAGCTCTTTCGCTTG
23383363 AGTCTCATTTGCCCATCAATTCTAGCTCTTTCGC
1 AGTCTCATTTGCCCATCAATTCTAGCTCTTTCGC
23383397 CCTTCTTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 2 0.06
37 31 0.94
ACGTcount: A:0.17, C:0.31, G:0.13, T:0.39
Consensus pattern (37 bp):
AGTCTCATTTGCCCATCAATTCTAGCTCTTTCGCTTG
Found at i:23386497 original size:20 final size:20
Alignment explanation
Indices: 23386464--23386504 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
23386454 GCAATGAAAA
*
23386464 ATGCAATGAGATGGTTTAGC
1 ATGCAATGAAATGGTTTAGC
*
23386484 ATGCAGTGAAATGGTTTAGC
1 ATGCAATGAAATGGTTTAGC
23386504 A
1 A
23386505 ACAATTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (20 bp):
ATGCAATGAAATGGTTTAGC
Found at i:23393492 original size:46 final size:46
Alignment explanation
Indices: 23393442--23393709 Score: 409
Period size: 46 Copynumber: 5.8 Consensus size: 46
23393432 TGGTTGAGCA
23393442 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
23393488 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23393534 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
23393579 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
23393627 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
23393673 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23393710 GCGGGTTATA
Statistics
Matches: 204, Mismatches: 9, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
42 2 0.01
43 5 0.02
45 3 0.01
46 155 0.76
47 29 0.14
48 3 0.01
50 5 0.02
51 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23393611 original size:93 final size:92
Alignment explanation
Indices: 23393442--23393709 Score: 393
Period size: 93 Copynumber: 2.9 Consensus size: 92
23393432 TGGTTGAGCA
* *
23393442 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-TCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAACGCTCCGAACTCGTTGAGTTG
23393506 AGTCCGAGTTCACTTATGGATGCGAATG
65 AGTCCGAGTTCACTTATGGATGCGAATG
* *
23393534 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCATCCGAACTCGTTGAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAC---GC-TCCGAACTCGTTGAG
23393596 TTGAGTCCGAGTTCACTTATGGATGCGAATG
62 TTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
23393627 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC-CCGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAACGCTCCGAACTCGTTGAGTTG
23393691 AGTCCGAGTTCACTTATGG
65 AGTCCGAGTTCACTTATGG
23393710 GCGGGTTATA
Statistics
Matches: 159, Mismatches: 8, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
88 2 0.01
89 4 0.03
91 3 0.02
92 64 0.40
93 75 0.47
94 4 0.03
96 4 0.03
97 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAACGCTCCGAACTCGTTGAGTTGA
GTCCGAGTTCACTTATGGATGCGAATG
Found at i:23393689 original size:139 final size:139
Alignment explanation
Indices: 23393439--23393701 Score: 499
Period size: 139 Copynumber: 1.9 Consensus size: 139
23393429 GGATGGTTGA
23393439 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
* *
23393504 TGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGA
66 TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGA
23393569 TGTAACTAG
131 TGTAACTAG
23393578 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
23393643 TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTC
66 TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCCGAGTTC
23393702 ACTTATGGGC
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 121 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (139 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGA
TGTAACTAG
Found at i:23396007 original size:25 final size:24
Alignment explanation
Indices: 23395970--23396017 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
23395960 GAAGAAAAGA
23395970 CCGATGAGCGGTTCATTTTCACAG
1 CCGATGAGCGGTTCATTTTCACAG
*
23395994 NCCGATGAGTGGTTCATTTTCACA
1 -CCGATGAGCGGTTCATTTTCACA
23396018 ACAACCTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.31
Consensus pattern (24 bp):
CCGATGAGCGGTTCATTTTCACAG
Found at i:23399297 original size:79 final size:82
Alignment explanation
Indices: 23399186--23399370 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
23399176 GCTACTCGTT
* *
23399186 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
23399249 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
23399266 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
23399329 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
23399346 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23399371 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:23399370 original size:40 final size:40
Alignment explanation
Indices: 23399167--23399370 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
23399157 CGGAATTTAA
** *
23399167 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23399207 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
23399247 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23399286 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
23399326 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
23399366 CCGGA
1 CCGGA
23399371 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23407529 original size:79 final size:79
Alignment explanation
Indices: 23407428--23407610 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 79
23407418 TACTCGTTCA
* * *
23407428 AATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
1 AATGCCTTC-GGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCG-GATCTTAACCCGG
* *
23407491 ATTTAGTAAC-TCGCACC
63 ATATAGTAACTTAGCA-C
**
23407508 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
* *
23407573 TGGTCACTTAGCAC
66 TAGTAACTTAGCAC
*
23407587 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
23407611 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 62 0.70
80 25 0.28
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:23407610 original size:40 final size:40
Alignment explanation
Indices: 23407407--23407610 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
23407397 CGGAATTTAA
** * *
23407407 CCGGATATAGCT-ACTCGTTCAAATGCCTTCAGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
23407447 CCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23407487 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
23407526 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
23407566 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
23407606 CCGGA
1 CCGGA
23407611 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 91 0.66
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23408815 original size:56 final size:56
Alignment explanation
Indices: 23408748--23408867 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
23408738 TATTAGTTTA
23408748 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
23408804 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
23408860 TTGCCCAT
1 TTGCCCAT
23408868 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:23412076 original size:28 final size:28
Alignment explanation
Indices: 23412038--23412219 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
23412028 TAAATTGTAC
*
23412038 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23412066 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23412094 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
23412122 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23412150 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23412178 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
23412205 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23412220 GACTTAATAT
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:23418990 original size:119 final size:120
Alignment explanation
Indices: 23418808--23419030 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
23418798 TCCTCGTTCA
*
23418808 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
23418873 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAAC
* * **
23418928 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
23418990 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
23419031 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAAC
Found at i:23419030 original size:40 final size:40
Alignment explanation
Indices: 23418806--23419030 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
23418796 GCTCCTCGTT
* *
23418806 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
23418846 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
23418886 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
23418926 -ACAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CA-AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
23418965 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
23419006 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23419031 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:23430769 original size:46 final size:46
Alignment explanation
Indices: 23430702--23430880 Score: 218
Period size: 46 Copynumber: 3.9 Consensus size: 46
23430692 TGTAACCCGC
*
23430702 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTT-GCAT
* *
23430748 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CTTGCAT
* *** * * *
23430794 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACGCTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGCTTGCAT
*
23430841 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC
23430881 CCAAATATCC
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
46 76 0.68
47 34 0.31
48 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTTGCAT
Found at i:23430822 original size:93 final size:93
Alignment explanation
Indices: 23430710--23430881 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
23430700 GCCCATAAGT
**
23430710 GAACTCGGACTCAACTCAACGAGCTCGGGTG-TTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTT-GCATCCATAAGTGAACTCGGACTCAACTCA
23430774 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
23430803 GAACTCGGACTCAACTCAACGAGTTTGGACGCTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTTGCATCCATAAGTGAACTCGGACTCAACTCAA
*
23430868 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
23430882 CAAATATCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:23433084 original size:9 final size:9
Alignment explanation
Indices: 23433055--23433088 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
23433045 TCATAATATC
23433055 CATGTAATT
1 CATGTAATT
*
23433064 CATATAATT
1 CATGTAATT
*
23433073 CATGTAAAT
1 CATGTAATT
23433082 CATGTAA
1 CATGTAA
23433089 CTTATAGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (9 bp):
CATGTAATT
Found at i:23439133 original size:49 final size:50
Alignment explanation
Indices: 23439054--23439298 Score: 262
Period size: 49 Copynumber: 4.9 Consensus size: 50
23439044 ACTATTGTGA
* *
23439054 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
* * * * *
23439103 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TGT
* * * ** ** *
23439154 GATCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
* * *
23439204 GGTTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG--ACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATG-T
* * *
23439253 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
23439299 GCTTCGGCTA
Statistics
Matches: 159, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
48 2 0.01
49 79 0.50
50 41 0.26
51 37 0.23
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
Found at i:23439189 original size:28 final size:28
Alignment explanation
Indices: 23439157--23439241 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
23439147 AAACTGTGAT
23439157 CACGTGTGTAGTACTAAGTGCAGGCTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTAC
* *
23439185 CACGTGTATTAG-A-T-GGTG-AGG-T--
1 CACGTGT-GTAGTACTAAGTGCAGGCTAC
*
23439207 TACGTGTGTAGTACTAAGTGCAGGCTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTAC
*
23439235 TACGTGT
1 CACGTGT
23439242 ACCAGACTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
21 3 0.07
22 7 0.16
23 1 0.02
24 4 0.09
25 6 0.14
26 4 0.09
27 1 0.02
28 15 0.34
29 3 0.07
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (28 bp):
CACGTGTGTAGTACTAAGTGCAGGCTAC
Found at i:23449458 original size:6 final size:6
Alignment explanation
Indices: 23449437--23449508 Score: 74
Period size: 6 Copynumber: 11.8 Consensus size: 6
23449427 TACCAGAACT
* * *
23449437 AGAATC AAAATG AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* *
23449486 AGAATC AAAATT AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT
23449509 TAAGTGACAT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 1 0.02
6 48 0.91
7 3 0.06
8 1 0.02
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:23449490 original size:37 final size:37
Alignment explanation
Indices: 23449449--23449533 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
23449439 AATCAAAATG
*
23449449 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAAGTGACAGAATC
* * * *
23449486 AGAATCAAAATTAGAATCAGAATTAAGTGACATAATC
1 AGAATCAGAATCAGAATCAGAATCAAGTGACAGAATC
23449523 AGAATCAGAAT
1 AGAATCAGAAT
23449534 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAAGTGACAGAATC
Found at i:23449799 original size:22 final size:22
Alignment explanation
Indices: 23449774--23449836 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
23449764 CCCACCATAA
*
23449774 TGGCACACAGCCATAATCAAGT
1 TGGCACAAAGCCATAATCAAGT
* *
23449796 TGGCACAAAGCCAT-ATGTAGGT
1 TGGCACAAAGCCATAAT-CAAGT
23449818 TGGCACAAAGCCATAATCA
1 TGGCACAAAGCCATAATCA
23449837 GAAAAATTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAATCAAGT
Found at i:23450369 original size:27 final size:26
Alignment explanation
Indices: 23450307--23450370 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
23450297 CAGTCACTTG
*
23450307 CCCACAAGGGCAAAATAGTCATTTAA
1 CCCACAAGGGCAAAATAGTAATTTAA
* *
23450333 CACC-CTAAGGGCAAAATGGTAATTTTAT
1 C-CCAC-AAGGGCAAAATAGTAA-TTTAA
23450361 CCCACAAGGG
1 CCCACAAGGG
23450371 TATCTCGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 2 0.06
27 23 0.74
28 6 0.19
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (26 bp):
CCCACAAGGGCAAAATAGTAATTTAA
Found at i:23450380 original size:27 final size:26
Alignment explanation
Indices: 23450350--23450493 Score: 121
Period size: 27 Copynumber: 5.3 Consensus size: 26
23450340 AGGGCAAAAT
*
23450350 GGTAATTTTATCCCACAAGGGTATCTC
1 GGTAATTTTA-CCCACAAGGGTATTTC
* * *
23450377 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACC-CACAAGGGTATTTC
*
23450404 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCC-ACAAGGGTATTTC
23450431 GGTAATTTTACCCTAC-AGCGGTATTTC
1 GGTAATTTTACCC-ACAAG-GGTATTTC
* * *
23450458 AGTAATTCTACCCTACAAGGATATTTC
1 GGTAATTTTACCC-ACAAGGGTATTTC
**
23450485 AATAATTTT
1 GGTAATTTT
23450494 GTAAACTAAG
Statistics
Matches: 97, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
26 7 0.07
27 84 0.87
28 6 0.06
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (26 bp):
GGTAATTTTACCCACAAGGGTATTTC
Found at i:23450483 original size:54 final size:54
Alignment explanation
Indices: 23450351--23450484 Score: 171
Period size: 54 Copynumber: 2.5 Consensus size: 54
23450341 GGGCAAAATG
* * * * *
23450351 GTAATTTTATCCC-ACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTA-CCCTACAAGGGTATTTCGGTAATTCTACCCTACAGCGGTATTTCA
* * *
23450405 GTATTTCTACCCTACAAGGGTATTTTGGTAATTTTACCCTACAGCGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGCGGTATTTCA
*
23450459 GTAATTCTACCCTACAAGGATATTTC
1 GTAATTCTACCCTACAAGGGTATTTC
23450485 AATAATTTTG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 3 0.04
54 65 0.96
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGCGGTATTTCA
Found at i:23454970 original size:38 final size:38
Alignment explanation
Indices: 23454927--23455010 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 38
23454917 TGTATTTGTT
* *
23454927 CCCATACGAAGAAGGAAACGGGCCTAAGAAGTCAATGC
1 CCCATACGAAGAAAGAAACAGGCCTAAGAAGTCAATGC
*
23454965 CCCATACGAAGAAAGAAATAGGCCTAAGAAGTCAATGC
1 CCCATACGAAGAAAGAAACAGGCCTAAGAAGTCAATGC
23455003 CCCATACG
1 CCCATACG
23455011 TCGAATAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.40, C:0.25, G:0.23, T:0.12
Consensus pattern (38 bp):
CCCATACGAAGAAAGAAACAGGCCTAAGAAGTCAATGC
Found at i:23456338 original size:49 final size:49
Alignment explanation
Indices: 23456212--23456489 Score: 442
Period size: 49 Copynumber: 5.8 Consensus size: 49
23456202 CCCTTCGGGA
* * * *
23456212 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23456259 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23456306 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23456355 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23456404 CTTATCAAATATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23456453 CTTATCAC--ATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATATACACTTTCACATTCATCACATCG
23456490 AATCCTAAAT
Statistics
Matches: 215, Mismatches: 12, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 76 0.35
49 138 0.64
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23459334 original size:40 final size:40
Alignment explanation
Indices: 23459290--23459513 Score: 228
Period size: 40 Copynumber: 5.7 Consensus size: 40
23459280 GCTCCTCGTT
* * *
23459290 CAAATACCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
23459330 CAAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
23459369 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * *
23459409 CAAATGCCTTCAGG-CTTAGCCC-GAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
23459448 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
23459489 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23459514 CATCATTCAA
Statistics
Matches: 153, Mismatches: 20, Indels: 22
0.78 0.10 0.11
Matches are distributed among these distances:
38 7 0.05
39 59 0.39
40 71 0.46
41 16 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:23459401 original size:79 final size:79
Alignment explanation
Indices: 23459311--23459511 Score: 307
Period size: 79 Copynumber: 2.5 Consensus size: 79
23459301 GGGACATAGC
*
23459311 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCC-AGAATTAGTATCTCGCACAAATG
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGA-AATTAGTATCTCGCACAAATG
23459375 CCTTCGGATCTTAGT
65 CCTTCGGATCTTAGT
* *
23459390 CCGGATTTAGTAACTCGCACAAATGCCTTCAGGCTTAGCCCGAAATTAGTATCTCGCACAAATGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCACAAATGC
23459455 CTTCGGATCTTAGT
66 CTTCGGATCTTAGT
* * *
23459469 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCG
23459512 GACATCATTC
Statistics
Matches: 111, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
79 93 0.84
80 18 0.16
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCACAAATGC
CTTCGGATCTTAGT
Found at i:23460374 original size:280 final size:279
Alignment explanation
Indices: 23459874--23460432 Score: 1019
Period size: 280 Copynumber: 2.0 Consensus size: 279
23459864 CATATTTATG
*
23459874 CATTAGACATTAAAGTCACATATGTACGGAATAATGAATCAAACTCAACATTTTAGCTAATTTTC
1 CATTAGACATTAAAGTCACATATGTACGGAATAATGAATCAAACCCAACATTTTAGCTAATTTTC
*
23459939 CCCCTTGGCCGAATATGCATGTCTATTTTGGGGCCTATTTCAACACTTAATACATTCTACAAGTA
66 CCCCTTGGCCGAATATGCATGTCTATTTTGGGGCCGATTTCAACACTTAATACATTCTACAAGTA
23460004 TGGTCACTTGTATTGACTAAACACCCTTTTGTTTCAAGTTCAAAACTTGGCTAATACACACATAT
131 TGGTCACTTGTATTGACTAAACACCCTTTTGTTTCAAGTTCAAAACTTGGCTAATACACACATAT
*
23460069 ATACACTAGTAAAGCATCCTCTCCCTTTCCATCAATTTAACACATGCATTACTCATTAATATACA
196 ATACACTAGTAAAGCATCCTCTCCCTTTCCATCAATTTAACACATGCATTACTCATTAACATACA
* *
23460134 AGAGTTATATTCGGCCTTA
261 AAAATTATATTCGGCCTTA
* * *
23460153 CATTAGACATTAAGGTCACATATGTACGGAATCATGAATCAAACCCAACATTTTTGCTAATTTTT
1 CATTAGACATTAAAGTCACATATGTACGGAATAATGAATCAAACCCAACATTTTAGCTAA-TTTT
23460218 CCCCCTTGGCCGAATATGCATGTCTATTTTGGGGCCGATTTCAACACTTAATACATTCTACAAGT
65 CCCCCTTGGCCGAATATGCATGTCTATTTTGGGGCCGATTTCAACACTTAATACATTCTACAAGT
23460283 ATGGTCACTTGTATTGACTAAACACCCTTTTGTTTCAAGTTCAAAACTTGGCTAATACACACATA
130 ATGGTCACTTGTATTGACTAAACACCCTTTTGTTTCAAGTTCAAAACTTGGCTAATACACACATA
* *
23460348 TATACACTAGTAAAGCATCCTCTCCCTTTCCATCAATTTAGCACATGCATTACTCATTAACCTAC
195 TATACACTAGTAAAGCATCCTCTCCCTTTCCATCAATTTAACACATGCATTACTCATTAACATAC
23460413 AAAAATTATATTCGGCCTTA
260 AAAAATTATATTCGGCCTTA
23460433 GCACACAACT
Statistics
Matches: 269, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
279 56 0.21
280 213 0.79
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (279 bp):
CATTAGACATTAAAGTCACATATGTACGGAATAATGAATCAAACCCAACATTTTAGCTAATTTTC
CCCCTTGGCCGAATATGCATGTCTATTTTGGGGCCGATTTCAACACTTAATACATTCTACAAGTA
TGGTCACTTGTATTGACTAAACACCCTTTTGTTTCAAGTTCAAAACTTGGCTAATACACACATAT
ATACACTAGTAAAGCATCCTCTCCCTTTCCATCAATTTAACACATGCATTACTCATTAACATACA
AAAATTATATTCGGCCTTA
Found at i:23474618 original size:330 final size:332
Alignment explanation
Indices: 23473975--23474638 Score: 938
Period size: 330 Copynumber: 2.0 Consensus size: 332
23473965 TGTGAACAGG
*
23473975 GCGTGTGTCTCACATGACTAGTTGACATGCCCATGTCTTAGGCCATGTAGAAACAAGGGATACAT
1 GCGTGTGTCTCACACGACTAGTTGACATGCCCATGTCTTAGGCCATGTAGAAACAAGGGATACAT
* * *
23474040 ACTGACTTGCATTACACGGCCAAAGACACGTCCATGTGCCAGGCTGTATGAAATTTAGAAAGTAT
66 ACTGACTTGCATTACACAGCCAAAGACACGCCCATGTGCCAGGCTGTATGAAAATTAGAAAGTAT
*
23474105 ACTAACTTATGCAACACGGCCAAGTCATACGCCCGTGTGCTAAGCCATATGCCAATTAGGGAACA
131 ACTAACTTATGCAACACGGCCAAGTCACACGCCCGTGTGCTAAGCCATATGCCAATTAGGGAACA
* *
23474170 TATTGACTTGTACCACACGGCCAATCACAAGCCCTTGTGTGAGACCATGTGGAGCATACTGACTT
196 TACTGACTTGTACCACACGGCCAATCACAAGCCCATGTGTGAGACCATGTGGAGCATACTGACTT
* * * * * * *
23474235 CATTTTAATATCAACACTAGGGGACACATGGCCGTATAACATGGTCGTGTGTCACACACGGCTGA
261 CATTTTAATATCAACACCAGGGGACACACGACCGTATAACATGATCATGTGTCACACACAGCTAA
23474300 GACACAC
326 GACACAC
** * **
23474307 GCGTGTGTCTCACACGGTTAGTTGACA-GCCCGTGTCTTAGGCTGTGTAGAAAC-AGGGCATACA
1 GCGTGTGTCTCACACGACTAGTTGACATGCCCATGTCTTAGGCCATGTAGAAACAAGGG-ATACA
* * * * * *
23474370 TATTGACTTGCATTACACAGCCGAAGACA-GCCCGTGTGCCAGGCTGTGTGAAAATTGGAGAGTA
65 TACTGACTTGCATTACACAGCCAAAGACACGCCCATGTGCCAGGCTGTATGAAAATTAGAAAGTA
* * * * * * * *
23474434 TACTGATTTATGCAACATGGCCAAGTCCCACGCTCGTGTGCTAGGCCGTATGCCAATTAGGGGAC
130 TACTAACTTATGCAACACGGCCAAGTCACACGCCCGTGTGCTAAGCCATATGCCAATTAGGGAAC
* * * * *
23474499 ATACTGACTTGTACCACTCGGCCAATCACACGCTCATGTGTGAGACTATGTGGAGCATACTGGCT
195 ATACTGACTTGTACCACACGGCCAATCACAAGCCCATGTGTGAGACCATGTGGAGCATACTGACT
* *
23474564 TCATTTTAATATCAACACCAGGGGAGACACGACCGTGTAACATGATCATGTGTCACACACAGCTA
260 TCATTTTAATATCAACACCAGGGGACACACGACCGTATAACATGATCATGTGTCACACACAGCTA
23474629 AGACACAC
325 AGACACAC
23474637 GC
1 GC
23474639 CCGTGTCCCT
Statistics
Matches: 291, Mismatches: 40, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
330 213 0.73
331 54 0.19
332 24 0.08
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (332 bp):
GCGTGTGTCTCACACGACTAGTTGACATGCCCATGTCTTAGGCCATGTAGAAACAAGGGATACAT
ACTGACTTGCATTACACAGCCAAAGACACGCCCATGTGCCAGGCTGTATGAAAATTAGAAAGTAT
ACTAACTTATGCAACACGGCCAAGTCACACGCCCGTGTGCTAAGCCATATGCCAATTAGGGAACA
TACTGACTTGTACCACACGGCCAATCACAAGCCCATGTGTGAGACCATGTGGAGCATACTGACTT
CATTTTAATATCAACACCAGGGGACACACGACCGTATAACATGATCATGTGTCACACACAGCTAA
GACACAC
Found at i:23475632 original size:24 final size:23
Alignment explanation
Indices: 23475571--23475632 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
23475561 CTCTATTGAG
* *
23475571 CTGAAATGGTAAGCTCTGACGAG
1 CTGAAATAGTAAGCTCTGACGAA
*
23475594 CTGAAACAGTAAGCTCAT-ACGAA
1 CTGAAATAGTAAGCTC-TGACGAA
23475617 CTGAGAATAGTAAGCT
1 CTGA-AATAGTAAGCT
23475633 TTTAGAGCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 22 0.67
24 11 0.33
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (23 bp):
CTGAAATAGTAAGCTCTGACGAA
Found at i:23478930 original size:39 final size:39
Alignment explanation
Indices: 23478865--23479039 Score: 170
Period size: 39 Copynumber: 4.5 Consensus size: 39
23478855 TAGAAAACTC
* * *
23478865 TTGTACTTCGGTACCATTTATTTCACTTACGTGCCCCTG
1 TTGTACTTCGGTACCCTTGATCTCACTTACGTGCCCCTG
* * *
23478904 TTCTACTTTGGTACCCTTGATCTCACTTACGTGCCCCTA
1 TTGTACTTCGGTACCCTTGATCTCACTTACGTGCCCCTG
* * * *
23478943 CTGTGCTTCGGTACCCCTGATCACACTTACGTGCCCCTG
1 TTGTACTTCGGTACCCTTGATCTCACTTACGTGCCCCTG
* * * * * * *
23478982 TTGTACTTTGATACCCTTGAACGCACCTATGTTCCCCTG
1 TTGTACTTCGGTACCCTTGATCTCACTTACGTGCCCCTG
* * *
23479021 TTGTATTTCAGTACTCTTG
1 TTGTACTTCGGTACCCTTG
23479040 TTAGCACTTT
Statistics
Matches: 108, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.15, C:0.31, G:0.16, T:0.38
Consensus pattern (39 bp):
TTGTACTTCGGTACCCTTGATCTCACTTACGTGCCCCTG
Found at i:23479427 original size:16 final size:16
Alignment explanation
Indices: 23479403--23479442 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
23479393 GATAAAATGA
*
23479403 TGTGTATGCAATCACT
1 TGTGAATGCAATCACT
23479419 TGTGAATGCAATCACT
1 TGTGAATGCAATCACT
23479435 TGTGAATG
1 TGTGAATG
23479443 GTTTATTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (16 bp):
TGTGAATGCAATCACT
Found at i:23483124 original size:55 final size:54
Alignment explanation
Indices: 23483037--23483291 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
23483027 ATTAGGGTTT
* *
23483037 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
23483092 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
23483147 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATAGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
23483200 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
23483249 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
23483292 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 40 0.24
54 12 0.07
55 66 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:23483243 original size:108 final size:110
Alignment explanation
Indices: 23483047--23483244 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
23483037 AAGGATACCG
* *
23483047 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATAGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
23483112 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* **
23483157 TGTAAGACCATGCCAAGGCATGGC-ATAGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATAGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
23483219 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
23483245 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 6 0.08
110 24 0.30
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATAGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:23483504 original size:16 final size:16
Alignment explanation
Indices: 23483483--23483513 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23483473 ATAAATTTGA
23483483 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
23483499 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
23483514 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:23485439 original size:12 final size:12
Alignment explanation
Indices: 23485424--23485457 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
23485414 ATGGGTGAGA
23485424 AAAATGGCTTGT
1 AAAATGGCTTGT
23485436 AAAATGGCTTGT
1 AAAATGGCTTGT
23485448 AAAATGGCTT
1 AAAATGGCTT
23485458 ATTTTCGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (12 bp):
AAAATGGCTTGT
Found at i:23485591 original size:12 final size:12
Alignment explanation
Indices: 23485574--23485600 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23485564 TCAGGCTATT
23485574 ACACGGCTTAGC
1 ACACGGCTTAGC
23485586 ACACGGCTTAGC
1 ACACGGCTTAGC
23485598 ACA
1 ACA
23485601 TGAGCGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (12 bp):
ACACGGCTTAGC
Found at i:23487645 original size:24 final size:24
Alignment explanation
Indices: 23487618--23487668 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
23487608 AATTAATTAG
23487618 AGATAAAATAATTTTTAAAGAATA
1 AGATAAAATAATTTTTAAAGAATA
23487642 AGATAAAATAATTTTTAAAGAATA
1 AGATAAAATAATTTTTAAAGAATA
23487666 AGA
1 AGA
23487669 CGTCTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (24 bp):
AGATAAAATAATTTTTAAAGAATA
Found at i:23490053 original size:42 final size:42
Alignment explanation
Indices: 23490006--23490087 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
23489996 GATACGGTAC
*
23490006 CGATATG-TGATTTCATATAAGACCATGTCAGGGACATGGCGT
1 CGATATGAT-ATTTCATATAAGACCATATCAGGGACATGGCGT
* * *
23490048 CGATATGATATTTCATGTAAGACCATATCCGGGATATGGC
1 CGATATGATATTTCATATAAGACCATATCAGGGACATGGC
23490088 ATTGATACGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
CGATATGATATTTCATATAAGACCATATCAGGGACATGGCGT
Found at i:23493205 original size:26 final size:26
Alignment explanation
Indices: 23493169--23493220 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23493159 CAAACAATCA
23493169 ACCATCCAACAAATTTAGCACATAGC
1 ACCATCCAACAAATTTAGCACATAGC
23493195 ACCATCCAACAAATTTAGCACATAGC
1 ACCATCCAACAAATTTAGCACATAGC
23493221 CAAACTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (26 bp):
ACCATCCAACAAATTTAGCACATAGC
Found at i:23497963 original size:26 final size:26
Alignment explanation
Indices: 23497903--23497965 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
23497893 ATTAATAAAT
*
23497903 TATTTAAAAAATATAAAAATATCTTA
1 TATTTAAAAAATATAAAAATATCATA
*
23497929 TATTCAAAAAATTATAAAAA-ATTCATA
1 TATTTAAAAAA-TATAAAAATA-TCATA
23497956 -ATTTAAAAAA
1 TATTTAAAAAA
23497966 AACATAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 20 0.62
27 12 0.38
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (26 bp):
TATTTAAAAAATATAAAAATATCATA
Found at i:23502327 original size:28 final size:27
Alignment explanation
Indices: 23502248--23502328 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
23502238 ATTGAAAGTC
* *
23502248 GAGTTAGCCAATCTGTTTGGTGAGCTA
1 GAGTTTGCCAGTCTGTTTGGTGAGCTA
*
23502275 GAGTTTGCCAGTCTATTTGGTGAGCTA
1 GAGTTTGCCAGTCTGTTTGGTGAGCTA
*
23502302 GAGTTT-CTCTAGTCTGTTTGGCGAGCT
1 GAGTTTGC-C-AGTCTGTTTGGTGAGCT
23502329 GGGTGTTAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
26 1 0.02
27 31 0.66
28 15 0.32
ACGTcount: A:0.17, C:0.16, G:0.30, T:0.37
Consensus pattern (27 bp):
GAGTTTGCCAGTCTGTTTGGTGAGCTA
Found at i:23504502 original size:25 final size:25
Alignment explanation
Indices: 23504473--23504528 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
23504463 GGTGTTACAA
23504473 TTTGTTCATTGAATG-TGTTGGGTTC
1 TTTGTTCATTGAA-GATGTTGGGTTC
* *
23504498 TTTGTTCTTTTAAGATGTTGGGTTC
1 TTTGTTCATTGAAGATGTTGGGTTC
23504523 TTTGTT
1 TTTGTT
23504529 TTGAATATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.11, C:0.07, G:0.25, T:0.57
Consensus pattern (25 bp):
TTTGTTCATTGAAGATGTTGGGTTC
Found at i:23506014 original size:19 final size:19
Alignment explanation
Indices: 23505990--23506030 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
23505980 CGATATAAAG
23505990 CCACATTCTTTCCATTCTT
1 CCACATTCTTTCCATTCTT
*
23506009 CCACATTCTTTTCATTCTT
1 CCACATTCTTTCCATTCTT
23506028 CCA
1 CCA
23506031 ACAACTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (19 bp):
CCACATTCTTTCCATTCTT
Found at i:23506708 original size:29 final size:30
Alignment explanation
Indices: 23506672--23506736 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
23506662 TGTTTGATAA
*
23506672 ATTGAAAAATTAAATGA-TGAAAAA-TAAGC
1 ATTGAAAAAATAAAT-ATTGAAAAATTAAGC
* *
23506701 ATTGAAAAAATAAGTATTGAAAAATTAAGT
1 ATTGAAAAAATAAATATTGAAAAATTAAGC
23506731 ATTGAA
1 ATTGAA
23506737 TTTACGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 20 0.65
30 10 0.32
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.28
Consensus pattern (30 bp):
ATTGAAAAAATAAATATTGAAAAATTAAGC
Found at i:23506709 original size:15 final size:15
Alignment explanation
Indices: 23506691--23506736 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
23506681 TTAAATGATG
*
23506691 AAAAATAAGCATTGA
1 AAAAATAAGTATTGA
23506706 AAAAATAAGTATTGA
1 AAAAATAAGTATTGA
*
23506721 AAAATTAAGTATTGA
1 AAAAATAAGTATTGA
23506736 A
1 A
23506737 TTTACGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.59, C:0.02, G:0.13, T:0.26
Consensus pattern (15 bp):
AAAAATAAGTATTGA
Found at i:23518944 original size:45 final size:49
Alignment explanation
Indices: 23518842--23518956 Score: 134
Period size: 50 Copynumber: 2.4 Consensus size: 49
23518832 GAGGCCGACA
*
23518842 CCATGTCCCAAACATGGTCTTACGCTAGCTCTCACATATCCGTGCCAATG
1 CCATGTCCCAAACATGGTCTTAC-CTAGCTCGCACATATCCGTGCCAATG
* * *
23518892 CCATGTCCCAAACATGGTCTTA-C-A-CTGGCACATCT-CGTAGCCGATG
1 CCATGTCCCAAACATGGTCTTACCTAGCTCGCACATATCCGT-GCCAATG
23518938 -CATGTCCCAAACAT-GTCTT
1 CCATGTCCCAAACATGGTCTT
23518957 TCATCTTGAG
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
44 5 0.08
45 17 0.28
46 14 0.23
47 1 0.02
48 1 0.02
50 22 0.37
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (49 bp):
CCATGTCCCAAACATGGTCTTACCTAGCTCGCACATATCCGTGCCAATG
Found at i:23525933 original size:40 final size:40
Alignment explanation
Indices: 23525856--23526076 Score: 268
Period size: 40 Copynumber: 5.5 Consensus size: 40
23525846 ACCCAAGTAT
* *
23525856 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
23525895 CTTCGGGTCTTAGCCCAGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
23525935 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
** *
23525975 CTTCGGGTCTTAGCCCGGATATAGAAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
** * *
23526015 CTTCGAATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
23526055 CTTTGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
23526077 CATTTGAATA
Statistics
Matches: 154, Mismatches: 25, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
38 1 0.01
39 11 0.07
40 141 0.92
41 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:23535659 original size:20 final size:20
Alignment explanation
Indices: 23535636--23535673 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23535626 GTTATTAAGT
23535636 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
23535656 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
23535674 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:23541895 original size:45 final size:45
Alignment explanation
Indices: 23541781--23541933 Score: 148
Period size: 46 Copynumber: 3.3 Consensus size: 45
23541771 TCGATTAAGT
* * ** *
23541781 CGATGCCATGTCCAAGACATCGTCTTACAGTGACTATAAAAATTGAGGC
1 CGATG-CATGTCCAAGACAT-GTCTTACACTGAC--TACATCTCGAGGC
* *
23541830 CGACGTCATGTCCTAGACATGGTCTTACACTGAC-ACATCTCGTA-GC
1 CGATG-CATGTCCAAGACAT-GTCTTACACTGACTACATCTCG-AGGC
*
23541876 CGATGCATGTCCAAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCAAGACATGTCTTACACTGAC-TACATCTCGAGGC
23541922 CGATGCATGTCC
1 CGATGCATGTCC
23541934 CTGACACATT
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
44 12 0.14
45 14 0.16
46 32 0.36
47 1 0.01
49 29 0.33
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (45 bp):
CGATGCATGTCCAAGACATGTCTTACACTGACTACATCTCGAGGC
Found at i:23541917 original size:46 final size:47
Alignment explanation
Indices: 23541826--23542044 Score: 166
Period size: 46 Copynumber: 4.7 Consensus size: 47
23541816 ATAAAAATTG
* * * *
23541826 AGGCCGACGTCATGTCCTAGACATGGTCTTACACT-G-ACACATCTCGT
1 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGT
*
23541873 A-GCCGATGCATGTCCAAGACATGTCTTACACTGGCT-TACATCTCG-
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGT
* ** * * * *
23541918 AGGCCGATGCATGTCCCTGACACATTTTACACTAGCTCTCGTCTC-A
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGT
* * *
23541964 ATGTCGATGCCATGTCCCAGACACTGTCTTACACTGGCTCTCATAAT-GT
1 AGGCCGATG-CATGTCCCAGACA-TGTCTTACACTGGCTCTCAT-CTCGT
* * *
23542013 A-GCTGATGTATGTCTCAGACATGTCTTACACT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACT
23542045 AGTGCACAAA
Statistics
Matches: 137, Mismatches: 25, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 65 0.47
47 25 0.18
48 20 0.15
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGT
Found at i:23548301 original size:21 final size:20
Alignment explanation
Indices: 23548272--23548310 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
23548262 CCTTGAAAAA
23548272 GGGCACACGCCCGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
23548292 GGGCAACACGCCCGTGTGG
1 GGGC-ACACGCCCGTGTGG
23548311 TCATTATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.15, C:0.31, G:0.41, T:0.13
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:23549747 original size:48 final size:48
Alignment explanation
Indices: 23549568--23549776 Score: 169
Period size: 48 Copynumber: 4.4 Consensus size: 48
23549558 CAAGTCCTAG
* * * * *
23549568 ACATCGTCTTACACTAGCTCTCACATATCTGTGTCGATGCCATGTCTCAG
1 ACATCGTCTTACACTAGCTCT--TATATATGTGCCGATGCCATGTCCCAA
* * * * * *
23549618 ACATGGTCTTACACT-GACACCTCTATACGTGTCGATGCCATGTCCCAA
1 ACATCGTCTTACACTAG-CTCTTATATATGTGCCGATGCCATGTCCCAA
* * *
23549666 ACA-CGTCTTACACTAGCTCTTGTCTCA-ATGCCGATGCCATGTCCCAA
1 ACATCGTCTTACACTAGCTCTTATAT-ATGTGCCGATGCCATGTCCCAA
* ** *
23549713 ACATGGTCTTACACTAGCTCTTATAATATG-GCCGATG-CATGTCTTAG
1 ACATCGTCTTACACTAGCTCTTAT-ATATGTGCCGATGCCATGTCCCAA
23549760 ACAT-GTCTTACACTAGC
1 ACATCGTCTTACACTAGC
23549777 GCACAAATGA
Statistics
Matches: 130, Mismatches: 23, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
46 13 0.10
47 47 0.36
48 52 0.40
49 2 0.02
50 16 0.12
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.30
Consensus pattern (48 bp):
ACATCGTCTTACACTAGCTCTTATATATGTGCCGATGCCATGTCCCAA
Found at i:23549749 original size:95 final size:94
Alignment explanation
Indices: 23549602--23549776 Score: 210
Period size: 95 Copynumber: 1.9 Consensus size: 94
23549592 ATATCTGTGT
* * * *
23549602 CGATGCCATGTCTCAGACATGGTCTTACACTGACACCTCTATACGTGTCGATGCCATGTCCCAAA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACACCTATATACGTGCCGATG-CATGTCCCAAA
23549667 CACGTCTTACACTAGCTCTTGTCTCAATGC
65 CACGTCTTACACTAGCTCTTGTCTCAATGC
* * * ** *
23549697 CGATGCCATGTCCCAAACATGGTCTTACACT-AGCTCTTATAATATG-GCCGATGCATGTCTTAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTGA-CACCTAT-ATACGTGCCGATGCATGTCCCAA
*
23549760 ACATGTCTTACACTAGC
64 ACACGTCTTACACTAGC
23549777 GCACAAATGA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
94 24 0.36
95 39 0.58
96 4 0.06
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACACCTATATACGTGCCGATGCATGTCCCAAAC
ACGTCTTACACTAGCTCTTGTCTCAATGC
Found at i:23549754 original size:47 final size:46
Alignment explanation
Indices: 23549650--23549776 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 46
23549640 CTATACGTGT
* * *
23549650 CGATGCCATGTCCCAAACACGTCTTACACTAGCTCTTGTCTCAATGC
1 CGATGCCATGTCCCAAACATGTCTTACACTAGCTCTTATAT-AATGC
23549697 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTTATA-ATATGGC
1 CGATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTTATATA-AT-GC
** *
23549745 CGATG-CATGTCTTAGACATGTCTTACACTAGC
1 CGATGCCATGTCCCAAACATGTCTTACACTAGC
23549777 GCACAAATGA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 14 0.20
47 32 0.45
48 25 0.35
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAAACATGTCTTACACTAGCTCTTATATAATGC
Found at i:23551155 original size:24 final size:24
Alignment explanation
Indices: 23551127--23551181 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
23551117 TTCCAATTAA
* *
23551127 TGGCTCTCCAAAGCTTCTCGATAT
1 TGGCTCGCCAAAGCTTCCCGATAT
***
23551151 TGGCTCGCTTGAGCTTCCCGATAT
1 TGGCTCGCCAAAGCTTCCCGATAT
23551175 TGGCTCG
1 TGGCTCG
23551182 TATGAGCTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.15, C:0.29, G:0.24, T:0.33
Consensus pattern (24 bp):
TGGCTCGCCAAAGCTTCCCGATAT
Found at i:23551187 original size:24 final size:24
Alignment explanation
Indices: 23551138--23551191 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
23551128 GGCTCTCCAA
*
23551138 AGCTTCTCGATATTGGCTCGCTTG
1 AGCTTCCCGATATTGGCTCGCTTG
23551162 AGCTTCCCGATATTGGCTCG-TATG
1 AGCTTCCCGATATTGGCTCGCT-TG
23551186 AGCTTC
1 AGCTTC
23551192 TCATTAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (24 bp):
AGCTTCCCGATATTGGCTCGCTTG
Found at i:23551237 original size:25 final size:24
Alignment explanation
Indices: 23551183--23551240 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
23551173 ATTGGCTCGT
* *
23551183 ATGAGCTTCTCATTAATGACTCTC
1 ATGAGCTTCTCATTAATGAATCAC
*
23551207 -TAGAGCTTCTCGTTACATGAATCAC
1 AT-GAGCTTCTCATTA-ATGAATCAC
23551232 ATGAGCTTC
1 ATGAGCTTC
23551241 CCCTTATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.04
24 12 0.43
25 14 0.50
26 1 0.04
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (24 bp):
ATGAGCTTCTCATTAATGAATCAC
Found at i:23551640 original size:38 final size:38
Alignment explanation
Indices: 23551598--23551673 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
23551588 TGAACGGTAA
*
23551598 GTTAATTTTCCGTTATATAACTTACTAAGCATTAAATG
1 GTTAATTTTCCGTTATAGAACTTACTAAGCATTAAATG
*
23551636 GTTAATTTTTCGTTATAGAACTTACTAAGCATTAAATG
1 GTTAATTTTCCGTTATAGAACTTACTAAGCATTAAATG
23551674 CTTATTCTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (38 bp):
GTTAATTTTCCGTTATAGAACTTACTAAGCATTAAATG
Found at i:23554000 original size:28 final size:26
Alignment explanation
Indices: 23553969--23554031 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
23553959 AATTACTTGA
* **
23553969 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
23553997 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
23554023 ATACCCCTA
1 ATACCCCTA
23554032 AGGTTACTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 21 0.68
27 1 0.03
28 9 0.29
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:23554177 original size:27 final size:26
Alignment explanation
Indices: 23554137--23554248 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
23554127 AGGAAGCGTC
*
23554137 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
23554164 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
23554191 CTGGTGGCTCTGCCACGACTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
23554219 CTGGTGACTCTGTCACATTATCTGCT
1 CTGGTGGCTCTGCCACATTATCTGAT
23554245 CTGG
1 CTGG
23554249 CAGCCATGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:23554241 original size:54 final size:54
Alignment explanation
Indices: 23554137--23554248 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
23554127 AGGAAGCGTC
* * *
23554137 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAACTATCTGATCTGGTGACTCTGCCACATATATCTGCT
* * *
23554191 CTGGTGGCTCTGCCACGACTATCTGTATCTGGTGACTCTGTCACAT-TATCTGCT
1 CTGGTGGCTATGCCACAACTATCTG-ATCTGGTGACTCTGCCACATATATCTGCT
23554245 CTGG
1 CTGG
23554249 CAGCCATGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAACTATCTGATCTGGTGACTCTGCCACATATATCTGCT
Found at i:23555794 original size:45 final size:46
Alignment explanation
Indices: 23555726--23555831 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 46
23555716 GCGATATCTG
* * *
23555726 CTATCTTTGATCTGC-CCCGCGTCTACTACAGAGACGTCAAATTTA
1 CTATCTTCGATCTGCTCCCGCGTCTAATACAGAGACGCCAAATTTA
* *
23555771 TTATCTTCGATCTGCTCCC-CGTCTAATACAGAGACGCCAAATTTG
1 CTATCTTCGATCTGCTCCCGCGTCTAATACAGAGACGCCAAATTTA
*
23555816 CT-TCTTCAATCTGCTC
1 CTATCTTCGATCTGCTC
23555832 ATTGCAAACT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 13 0.25
45 37 0.70
46 3 0.06
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (46 bp):
CTATCTTCGATCTGCTCCCGCGTCTAATACAGAGACGCCAAATTTA
Done.