Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 36 of 328
Found at i:10575720 original size:46 final size:46
Alignment explanation
Indices: 10575545--10575720 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
10575535 TGTAACCCGC
* *
10575545 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
10575591 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
*
10575641 CTC-T---TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
10575684 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
10575721 TGCTCAACCA
Statistics
Matches: 114, Mismatches: 5, Indels: 22
0.81 0.04 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
44 1 0.01
46 66 0.58
47 29 0.25
49 1 0.01
50 5 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:10578485 original size:14 final size:14
Alignment explanation
Indices: 10578464--10578499 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
10578454 CTTACCTAAT
*
10578464 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTAA
*
10578478 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTAA
10578492 TGTGCAAG
1 TGTGCAAG
10578500 CAGTACACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.36
Consensus pattern (14 bp):
TGTGCAAGTTGTAA
Found at i:10583572 original size:29 final size:29
Alignment explanation
Indices: 10583504--10583574 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
10583494 TCCCTTCTTT
10583504 AAGAAAAAAATGAAATTAATTCTAAAAAA
1 AAGAAAAAAATGAAATTAATTCTAAAAAA
* **
10583533 AATACCAAAATGAAA-T-ATTACTAAAAAA
1 AAGAAAAAAATGAAATTAATT-CTAAAAAA
10583561 AAGAAAATAAATGA
1 AAGAAAA-AAATGA
10583575 CCAAAATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.09
28 13 0.38
29 18 0.53
ACGTcount: A:0.68, C:0.06, G:0.07, T:0.20
Consensus pattern (29 bp):
AAGAAAAAAATGAAATTAATTCTAAAAAA
Found at i:10588592 original size:2 final size:2
Alignment explanation
Indices: 10588543--10588572 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10588533 AAACCTTTGC
*
10588543 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10588573 GAATATGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10590891 original size:3 final size:3
Alignment explanation
Indices: 10590883--10590969 Score: 174
Period size: 3 Copynumber: 29.0 Consensus size: 3
10590873 TACCCACAAC
10590883 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10590931 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10590970 TTAAATTTCT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10596279 original size:46 final size:46
Alignment explanation
Indices: 10596229--10596404 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10596219 TGGTTGAGCA
10596229 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10596275 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
10596320 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10596368 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10596405 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10596385 original size:93 final size:93
Alignment explanation
Indices: 10596226--10596397 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10596216 GGATGGTTGA
* *
10596226 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10596291 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
10596319 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10596384 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
10596398 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10603846 original size:46 final size:46
Alignment explanation
Indices: 10603796--10603971 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10603786 TGGTTGAGCA
10603796 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10603842 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
10603887 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10603935 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10603972 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10603952 original size:93 final size:93
Alignment explanation
Indices: 10603793--10603964 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10603783 GGATGGTTGA
* *
10603793 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10603858 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
10603886 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
10603951 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
10603965 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10606137 original size:206 final size:206
Alignment explanation
Indices: 10605774--10606618 Score: 1325
Period size: 206 Copynumber: 4.1 Consensus size: 206
10605764 ATCCGAGAGT
* *
10605774 CAAATCTA-CTATGTCTTCGATTTGTTTCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTT
1 CAAATC-AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTT
** *
10605838 ACTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAGATGC
65 ACTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAGATGC
* * * * * *
10605903 CAGACTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAAATTTGTTTCAACGTAA
130 CAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAA
10605968 ACACGTGAAAGC
195 ACACGTGAAAGC
* * *
10605980 CAAATCAGTTATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTA
*
10606045 CTTCAGTATAAACATCTGAAGGTCAGATCTGTTATGTATCTGCTCTCCATCAAAGTGAAGATGCC
66 CTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAGATGCC
* *
10606110 AAAATTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAT
131 AAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAA
*
10606175 CACGTAAAAGC
196 CACGTGAAAGC
* *
10606186 CAAATCAGCTACGTCTTCGATTTGTTCATTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTA
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTA
* *
10606251 CTTCAGTATAAACATCCGAAGG-CGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGC
66 CTTCAGTATAAACATCTGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAGATGC
* * *
10606315 CAAACTTCGATTCGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGTTTCATCATAA
130 CAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAA
*
10606380 TCACGTGAAAGC
195 ACACGTGAAAGC
* *
10606392 CAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTA
* * **
10606457 CTTCAGTATAAACATCTGAAGGTCAGATCTGCCATGTATCGGCTCTCCATTGAAGTGAAGATGCC
66 CTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAGATGCC
* * *
10606522 AGACTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAA
131 AAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAA
*
10606587 TACGTGAAAGC
196 CACGTGAAAGC
*
10606598 CAAATCAGCCATGTCTTCGAT
1 CAAATCAGCTATGTCTTCGAT
10606619 CTGCTCCCCG
Statistics
Matches: 587, Mismatches: 49, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
205 2 0.00
206 584 0.99
207 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (206 bp):
CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTA
CTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAGATGCC
AAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAA
CACGTGAAAGC
Found at i:10614669 original size:13 final size:15
Alignment explanation
Indices: 10614639--10614669 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10614629 TTCTAGATTT
10614639 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
10614654 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
10614669 T
1 T
10614670 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:10614755 original size:15 final size:14
Alignment explanation
Indices: 10614713--10614762 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
10614703 ATAACTTTGA
*
10614713 ATGCAAATGATGTG
1 ATGCAAATGATGAG
10614727 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
10614742 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
10614756 ATGCAAA
1 ATGCAAA
10614763 AAGAATGTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:10621250 original size:19 final size:18
Alignment explanation
Indices: 10621226--10621269 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
10621216 AGCAACAGAC
*
10621226 AAACAAACAACAAGCAAAA
1 AAACAAAAAACAAGC-AAA
* *
10621245 AAACAAAAAAGAAGCAGA
1 AAACAAAAAACAAGCAAA
10621263 AAACAAA
1 AAACAAA
10621270 GAGCAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.75, C:0.16, G:0.09, T:0.00
Consensus pattern (18 bp):
AAACAAAAAACAAGCAAA
Found at i:10623837 original size:13 final size:14
Alignment explanation
Indices: 10623821--10623856 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
10623811 CAATCTCATA
10623821 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
10623834 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
10623847 TCTC-ATTTCA
1 TCTCAATTTCA
10623857 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:10623846 original size:18 final size:19
Alignment explanation
Indices: 10623808--10623848 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
10623798 TGGTTCATGT
10623808 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
10623827 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
10623845 TTTC
1 TTTC
10623849 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:10624038 original size:39 final size:38
Alignment explanation
Indices: 10623971--10624105 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
10623961 ACCAATATGG
* * *
10623971 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
10624010 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
10624048 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
10624089 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
10624106 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:10624371 original size:18 final size:19
Alignment explanation
Indices: 10624345--10624383 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
10624335 TTTCAATTCA
10624345 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
10624364 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
10624382 AT
1 AT
10624384 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:10627501 original size:6 final size:6
Alignment explanation
Indices: 10627489--10627524 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
10627479 CCATTACTTC
* *
10627489 ATTTTT TTTTTT TTTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
10627525 TTGCATCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (6 bp):
ATTTTT
Found at i:10630255 original size:13 final size:14
Alignment explanation
Indices: 10630239--10630274 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
10630229 CAATCTCATA
10630239 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
10630252 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
10630265 TCTC-ATTTCA
1 TCTCAATTTCA
10630275 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:10630264 original size:18 final size:19
Alignment explanation
Indices: 10630226--10630266 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
10630216 TGGTTCATGT
10630226 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
10630245 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
10630263 TTTC
1 TTTC
10630267 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:10630456 original size:39 final size:38
Alignment explanation
Indices: 10630389--10630523 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
10630379 ACCAATATGG
* * *
10630389 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
10630428 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
10630466 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
10630507 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
10630524 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:10630794 original size:18 final size:19
Alignment explanation
Indices: 10630768--10630806 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
10630758 TTTCAATTCA
10630768 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
10630787 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
10630805 AT
1 AT
10630807 ATCTTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:10632134 original size:15 final size:15
Alignment explanation
Indices: 10632114--10632155 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10632104 TTTCTTTACT
10632114 TATATATATATATAA
1 TATATATATATATAA
10632129 TATATATA-ATAATAA
1 TATATATATAT-ATAA
*
10632144 TTTA-ATATATAT
1 TATATATATATAT
10632156 TTTAACACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATATATATATAA
Found at i:10633900 original size:1 final size:1
Alignment explanation
Indices: 10633894--10633918 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10633884 CATTACTTCA
10633894 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
10633919 ACATCAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10636627 original size:13 final size:14
Alignment explanation
Indices: 10636611--10636646 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
10636601 CAATCTCATA
10636611 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
10636624 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
10636637 TCTC-ATTTCA
1 TCTCAATTTCA
10636647 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:10636636 original size:18 final size:19
Alignment explanation
Indices: 10636598--10636638 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
10636588 TGGTTCATGT
10636598 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
10636617 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
10636635 TTTC
1 TTTC
10636639 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:10637160 original size:18 final size:19
Alignment explanation
Indices: 10637134--10637172 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
10637124 TTTCAATTCA
10637134 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
10637153 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
10637171 AT
1 AT
10637173 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:10638508 original size:13 final size:14
Alignment explanation
Indices: 10638484--10638520 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
10638474 TTACTTATTT
10638484 ATATATATAATATA
1 ATATATATAATATA
10638498 ATATA-ATAATATA
1 ATATATATAATATA
10638511 ATAATATATA
1 AT-ATATATA
10638521 TTTTAACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.48
14 8 0.38
15 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATAATATA
Found at i:10640271 original size:1 final size:1
Alignment explanation
Indices: 10640265--10640299 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
10640255 CCATTACTTC
* *
10640265 TTTTTTTATTTTTTTTTTTTTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10640300 GCATCAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.06, C:0.00, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:10643018 original size:13 final size:14
Alignment explanation
Indices: 10643002--10643037 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
10642992 CAATCTCATA
10643002 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
10643015 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
10643028 TCTC-ATTTCA
1 TCTCAATTTCA
10643038 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:10643027 original size:18 final size:19
Alignment explanation
Indices: 10642989--10643029 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
10642979 TGGTTCATGT
10642989 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
10643008 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
10643026 TTTC
1 TTTC
10643030 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:10643219 original size:39 final size:38
Alignment explanation
Indices: 10643152--10643286 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
10643142 ACCAATATGG
* * *
10643152 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
10643191 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
10643229 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
10643270 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
10643287 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:10643552 original size:18 final size:19
Alignment explanation
Indices: 10643526--10643564 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
10643516 TTTCAATTCA
10643526 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
10643545 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
10643563 AT
1 AT
10643565 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:10646162 original size:20 final size:21
Alignment explanation
Indices: 10646128--10646174 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
10646118 AAAACCTAAG
10646128 TTTTTATAGGAAAATATTGGA
1 TTTTTATAGGAAAATATTGGA
* * *
10646149 TTTTTATA-GCAAATGTTGGC
1 TTTTTATAGGAAAATATTGGA
10646169 TTTTTA
1 TTTTTA
10646175 CAAGGATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (21 bp):
TTTTTATAGGAAAATATTGGA
Found at i:10650445 original size:3 final size:3
Alignment explanation
Indices: 10650425--10650470 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
10650415 TCTACCTCTA
* *
10650425 CTT CTT GCTT CCT CTT CTT CTT TTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
10650471 TTTTGAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:10655143 original size:16 final size:16
Alignment explanation
Indices: 10655122--10655157 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10655112 AATCCTTAAC
*
10655122 AATCTTCAAATCCCTA
1 AATCTTCAAATACCTA
*
10655138 AATCTTGAAATACCTA
1 AATCTTCAAATACCTA
10655154 AATC
1 AATC
10655158 GTTAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:10656210 original size:33 final size:33
Alignment explanation
Indices: 10656173--10656252 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
10656163 TGATGAAGGA
*
10656173 GTAGAATCTGATGGTGAAGGTGATCTAGAAAAG
1 GTAGAATCTGATGGGGAAGGTGATCTAGAAAAG
* * * * *
10656206 GTAGAATCTGGTGGGGAGGGTGATGTAGGAGAG
1 GTAGAATCTGATGGGGAAGGTGATCTAGAAAAG
* *
10656239 GTACAAGCTGATGG
1 GTAGAATCTGATGG
10656253 AGAGGGTGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.30, C:0.06, G:0.41, T:0.23
Consensus pattern (33 bp):
GTAGAATCTGATGGGGAAGGTGATCTAGAAAAG
Found at i:10656438 original size:51 final size:51
Alignment explanation
Indices: 10656369--10656519 Score: 223
Period size: 51 Copynumber: 3.0 Consensus size: 51
10656359 GTTGCTGCAA
* *
10656369 ATGAATAT-TCTGGTGATTTTGTAACATCAGATGGGGTGGATAATGTTGCTG
1 ATGAATATGT-TGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
10656420 ATGAATATGTTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
1 ATGAATATGTTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* * * * *
10656471 GTGAATATGCTGGTGATTTTGCAACATCTGACGGACTGGATAATGTTGC
1 ATGAATATGTTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGC
10656520 CGCTACACAC
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 91 0.99
52 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.29, T:0.35
Consensus pattern (51 bp):
ATGAATATGTTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
Found at i:10658560 original size:14 final size:14
Alignment explanation
Indices: 10658541--10658570 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10658531 AAATATTAAG
10658541 TAAATTTTTTACTT
1 TAAATTTTTTACTT
*
10658555 TAAATTTTTTATTT
1 TAAATTTTTTACTT
10658569 TA
1 TA
10658571 TTTTGTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TAAATTTTTTACTT
Found at i:10659348 original size:22 final size:22
Alignment explanation
Indices: 10659323--10659367 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
10659313 TCATATGCTT
* *
10659323 TTGTAAAGTACATTTATCGAAA
1 TTGTAAAGTACAATTATCCAAA
10659345 TTGTAAAGTACAATTATCCAAA
1 TTGTAAAGTACAATTATCCAAA
10659367 T
1 T
10659368 CATATGCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (22 bp):
TTGTAAAGTACAATTATCCAAA
Found at i:10659770 original size:12 final size:12
Alignment explanation
Indices: 10659755--10659779 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10659745 CCTCAATGTC
10659755 AACAGCTCTACT
1 AACAGCTCTACT
10659767 AACAGCTCTACT
1 AACAGCTCTACT
10659779 A
1 A
10659780 CCACCATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (12 bp):
AACAGCTCTACT
Found at i:10663198 original size:13 final size:13
Alignment explanation
Indices: 10663137--10663201 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
10663127 TTATATCCAT
10663137 ACATTTCATATAA
1 ACATTTCATATAA
*
10663150 ACACTTCATAT-A
1 ACATTTCATATAA
*
10663162 ACTATTTCTATATAG
1 AC-ATTTC-ATATAA
* **
10663177 CCAAATCATATAA
1 ACATTTCATATAA
10663190 ACATTTCATATA
1 ACATTTCATATA
10663202 TTTATTTCCA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
12 3 0.08
13 28 0.72
14 7 0.18
15 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (13 bp):
ACATTTCATATAA
Found at i:10663208 original size:40 final size:40
Alignment explanation
Indices: 10663141--10663309 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
10663131 ATCCATACAT
* * * **
10663141 TTCATATAAACACTTCATATAACTATTTCTATATAGCCAA
1 TTCATATAAACATTTCATATATCTATTTCCATATAATCAA
* * *
10663181 ATCATATAAACATTTCATATATTTATTTCCATACAATCAA
1 TTCATATAAACATTTCATATATCTATTTCCATATAATCAA
* * *
10663221 TTCACATAACCATTCCATATATCTATTTCCATATAATCAA
1 TTCATATAAACATTTCATATATCTATTTCCATATAATCAA
* ** * * **
10663261 TTCATATAACCATTTTGTATATATGTTTAAATATAATCAA
1 TTCATATAAACATTTCATATATCTATTTCCATATAATCAA
10663301 TTCATATAA
1 TTCATATAA
10663310 CAATTTGAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (40 bp):
TTCATATAAACATTTCATATATCTATTTCCATATAATCAA
Found at i:10663275 original size:27 final size:26
Alignment explanation
Indices: 10663138--10663275 Score: 80
Period size: 27 Copynumber: 5.2 Consensus size: 26
10663128 TATATCCATA
* *
10663138 CATTTCATATAAACACTTCATATAAC
1 CATTTCATATAATCAATTCATATAAC
* ** * *
10663164 TATTTCTATATAGCCAAATCATATAAA
1 CATTTC-ATATAATCAATTCATATAAC
* * * * *
10663191 CATTTCATATATTTATTTCCATACAAT
1 CATTTCATATAATCAATT-CATATAAC
* * * *
10663218 CAATTCACATAA-CCATTCCATATATC
1 CATTTCATATAATCAATT-CATATAAC
*
10663244 TATTTCCATATAATCAATTCATATAAC
1 CATTT-CATATAATCAATTCATATAAC
10663271 CATTT
1 CATTT
10663276 TGTATATATG
Statistics
Matches: 79, Mismatches: 29, Indels: 7
0.69 0.25 0.06
Matches are distributed among these distances:
26 23 0.29
27 52 0.66
28 4 0.05
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (26 bp):
CATTTCATATAATCAATTCATATAAC
Found at i:10664557 original size:21 final size:22
Alignment explanation
Indices: 10664532--10664583 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
10664522 TTTAAATTAC
*
10664532 TTATTAATTATTTAATAT-TTT
1 TTATTAATTATTTAACATGTTT
*
10664553 TTATTACA-AATTTAACATGTTT
1 TTATTA-ATTATTTAACATGTTT
10664575 TTA-TAATTA
1 TTATTAATTA
10664584 AAATCAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
TTATTAATTATTTAACATGTTT
Found at i:10666933 original size:12 final size:12
Alignment explanation
Indices: 10666918--10666947 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10666908 ATTAATTAAA
10666918 TAAATTAGAAAT
1 TAAATTAGAAAT
*
10666930 TAAATTGGAAAT
1 TAAATTAGAAAT
10666942 TAAATT
1 TAAATT
10666948 CAAATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:10672899 original size:14 final size:14
Alignment explanation
Indices: 10672880--10672907 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10672870 ATTTAATTAT
10672880 TTTATAATGAAAGC
1 TTTATAATGAAAGC
10672894 TTTATAATGAAAGC
1 TTTATAATGAAAGC
10672908 ACAAAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
TTTATAATGAAAGC
Found at i:10674718 original size:17 final size:18
Alignment explanation
Indices: 10674696--10674737 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
10674686 ATATTATAAA
10674696 ATTTTTATA-CATTTTT-T
1 ATTTTT-TACCATTTTTAT
10674713 ATTTTTTACCATTTTTAT
1 ATTTTTTACCATTTTTAT
10674731 ATTTTTT
1 ATTTTTT
10674738 TAACAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 13 0.57
18 8 0.35
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTACCATTTTTAT
Found at i:10674720 original size:18 final size:18
Alignment explanation
Indices: 10674697--10674748 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
10674687 TATTATAAAA
10674697 TTTTTATACATTTTT-TAT
1 TTTTTA-ACATTTTTATAT
*
10674715 TTTTTACCATTTTTATATT
1 TTTTTAACATTTTTATA-T
10674734 TTTTTAACAATTTTT
1 TTTTTAAC-ATTTTT
10674749 TTTAATTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 7 0.24
18 8 0.28
19 8 0.28
20 6 0.21
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTAACATTTTTATAT
Found at i:10692496 original size:16 final size:16
Alignment explanation
Indices: 10692475--10692505 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10692465 CTAAAAAAGC
10692475 AATATATTATATAAAA
1 AATATATTATATAAAA
*
10692491 AATATATTTTATAAA
1 AATATATTATATAAA
10692506 GTTAAAATAC
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATATTATATAAAA
Found at i:10692822 original size:63 final size:63
Alignment explanation
Indices: 10692719--10692859 Score: 194
Period size: 63 Copynumber: 2.3 Consensus size: 63
10692709 TCACAATACG
* * * * * *
10692719 CACACGAAAT-ATTCCCCACATCAACACCTTCAGCTCCAGTTTATTTTACACAAGCATCACAT
1 CACACGCAATCATTCCCCACATCAACACATTCAACACCAGTTTATTTTACACAAGCACCACAA
* * *
10692781 CACACGCAATCATTCTCTACATCAACACATTCAACACCAGTTTATTTTCCACAAGCACCACAA
1 CACACGCAATCATTCCCCACATCAACACATTCAACACCAGTTTATTTTACACAAGCACCACAA
10692844 CACACGCAATCATTCC
1 CACACGCAATCATTCC
10692860 ATGTATCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
62 9 0.13
63 59 0.87
ACGTcount: A:0.35, C:0.35, G:0.06, T:0.24
Consensus pattern (63 bp):
CACACGCAATCATTCCCCACATCAACACATTCAACACCAGTTTATTTTACACAAGCACCACAA
Found at i:10698046 original size:25 final size:25
Alignment explanation
Indices: 10697972--10698046 Score: 59
Period size: 25 Copynumber: 3.1 Consensus size: 25
10697962 GCCACAATAT
* *
10697972 ATATATACACTTTCACGTTCATCAC
1 ATATATACACATTCACATTCATCAC
* * * *
10697997 AT-TA-GC-CATTCGGCCTT-ATCTC
1 ATATATACACATTC-ACATTCATCAC
10698019 ATATATACACATTCACATTCATCAC
1 ATATATACACATTCACATTCATCAC
10698044 ATA
1 ATA
10698047 AAATTCTAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
22 10 0.28
23 6 0.17
24 6 0.17
25 14 0.39
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATACACATTCACATTCATCAC
Found at i:10705745 original size:26 final size:26
Alignment explanation
Indices: 10705715--10705766 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
10705705 AATACTAAGA
* *
10705715 TAAATATTATTTATCTTAATGATAAT
1 TAAATAATATTTATATTAATGATAAT
*
10705741 TAAATAATATTTATATTTATGATAAT
1 TAAATAATATTTATATTAATGATAAT
10705767 ACTATTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (26 bp):
TAAATAATATTTATATTAATGATAAT
Found at i:10706865 original size:16 final size:16
Alignment explanation
Indices: 10706844--10706875 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10706834 TATTTTCTTC
10706844 CATTTACTTTCAAATA
1 CATTTACTTTCAAATA
10706860 CATTTACTTTCAAATA
1 CATTTACTTTCAAATA
10706876 GCACATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
CATTTACTTTCAAATA
Found at i:10707730 original size:9 final size:9
Alignment explanation
Indices: 10707716--10707822 Score: 69
Period size: 10 Copynumber: 11.4 Consensus size: 9
10707706 CATGTAATAA
10707716 AAAAATTAT
1 AAAAATTAT
10707725 -AAAA--AT
1 AAAAATTAT
*
10707731 AAAAATCAAT
1 AAAAAT-TAT
*
10707741 AAAAGTTAT
1 AAAAATTAT
10707750 AAAAATTATT
1 AAAAATTA-T
*
10707760 AAAATTTAAT
1 AAAAATT-AT
10707770 AAAAA-TATT
1 AAAAATTA-T
10707779 AAAAATTATT
1 AAAAATTA-T
*
10707789 AAAAATTTGT
1 AAAAA-TTAT
*
10707799 AAAAATCATAA
1 AAAAAT--TAT
10707810 AAAAATTAT
1 AAAAATTAT
10707819 AAAA
1 AAAA
10707823 TGCATCAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
6 2 0.03
7 4 0.05
8 5 0.06
9 23 0.29
10 34 0.44
11 10 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:10707741 original size:10 final size:10
Alignment explanation
Indices: 10707728--10707822 Score: 72
Period size: 10 Copynumber: 9.7 Consensus size: 10
10707718 AAATTATAAA
*
10707728 AATAAAAATC
1 AATAAAAATT
*
10707738 AATAAAAGTT
1 AATAAAAATT
10707748 -ATAAAAATT
1 AATAAAAATT
* *
10707757 ATTAAAATTT
1 AATAAAAATT
10707767 AATAAAAA-T
1 AATAAAAATT
*
10707776 ATTAAAAATT
1 AATAAAAATT
*
10707786 ATTAAAAATT
1 AATAAAAATT
**
10707796 TGTAAAAATCAT
1 AATAAAAAT--T
10707808 AA-AAAAATT
1 AATAAAAATT
10707817 -ATAAAA
1 AATAAAA
10707823 TGCATCAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
8 1 0.01
9 21 0.31
10 39 0.57
11 6 0.09
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
AATAAAAATT
Found at i:10707753 original size:19 final size:18
Alignment explanation
Indices: 10707712--10707823 Score: 84
Period size: 19 Copynumber: 5.9 Consensus size: 18
10707702 GTCACATGTA
*
10707712 ATAAAAAAATTATAAAA--
1 ATAAAAATATTA-AAAATT
* *
10707729 ATAAAAATCAATAAAAGTT
1 ATAAAAAT-ATTAAAAATT
*
10707748 ATAAAAATTATTAAAATTT
1 ATAAAAA-TATTAAAAATT
10707767 AATAAAAATATTAAAAATT
1 -ATAAAAATATTAAAAATT
* *
10707786 ATTAAAAATTTGTAAAAATC
1 A-TAAAAATAT-TAAAAATT
*
10707806 ATAAAAAAATTATAAAAT
1 ATAAAAATATTA-AAAAT
10707824 GCATCAAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
17 10 0.13
18 6 0.08
19 45 0.58
20 16 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
ATAAAAATATTAAAAATT
Found at i:10707801 original size:29 final size:32
Alignment explanation
Indices: 10707747--10707822 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 32
10707737 CAATAAAAGT
10707747 TATAAAAATTATT-AAAATTTAATAAAAAT-A
1 TATAAAAATTATTAAAAATTTAATAAAAATCA
*
10707777 T-TAAAAATTATTAAAAATTT-GTAAAAATCA
1 TATAAAAATTATTAAAAATTTAATAAAAATCA
*
10707807 TAAAAAAATTA-TAAAA
1 TATAAAAATTATTAAAA
10707823 TGCATCAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 18 0.44
30 15 0.37
31 8 0.20
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (32 bp):
TATAAAAATTATTAAAAATTTAATAAAAATCA
Found at i:10708058 original size:19 final size:17
Alignment explanation
Indices: 10708008--10708065 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 17
10707998 TGGTATGATA
10708008 ATTTTTATAATTATTTTAC
1 ATTTTTAT-ATT-TTTTAC
*
10708027 GTATTTTATATTTCTTTAC
1 AT-TTTTATATTT-TTTAC
10708046 ATTTTTATCATTTTCTTAC
1 ATTTTTAT-ATTTT-TTAC
10708065 A
1 A
10708066 ACTTTATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 8 0.24
19 19 0.58
20 6 0.18
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTTTTATATTTTTTAC
Found at i:10708062 original size:20 final size:19
Alignment explanation
Indices: 10708008--10708062 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
10707998 TGGTATGATA
*
10708008 ATTTTTATAATTAT-TTTAC
1 ATTTTTAT-ATTTTCTTTAC
*
10708027 GTATTTTATA-TTTCTTTAC
1 AT-TTTTATATTTTCTTTAC
10708046 ATTTTTATCATTTTCTT
1 ATTTTTAT-ATTTTCTT
10708063 ACAACTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 12 0.41
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTTATATTTTCTTTAC
Found at i:10717177 original size:16 final size:16
Alignment explanation
Indices: 10717156--10717194 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10717146 CATTCTTTAA
10717156 TTTAATTCGGTAATTT
1 TTTAATTCGGTAATTT
***
10717172 TTTAATTTTTTAATTT
1 TTTAATTCGGTAATTT
10717188 TTTAATT
1 TTTAATT
10717195 TTTTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTAATTCGGTAATTT
Found at i:10717189 original size:9 final size:8
Alignment explanation
Indices: 10717166--10717205 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
10717156 TTTAATTCGG
10717166 TAATTTTT
1 TAATTTTT
10717174 TAATTTTT
1 TAATTTTT
10717182 TAATTTTT
1 TAATTTTT
10717190 TAATTTTT
1 TAATTTTT
*
10717198 TAAATTTT
1 TAATTTTT
10717206 AGTCCTCACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TAATTTTT
Found at i:10721211 original size:17 final size:19
Alignment explanation
Indices: 10721189--10721227 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
10721179 CATACCTCCT
10721189 AAAGGACAAA-AAAAA-AA
1 AAAGGACAAAGAAAAATAA
*
10721206 AAAGGATAAAGAAAAATAA
1 AAAGGACAAAGAAAAATAA
10721225 AAA
1 AAA
10721228 ACAGATGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 5 0.26
19 5 0.26
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (19 bp):
AAAGGACAAAGAAAAATAA
Found at i:10723676 original size:6 final size:7
Alignment explanation
Indices: 10723661--10723686 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10723651 TGATAAATAT
10723661 AAATTAA
1 AAATTAA
10723668 AAATTAA
1 AAATTAA
10723675 AAATTAA
1 AAATTAA
10723682 AAATT
1 AAATT
10723687 TTATATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATTAA
Found at i:10724091 original size:17 final size:17
Alignment explanation
Indices: 10724064--10724105 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 17
10724054 AAAAATCAAA
10724064 TAAAAAGAAAAAGAAAAACT
1 TAAAAA-AAAAAG-AAAA-T
10724084 TAAAAAAAAAAGAAAAT
1 TAAAAAAAAAAGAAAAT
10724101 TAAAA
1 TAAAA
10724106 GACTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
19 6 0.27
20 6 0.27
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (17 bp):
TAAAAAAAAAAGAAAAT
Found at i:10727799 original size:38 final size:41
Alignment explanation
Indices: 10727745--10727915 Score: 181
Period size: 46 Copynumber: 4.0 Consensus size: 41
10727735 TCTGATATGA
10727745 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-TG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
10727785 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----ATG
*
10727828 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-CGTG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
* *
10727869 ATATGAAATGAACAAGACCATGGTTGAAAGATACAATGGCAA-CATG
1 A-ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAACCATG
10727915 A
1 A
10727916 CAGAAAATGA
Statistics
Matches: 113, Mismatches: 4, Indels: 22
0.81 0.03 0.16
Matches are distributed among these distances:
38 35 0.31
39 1 0.01
40 1 0.01
41 5 0.04
43 2 0.02
44 2 0.02
45 2 0.02
46 65 0.58
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (41 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
Found at i:10727853 original size:46 final size:46
Alignment explanation
Indices: 10727788--10727960 Score: 231
Period size: 46 Copynumber: 3.8 Consensus size: 46
10727778 CAACCTGAGT
* *
10727788 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
*
10727834 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
** * *
10727880 ACAAGACCATGGTTGAAAGATACAATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGA
* * * *
10727926 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
10727961 TCTAAGATGA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 112 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
Found at i:10737994 original size:24 final size:24
Alignment explanation
Indices: 10737964--10738042 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
10737954 TTTTTAAATA
10737964 TTTATAAAAATATTTATGGTTCAT
1 TTTATAAAAATATTTATGGTTCAT
* * ** * *
10737988 TTTATAACACTGAGATATCGAT-ACT
1 TTTATAAAAAT-ATTTATGGTTCA-T
10738013 TTT-TAAAAATATTTATGGTTCAT
1 TTTATAAAAATATTTATGGTTCAT
10738036 TTTATAA
1 TTTATAA
10738043 CACCGAGATA
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
23 10 0.26
24 19 0.49
25 10 0.26
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (24 bp):
TTTATAAAAATATTTATGGTTCAT
Found at i:10738039 original size:48 final size:48
Alignment explanation
Indices: 10737968--10738064 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
10737958 TAAATATTTA
*
10737968 TAAAAATATTTATGGTTCATTTTATAACACTGAGATATCGATACTTTT
1 TAAAAATATTTATGGTTCATTTTATAACACCGAGATATCGATACTTTT
10738016 TAAAAATATTTATGGTTCATTTTATAACACCGAGATATCGATACTTTT
1 TAAAAATATTTATGGTTCATTTTATAACACCGAGATATCGATACTTTT
10738064 T
1 T
10738065 TTCTTAATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.43
Consensus pattern (48 bp):
TAAAAATATTTATGGTTCATTTTATAACACCGAGATATCGATACTTTT
Found at i:10739657 original size:32 final size:31
Alignment explanation
Indices: 10739602--10739673 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
10739592 TCACCTTACA
* * *
10739602 AATTTATAGCAAACGGTCTATTTCGGTATTT
1 AATTTGTAGCAAACGGTCTATTTCAGTAATT
*
10739633 AATATTGTAGCAAACGAT-TCATTTCAGTAATT
1 AAT-TTGTAGCAAACGGTCT-ATTTCAGTAATT
10739665 AATTTGTAG
1 AATTTGTAG
10739674 GGTGACCCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 10 0.29
32 25 0.71
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (31 bp):
AATTTGTAGCAAACGGTCTATTTCAGTAATT
Found at i:10740209 original size:125 final size:125
Alignment explanation
Indices: 10740071--10740302 Score: 320
Period size: 125 Copynumber: 1.9 Consensus size: 125
10740061 AAGCTTAATT
* * *
10740071 TATTGCTGCCTCCTATAAACCTTAAACCACAAAACATAACAAAAATATTAGTTATAACACCACAA
1 TATTGCTGCCTCCTATAAACCCTAAACCACAAAACATAACAAAAACATTACTTATAACACCACAA
* * * * *
10740136 AATAATCTTAAACCCTAAACAAATAAATGATAGTTATAAAAAGTTTACCAGACTCAAATA
66 AATAACCCTAAACCCTAAACAAATAAAAGATAATTAAAAAAAGTTTACCAGACTCAAATA
* * * * * *
10740196 TATTGCTGCCTCCTCTGAACCCTAAGCCACAAAATATAACAAAACCATTACTTGTAACACCACAA
1 TATTGCTGCCTCCTATAAACCCTAAACCACAAAACATAACAAAAACATTACTTATAACACCACAA
* *
10740261 AGTAACCCTAAATCCTAAACAAATAAAAGATAATTAAAAAAA
66 AATAACCCTAAACCCTAAACAAATAAAAGATAATTAAAAAAA
10740303 TTATCTTTGA
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
125 91 1.00
ACGTcount: A:0.48, C:0.22, G:0.06, T:0.24
Consensus pattern (125 bp):
TATTGCTGCCTCCTATAAACCCTAAACCACAAAACATAACAAAAACATTACTTATAACACCACAA
AATAACCCTAAACCCTAAACAAATAAAAGATAATTAAAAAAAGTTTACCAGACTCAAATA
Found at i:10741504 original size:22 final size:21
Alignment explanation
Indices: 10741479--10741521 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10741469 TAGTCACATA
10741479 ATAAATTATTAATATAATAAAT
1 ATAAATTATT-ATATAATAAAT
* *
10741501 ATAATTTATTATTTAATAAAT
1 ATAAATTATTATATAATAAAT
10741522 TATTTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAATTATTATATAATAAAT
Found at i:10742131 original size:14 final size:14
Alignment explanation
Indices: 10742112--10742150 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
10742102 CCAGAAAAGT
10742112 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
10742126 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
10742140 AAGTCATTTTC
1 AAATCATTTTC
10742151 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:10742484 original size:30 final size:30
Alignment explanation
Indices: 10742450--10742512 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
10742440 ACTTATTTTA
* *
10742450 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
*
10742480 TTGTTAATTTTCTTATTATTTTAGAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
10742510 TTG
1 TTG
10742513 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:10742651 original size:11 final size:11
Alignment explanation
Indices: 10742635--10742665 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10742625 TATATATATT
10742635 TAAAAATTATA
1 TAAAAATTATA
*
10742646 TAAAAATAATA
1 TAAAAATTATA
10742657 TAAAAATTA
1 TAAAAATTA
10742666 ATACAGGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:10742924 original size:17 final size:19
Alignment explanation
Indices: 10742902--10742940 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10742892 CATAATGATA
*
10742902 TATATAA-TATAT-TTTAT
1 TATATAATTACATATTTAT
10742919 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
10742938 TAT
1 TAT
10742941 TTTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:10742963 original size:28 final size:27
Alignment explanation
Indices: 10742911--10742967 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
10742901 ATATATAATA
* * *
10742911 TATTTTATTATATAATTACATATTTAT
1 TATTTTATTATATAAATAAAAATTTAT
10742938 TATTTTATTTATATAAATAAAAATTTAT
1 TATTTTA-TTATATAAATAAAAATTTAT
10742966 TA
1 TA
10742968 ATTAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
TATTTTATTATATAAATAAAAATTTAT
Found at i:10742982 original size:20 final size:19
Alignment explanation
Indices: 10742941--10743017 Score: 50
Period size: 20 Copynumber: 3.8 Consensus size: 19
10742931 TATTTATTAT
* *
10742941 TTTATTTATATAAATAAAAA
1 TTTATTAAT-TAAAAAAAAA
10742961 TTTATTAATTAAAAAAAGAA
1 TTTATTAATTAAAAAAA-AA
* *
10742981 -TTA-AAACTTGAAAATAATATA
1 TTTATTAA-TT-AAAA-AA-AAA
10743002 TTTATTAATTAAAAAA
1 TTTATTAATTAAAAAA
10743018 TTAAAACAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
18 2 0.04
19 12 0.27
20 16 0.36
21 7 0.16
22 6 0.13
23 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (19 bp):
TTTATTAATTAAAAAAAAA
Found at i:10743450 original size:25 final size:25
Alignment explanation
Indices: 10743399--10743471 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
10743389 TGAAATAAAT
* *
10743399 AATAAAAAGAGTAAAACATAA-GA-A
1 AATAAAAA-AGTAAAAGATAACAATA
10743423 AATAAAAAAGTAAAAGATAACAATA
1 AATAAAAAAGTAAAAGATAACAATA
* *
10743448 AATAGAAAAGAAAAAGATAACAAT
1 AATAAAAAAGTAAAAGATAACAAT
10743472 TTTTTATTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
23 11 0.26
24 9 0.21
25 23 0.53
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.14
Consensus pattern (25 bp):
AATAAAAAAGTAAAAGATAACAATA
Found at i:10746598 original size:20 final size:22
Alignment explanation
Indices: 10746573--10746615 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
10746563 TGCTATAAAT
*
10746573 TGAAAGTTTA-TAATAG-GAAA
1 TGAAAGGTTATTAATAGAGAAA
10746593 TGAAAGGTTATTAATAGAGAAA
1 TGAAAGGTTATTAATAGAGAAA
10746615 T
1 T
10746616 CACTTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.30
Consensus pattern (22 bp):
TGAAAGGTTATTAATAGAGAAA
Found at i:10747477 original size:33 final size:33
Alignment explanation
Indices: 10747304--10747476 Score: 152
Period size: 33 Copynumber: 5.3 Consensus size: 33
10747294 ATGGTACAAT
* *
10747304 TTGAAAAGGTTAGGTATACTTTGTGTATACCA-
1 TTGAAAAGGATAGGTACACTTTGTGTATACCAC
* *
10747336 TATGAAAAGGAAAGGTATACTTTGTGTATACCAC
1 T-TGAAAAGGATAGGTACACTTTGTGTATACCAC
* * * *
10747370 TTGAAAAGGAAAGGTACACTATATGTGTA-CAC
1 TTGAAAAGGATAGGTACACTTTGTGTATACCAC
* * * * * *
10747402 TTGAAAATGTTATGTGCACTTTGTGTATACAAA
1 TTGAAAAGGATAGGTACACTTTGTGTATACCAC
* * * * *
10747435 TTGAAAAGGGTATGTACACTTCGTGTGTACCAG
1 TTGAAAAGGATAGGTACACTTTGTGTATACCAC
10747468 TTGAAAAGG
1 TTGAAAAGG
10747477 GAGTGTGCAC
Statistics
Matches: 115, Mismatches: 23, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
32 25 0.22
33 89 0.77
34 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (33 bp):
TTGAAAAGGATAGGTACACTTTGTGTATACCAC
Found at i:10747496 original size:33 final size:33
Alignment explanation
Indices: 10747435--10747497 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
10747425 TGTATACAAA
* *
10747435 TTGAAAAGGGTATGTACACTTCGTGTGTACCAG
1 TTGAAAAGGGTATGTACACCTCGGGTGTACCAG
*
10747468 TTGAAAAGGG-AGTGTGCACCTCGGGTGTAC
1 TTGAAAAGGGTA-TGTACACCTCGGGTGTAC
10747498 AACTAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (33 bp):
TTGAAAAGGGTATGTACACCTCGGGTGTACCAG
Found at i:10761357 original size:17 final size:17
Alignment explanation
Indices: 10761330--10761363 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10761320 CTTAAAATAG
10761330 TAAAAACATTTTATAATT
1 TAAAAACATTTTA-AATT
10761348 TAAAAA-ATTTTAAATT
1 TAAAAACATTTTAAATT
10761364 AATAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAAACATTTTAAATT
Found at i:10773107 original size:21 final size:21
Alignment explanation
Indices: 10773083--10773212 Score: 65
Period size: 21 Copynumber: 6.3 Consensus size: 21
10773073 ATGTTTTACT
*
10773083 TTCTGTTTATCTTTTTCGAGC
1 TTCTGTTTAACTTTTTCGAGC
* *
10773104 TTCTGTTCT-ACTCTTAT-GAGT
1 TTCTGTT-TAACT-TTTTCGAGC
* * * *
10773125 TTTTATTTAGCTCTTTCGAGC
1 TTCTGTTTAACTTTTTCGAGC
* * *
10773146 TTCTGTTCAACTCTTAT-GAGT
1 TTCTGTTTAACT-TTTTCGAGC
* **
10773167 TTCTGTTTAGC-CCTTCGAGC
1 TTCTGTTTAACTTTTTCGAGC
*
10773187 TTCTATTTAAC--TTTCGAGC
1 TTCTGTTTAACTTTTTCGAGC
10773206 TTCTGTT
1 TTCTGTT
10773213 GGTATATTTG
Statistics
Matches: 77, Mismatches: 26, Indels: 14
0.66 0.22 0.12
Matches are distributed among these distances:
19 14 0.18
20 15 0.19
21 42 0.55
22 6 0.08
ACGTcount: A:0.14, C:0.21, G:0.15, T:0.51
Consensus pattern (21 bp):
TTCTGTTTAACTTTTTCGAGC
Found at i:10773143 original size:42 final size:41
Alignment explanation
Indices: 10773096--10773190 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 41
10773086 TGTTTATCTT
* *
10773096 TTTCGAGCTTCTGTTCTACTCTTATGAGTTTTTATTTAGCTC
1 TTTCGAGCTTCTGTTCAACTCTTATGAGTTTCTATTTAGC-C
*
10773138 TTTCGAGCTTCTGTTCAACTCTTATGAGTTTCTGTTTAGCC
1 TTTCGAGCTTCTGTTCAACTCTTATGAGTTTCTATTTAGCC
*
10773179 CTTCGAGCTTCT
1 TTTCGAGCTTCT
10773191 ATTTAACTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 12 0.24
42 37 0.76
ACGTcount: A:0.14, C:0.22, G:0.16, T:0.48
Consensus pattern (41 bp):
TTTCGAGCTTCTGTTCAACTCTTATGAGTTTCTATTTAGCC
Found at i:10777643 original size:102 final size:102
Alignment explanation
Indices: 10777523--10777730 Score: 371
Period size: 102 Copynumber: 2.0 Consensus size: 102
10777513 TTAAATGTAA
* *
10777523 ATTTTATATGTTAGATATGTCACGATTACACAATATAAATACAACATGAAAAAAACATACACGCA
1 ATTTTATATGTTAAATATGTCACGATTACACAATATAAACACAACATGAAAAAAACATACACGCA
*
10777588 ACATGAATATATTATTCATATTTAAGTTGGAAGCATG
66 ACATGAATACATTATTCATATTTAAGTTGGAAGCATG
*
10777625 ATTTTATATGTTAAATATGTCACGATTACACAATATAAACATAACATGAAAAAAACATACACGCA
1 ATTTTATATGTTAAATATGTCACGATTACACAATATAAACACAACATGAAAAAAACATACACGCA
*
10777690 ACATGAATACATTATTCATATTTAAGTTGGAAGTATG
66 ACATGAATACATTATTCATATTTAAGTTGGAAGCATG
10777727 ATTT
1 ATTT
10777731 AATTATTAGT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.32
Consensus pattern (102 bp):
ATTTTATATGTTAAATATGTCACGATTACACAATATAAACACAACATGAAAAAAACATACACGCA
ACATGAATACATTATTCATATTTAAGTTGGAAGCATG
Found at i:10780869 original size:22 final size:21
Alignment explanation
Indices: 10780844--10780909 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 21
10780834 ACAAAAGGTG
10780844 ACTTAGAAATTAATTTAATTTT
1 ACTTAGAAATTAA-TTAATTTT
10780866 ACTTAGAAATTAAATTAATTTT
1 ACTTAGAAATT-AATTAATTTT
10780888 A-TT-GAATTATTAATTAATTTT
1 ACTTAGAA--ATTAATTAATTTT
10780909 A
1 A
10780910 ATTATAGAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.07
21 13 0.32
22 23 0.56
23 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
ACTTAGAAATTAATTAATTTT
Found at i:10784975 original size:58 final size:58
Alignment explanation
Indices: 10784885--10785023 Score: 235
Period size: 58 Copynumber: 2.4 Consensus size: 58
10784875 TTTGAAGGTA
10784885 AAAAGGATCTAGCCCAGATGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTG
1 AAAAGGATCTAGCCCAGATGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTG
*
10784943 AAAAGGATCTAGCCCAGATGGGTGATCTTGATATAAGCCCTCCCGAAGAATATGTGTG
1 AAAAGGATCTAGCCCAGATGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTG
* *
10785001 AAATA-GATTTAGCCCAGACGGGT
1 AAA-AGGATCTAGCCCAGATGGGT
10785024 AATTCAAAGT
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
58 76 0.99
59 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (58 bp):
AAAAGGATCTAGCCCAGATGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTGTG
Found at i:10787775 original size:70 final size:71
Alignment explanation
Indices: 10787691--10787853 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
10787681 CGATTTGTCT
10787691 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10787755 CTTTCA
66 CTTTCA
10787761 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10787826 CTTTCA
66 CTTTCA
10787832 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
10787854 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:10787891 original size:71 final size:70
Alignment explanation
Indices: 10787691--10787887 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
10787681 CGATTTGTCT
* * * *
10787691 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
10787755 CTTTCA
65 CTTTCA
* * * *
10787761 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
10787826 CTTTCA
65 CTTTCA
* *
10787832 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
10787888 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 53 0.45
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:10790614 original size:71 final size:71
Alignment explanation
Indices: 10790499--10790661 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
10790489 CGATTTGTCT
10790499 CGTAGCTCTC-TGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10790563 CTTTCA
66 CTTTCA
10790569 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10790634 CTTTCA
66 CTTTCA
10790640 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
10790662 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 10 0.11
71 82 0.89
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:10790699 original size:71 final size:70
Alignment explanation
Indices: 10790499--10790695 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
10790489 CGATTTGTCT
* * * *
10790499 CGTAGCTCTC-TGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
10790563 CTTTCA
65 CTTTCA
* * * *
10790569 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
10790634 CTTTCA
65 CTTTCA
* *
10790640 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
10790696 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 11 0.09
71 85 0.71
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:10798160 original size:71 final size:71
Alignment explanation
Indices: 10798076--10798239 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
10798066 CGATTTGTCT
10798076 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10798141 CTTTCA
66 CTTTCA
10798147 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10798212 CTTTCA
66 CTTTCA
10798218 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
10798240 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:10798277 original size:71 final size:70
Alignment explanation
Indices: 10798076--10798273 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
10798066 CGATTTGTCT
* * * *
10798076 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
10798141 CTTTCA
65 CTTTCA
* * * *
10798147 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
10798212 CTTTCA
65 CTTTCA
* *
10798218 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
10798274 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:10804093 original size:10 final size:10
Alignment explanation
Indices: 10804078--10804114 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
10804068 ATTTTGATTA
10804078 TTTATCTTAT
1 TTTATCTTAT
10804088 TTTATCTTAT
1 TTTATCTTAT
*
10804098 TTTATTTTAT
1 TTTATCTTAT
10804108 TTT-TCTT
1 TTTATCTT
10804115 TTATTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 3 0.12
10 22 0.88
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATCTTAT
Found at i:10804102 original size:15 final size:14
Alignment explanation
Indices: 10804075--10804114 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
10804065 AAAATTTTGA
10804075 TTATTTATCTTATT
1 TTATTTATCTTATT
*
10804089 TTATCTTATTTTATT
1 TTAT-TTATCTTATT
*
10804104 TTATTTTTCTT
1 TTATTTATCTT
10804115 TTATTAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (14 bp):
TTATTTATCTTATT
Found at i:10807891 original size:37 final size:37
Alignment explanation
Indices: 10807841--10807914 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
10807831 TACAAATCGT
*
10807841 AATTCTCGGATTACTCTTTGTCAACCTTCTTTTTTCC
1 AATTCTCGGATTACTCTTCGTCAACCTTCTTTTTTCC
10807878 AATTCTCGGATTACTCTTCGTCAACCTTCTTTTTTCC
1 AATTCTCGGATTACTCTTCGTCAACCTTCTTTTTTCC
10807915 TTTCTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.16, C:0.28, G:0.08, T:0.47
Consensus pattern (37 bp):
AATTCTCGGATTACTCTTCGTCAACCTTCTTTTTTCC
Found at i:10808558 original size:23 final size:24
Alignment explanation
Indices: 10808506--10808559 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
10808496 TTTCTTTTAC
* * *
10808506 TTATT-TTATGTTTTATTATATTA
1 TTATTATTATATTTTAGTATATAA
10808529 TTA-TATTATATTTTAGTA-ATAA
1 TTATTATTATATTTTAGTATATAA
10808551 TTATTATTA
1 TTATTATTA
10808560 ACTTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
TTATTATTATATTTTAGTATATAA
Found at i:10809219 original size:2 final size:2
Alignment explanation
Indices: 10809212--10809237 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10809202 ATAAACCATA
10809212 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10809238 TTTTTATCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10813441 original size:16 final size:16
Alignment explanation
Indices: 10813383--10813443 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
10813373 GTTTGCAATA
* *
10813383 ACATGAGTTCGCATTT
1 ACATGGGTTCGCATAT
*
10813399 ATCATGGGTTCACATAT
1 A-CATGGGTTCGCATAT
*
10813416 AACATGGGTTCGCATGT
1 -ACATGGGTTCGCATAT
*
10813433 ACATTGGTTCG
1 ACATGGGTTCG
10813444 TACAATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
16 11 0.30
17 25 0.68
18 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (16 bp):
ACATGGGTTCGCATAT
Found at i:10814114 original size:13 final size:13
Alignment explanation
Indices: 10814098--10814147 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
10814088 TATAATTTTC
10814098 TCTTTAGATTTAA
1 TCTTTAGATTTAA
**
10814111 TCTTTAGATTTCC
1 TCTTTAGATTTAA
10814124 TCTTTAGATTTAA
1 TCTTTAGATTTAA
10814137 TCTTTAGATTT
1 TCTTTAGATTT
10814148 TCTCTTTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTTTAGATTTAA
Found at i:10814128 original size:26 final size:26
Alignment explanation
Indices: 10814092--10814154 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
10814082 GATTTGTATA
10814092 ATTTTCTCTTTAGATTTAATCTTTAG
1 ATTTTCTCTTTAGATTTAATCTTTAG
*
10814118 ATTTCCTCTTTAGATTTAATCTTTAG
1 ATTTTCTCTTTAGATTTAATCTTTAG
10814144 ATTTTCTCTTT
1 ATTTTCTCTTT
10814155 CTTAGGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.21, C:0.14, G:0.06, T:0.59
Consensus pattern (26 bp):
ATTTTCTCTTTAGATTTAATCTTTAG
Found at i:10814153 original size:13 final size:13
Alignment explanation
Indices: 10814092--10814154 Score: 81
Period size: 13 Copynumber: 4.8 Consensus size: 13
10814082 GATTTGTATA
*
10814092 ATTTTCTCTTTAG
1 ATTTACTCTTTAG
*
10814105 ATTTAATCTTTAG
1 ATTTACTCTTTAG
*
10814118 ATTTCCTCTTTAG
1 ATTTACTCTTTAG
*
10814131 ATTTAATCTTTAG
1 ATTTACTCTTTAG
*
10814144 ATTTTCTCTTT
1 ATTTACTCTTT
10814155 CTTAGGTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.21, C:0.14, G:0.06, T:0.59
Consensus pattern (13 bp):
ATTTACTCTTTAG
Found at i:10815604 original size:20 final size:20
Alignment explanation
Indices: 10815585--10815621 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
10815575 TAAATGTGTG
10815585 GTAATAAA-AATATACATGT
1 GTAATAAATAATATACATGT
*
10815604 GTAATAAATATTATACAT
1 GTAATAAATAATATACAT
10815622 ACATTTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (20 bp):
GTAATAAATAATATACATGT
Found at i:10815992 original size:2 final size:2
Alignment explanation
Indices: 10815985--10816017 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10815975 AGTATAAATA
10815985 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10816018 ATAGTTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10816094 original size:17 final size:17
Alignment explanation
Indices: 10816052--10816097 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
10816042 GAAACAGAAT
*
10816052 AGAAGAAA-CAAAACAA
1 AGAAGAAAGGAAAACAA
*
10816068 AGAAGGAAGGAAAA-AA
1 AGAAGAAAGGAAAACAA
10816084 AGATAGAAAGGAAA
1 AGA-AGAAAGGAAA
10816098 GAAGAAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.70, C:0.04, G:0.24, T:0.02
Consensus pattern (17 bp):
AGAAGAAAGGAAAACAA
Found at i:10816347 original size:15 final size:17
Alignment explanation
Indices: 10816327--10816365 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10816317 AATTCGATTT
10816327 AATTCAATCA-ATA-TA
1 AATTCAATCACATATTA
10816342 AATTC-ATCACATATTA
1 AATTCAATCACATATTA
10816358 AATT-AATC
1 AATTCAATC
10816366 CATTTCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.19
15 8 0.38
16 9 0.43
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (17 bp):
AATTCAATCACATATTA
Found at i:10817043 original size:13 final size:12
Alignment explanation
Indices: 10817013--10817106 Score: 59
Period size: 13 Copynumber: 7.4 Consensus size: 12
10817003 TTAATTTTCC
10817013 CTTTTCTTCTTT
1 CTTTTCTTCTTT
*
10817025 CCTTTCTATCTTT
1 CTTTTCT-TCTTT
* *
10817038 TTTTTCCTTCCTT
1 CTTTT-CTTCTTT
10817051 CTTTGT-TTCGTTT
1 CTTT-TCTTC-TTT
10817064 CTTCTTCTTCTATT
1 CTT-TTCTTCT-TT
*
10817078 CTGTTTCTTTCCTT
1 CT-TTTC-TTCTTT
10817092 C-TTT-TTCTTT
1 CTTTTCTTCTTT
10817102 CTTTT
1 CTTTT
10817107 ATTTTCATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 21
0.69 0.09 0.23
Matches are distributed among these distances:
10 6 0.09
11 3 0.05
12 12 0.19
13 22 0.34
14 17 0.27
15 4 0.06
ACGTcount: A:0.02, C:0.26, G:0.03, T:0.69
Consensus pattern (12 bp):
CTTTTCTTCTTT
Found at i:10817083 original size:25 final size:24
Alignment explanation
Indices: 10817040--10817103 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
10817030 CTATCTTTTT
10817040 TTTCCTTC--CTTC-TT-TGTTTC
1 TTTCCTTCTTCTTCTTTCTGTTTC
10817060 GTTT-CTTCTTCTTCTATTCTGTTTC
1 -TTTCCTTCTTCTTCT-TTCTGTTTC
*
10817085 TTTCCTTCTTTTTCTTTCT
1 TTTCCTTCTTCTTCTTTCT
10817104 TTTATTTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
20 4 0.11
21 3 0.08
22 4 0.11
24 9 0.25
25 16 0.44
ACGTcount: A:0.02, C:0.27, G:0.05, T:0.67
Consensus pattern (24 bp):
TTTCCTTCTTCTTCTTTCTGTTTC
Found at i:10817092 original size:22 final size:22
Alignment explanation
Indices: 10817019--10817094 Score: 58
Period size: 22 Copynumber: 3.6 Consensus size: 22
10817009 TTCCCTTTTC
10817019 TTCTTTCC-T-TTCTA-TCT-T
1 TTCTTTCCTTCTTCTATTCTGT
*
10817037 TTTTTTCCTTCCTTC--TT-TGT
1 TTCTTTCCTT-CTTCTATTCTGT
10817057 TTCGTTTCTTCTTCTTCTATTCTGT
1 TTC-TTTC--CTTCTTCTATTCTGT
10817082 TTCTTTCCTTCTT
1 TTCTTTCCTTCTT
10817095 TTTCTTTCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
18 7 0.16
19 2 0.04
20 4 0.09
21 7 0.16
22 10 0.22
23 3 0.07
24 6 0.13
25 6 0.13
ACGTcount: A:0.03, C:0.26, G:0.04, T:0.67
Consensus pattern (22 bp):
TTCTTTCCTTCTTCTATTCTGT
Found at i:10824123 original size:13 final size:13
Alignment explanation
Indices: 10824105--10824130 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10824095 CTACAACCCT
10824105 TGAATTGAGTCTC
1 TGAATTGAGTCTC
10824118 TGAATTGAGTCTC
1 TGAATTGAGTCTC
10824131 ACAATATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TGAATTGAGTCTC
Found at i:10824909 original size:3 final size:3
Alignment explanation
Indices: 10824901--10824926 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10824891 TAGAATTTCG
10824901 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10824927 TGGGATCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10827631 original size:24 final size:23
Alignment explanation
Indices: 10827589--10827633 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
10827579 TCACTTTGGA
10827589 ATTCAACATTTTAAATATTAACT
1 ATTCAACATTTTAAATATTAACT
10827612 ATTCAA-ATTTTAGCAATATTAA
1 ATTCAACATTTTA--AATATTAA
10827634 TATGAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 6 0.30
24 8 0.40
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTCAACATTTTAAATATTAACT
Found at i:10827680 original size:11 final size:10
Alignment explanation
Indices: 10827642--10827673 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
10827632 AATATGAAAA
10827642 TTTAGAATTTT
1 TTTA-AATTTT
10827653 TTTAAATTTT
1 TTTAAATTTT
10827663 TTTAAATTTT
1 TTTAAATTTT
10827673 T
1 T
10827674 ATGAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:10835308 original size:35 final size:35
Alignment explanation
Indices: 10835269--10835340 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
10835259 AAATGTAAAA
10835269 TTCATTAGTTATATCATATTCGATAATCTACTGAT
1 TTCATTAGTTATATCATATTCGATAATCTACTGAT
10835304 TTCATTAGTTATATCATATTCGATAATCTACTGAT
1 TTCATTAGTTATATCATATTCGATAATCTACTGAT
10835339 TT
1 TT
10835341 TATAACGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (35 bp):
TTCATTAGTTATATCATATTCGATAATCTACTGAT
Found at i:10838462 original size:25 final size:25
Alignment explanation
Indices: 10838416--10838463 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10838406 AGTAATGGAT
*
10838416 CAAGAGAAAGAGGTGGCTGGGACAG
1 CAAGAGAAAGAGGTGGCAGGGACAG
*
10838441 CAAGGGAAAGAGG-GGACAGGGAC
1 CAAGAGAAAGAGGTGG-CAGGGAC
10838464 CATCAATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.38, C:0.12, G:0.46, T:0.04
Consensus pattern (25 bp):
CAAGAGAAAGAGGTGGCAGGGACAG
Found at i:10842273 original size:24 final size:26
Alignment explanation
Indices: 10842241--10842289 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
10842231 ATATTTACTG
*
10842241 ATTTTATATTT-CTTAT-TTATTATA
1 ATTTTATATTTAATTATCTTATTATA
10842265 ATTTTATATTTAATTATCTTATTAT
1 ATTTTATATTTAATTATCTTATTAT
10842290 TTTTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTTATATTTAATTATCTTATTATA
Found at i:10842293 original size:24 final size:23
Alignment explanation
Indices: 10842241--10842301 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 23
10842231 ATATTTACTG
*
10842241 ATTTTATATTTCTTATTTATTAT
1 ATTTTATATTTATTATTTATTAT
10842264 AATTTTATATTTAATTATCTTATTAT
1 -ATTTTATATTT-ATTAT-TTATTAT
*
10842290 TTTTTAATATTT
1 ATTTT-ATATTT
10842302 GCTTTATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 11 0.34
25 8 0.25
26 13 0.41
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTATATTTATTATTTATTAT
Found at i:10845969 original size:20 final size:20
Alignment explanation
Indices: 10845932--10845969 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10845922 TGATGGGGAG
*
10845932 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
10845952 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
10845970 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:10847920 original size:46 final size:46
Alignment explanation
Indices: 10847868--10848007 Score: 183
Period size: 46 Copynumber: 3.0 Consensus size: 46
10847858 GTGTGCTCTC
* *
10847868 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
10847914 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
10847960 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
10848006 TG
1 TG
10848008 TCAAAGATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 1 0.01
46 81 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Done.