Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 18 of 66
Found at i:6156388 original size:42 final size:42
Alignment explanation
Indices: 6156251--6156391 Score: 210
Period size: 42 Copynumber: 3.4 Consensus size: 42
6156241 TGTTGATTTG
*
6156251 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGTCGTTGCT
1 GACCCGGCTATATGCGAGTAGGAGTGCACATAAGTCGTTGCT
* * * *
6156293 GACCTGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATATGCGAGTAGGAGTGCACATAAGTCGTTGCT
* * *
6156335 GACCCGGCTATATGTGAGTGGGAGTGCACATAAGTCGTTGTT
1 GACCCGGCTATATGCGAGTAGGAGTGCACATAAGTCGTTGCT
6156377 GACCCGGCTATATGC
1 GACCCGGCTATATGC
6156392 TCATAAGCCG
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (42 bp):
GACCCGGCTATATGCGAGTAGGAGTGCACATAAGTCGTTGCT
Found at i:6158239 original size:34 final size:32
Alignment explanation
Indices: 6158201--6158293 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 32
6158191 TCATACTATA
* * *
6158201 CCTTTTCACGGGAGTAAGCACAACATTTATAATT
1 CCTTTT-ACGGGAGCAAGCACAAC-CTTATAATG
**
6158235 CCTTTTTACAAGAGCAAGCACAATCCTTATAATG
1 CC-TTTTACGGGAGCAAGCACAA-CCTTATAATG
6158269 CCTTTT-CGAGGAGCAAGCACAACCT
1 CCTTTTACG-GGAGCAAGCACAACCT
6158294 CTCTACCTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
32 4 0.08
33 16 0.33
34 24 0.49
35 5 0.10
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (32 bp):
CCTTTTACGGGAGCAAGCACAACCTTATAATG
Found at i:6166287 original size:29 final size:29
Alignment explanation
Indices: 6166252--6166311 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
6166242 ATTCAAGAAC
*
6166252 AAAAAAATAATAATGGATAAAAATTCAAAT
1 AAAAAAATAATAAT-AATAAAAATTCAAAT
*
6166282 AAAAAAATAATAATAATAATAATTCAAAT
1 AAAAAAATAATAATAATAAAAATTCAAAT
6166311 A
1 A
6166312 TATAGTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (29 bp):
AAAAAAATAATAATAATAAAAATTCAAAT
Found at i:6166574 original size:11 final size:11
Alignment explanation
Indices: 6166560--6166634 Score: 62
Period size: 12 Copynumber: 6.4 Consensus size: 11
6166550 AAAATATAAT
*
6166560 AATAATAAAGA
1 AATAATAAAAA
6166571 AAT-ATAAAAA
1 AATAATAAAAA
*
6166581 AATAGTAAAAAA
1 AATAAT-AAAAA
*
6166593 AATAAATAAAAT
1 AAT-AATAAAAA
6166605 AATAATTAAATAA
1 AATAA-TAAA-AA
6166618 TAATAATAACAAA
1 -AATAATAA-AAA
6166631 AATA
1 AATA
6166635 GTTAATTGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
10 9 0.17
11 6 0.12
12 23 0.44
13 8 0.15
14 6 0.12
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAATAAAAA
Found at i:6166589 original size:21 final size:21
Alignment explanation
Indices: 6166548--6166609 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
6166538 ATTGCTTACG
6166548 AAAAAAT--ATAATAATAATAA
1 AAAAAATAAATAA-AATAATAA
* *
6166568 AGAAATATAAA-AAAATAGTAA
1 A-AAAAATAAATAAAATAATAA
6166589 AAAAAATAAATAAAATAATAA
1 AAAAAATAAATAAAATAATAA
6166610 TTAAATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 9 0.26
21 22 0.65
22 2 0.06
23 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (21 bp):
AAAAAATAAATAAAATAATAA
Found at i:6166624 original size:17 final size:16
Alignment explanation
Indices: 6166595--6166626 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6166585 GTAAAAAAAA
6166595 TAAATAAAATAATAAT
1 TAAATAAAATAATAAT
6166611 TAAATAATAATAATAA
1 TAAATAA-AATAATAA
6166627 CAAAAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAATAAAATAATAAT
Found at i:6166684 original size:25 final size:26
Alignment explanation
Indices: 6166639--6166689 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
6166629 AAAATAGTTA
*
6166639 ATTGCATTAGCATAACATATATATAT
1 ATTGCATTAGCATAACATATAAATAT
* *
6166665 ATTGCA-TATCATTACATATAAATAT
1 ATTGCATTAGCATAACATATAAATAT
6166690 TTTTGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (26 bp):
ATTGCATTAGCATAACATATAAATAT
Found at i:6169706 original size:30 final size:29
Alignment explanation
Indices: 6169636--6169706 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 29
6169626 TCTCAAAAAA
*
6169636 AAAAAAAAACAACAAAAAATATATATACAT
1 AAAAAATAA-AACAAAAAATATATATACAT
6169666 AAAAAGATAAAACAAAAAATGATGAT-TA-AT
1 AAAAA-ATAAAACAAAAAAT-AT-ATATACAT
6169696 GAAAAAATAAA
1 -AAAAAATAAA
6169707 TGTTTTACAC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
30 22 0.61
31 12 0.33
32 2 0.06
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (29 bp):
AAAAAATAAAACAAAAAATATATATACAT
Found at i:6172783 original size:19 final size:20
Alignment explanation
Indices: 6172759--6172817 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
6172749 ATCCATCAAC
6172759 ATGAAGATTGAAAAAATG-A
1 ATGAAGATTGAAAAAATGAA
*
6172778 ATGAAGA-AGAAAAAATGAAA
1 ATGAAGATTGAAAAAATG-AA
*
6172798 ATGAAAATTGAAAAAA-GAA
1 ATGAAGATTGAAAAAATGAA
6172817 A
1 A
6172818 GCAAGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 8 0.24
21 7 0.21
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.15
Consensus pattern (20 bp):
ATGAAGATTGAAAAAATGAA
Found at i:6174860 original size:142 final size:140
Alignment explanation
Indices: 6174492--6174886 Score: 587
Period size: 140 Copynumber: 2.8 Consensus size: 140
6174482 ACATTTCAGA
* * *
6174492 TAATTAATGTCAAGATTTTAAAGTTATGTTGCCTCAGTTTTCGAGGAGCTACATTTCTTAAATCC
1 TAATTAATGTCAAGATTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATCC
* * *
6174557 TCCAAGTACATTCTGAAGACCTCCGAGCATATTATTCTTTTAAAT-CTTCCGGGTGCATCTTTTA
66 TCCGAGTACATTCTGAAGACCTCCG-GCATATTATTCTCTTAAATCCTTCCAGGTGCATCTTTTA
*
6174621 AAACCTCCGGG
130 AAACCTCCAGG
* * *
6174632 TAACTAATGTCAAGATTTTAAAGTTACATTGCCTCAGTTTTCGTGGAGCCACATTTCCTAAATCC
1 TAATTAATGTCAAGATTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATCC
*
6174697 TCCGAGTACATTCTGAAGACCTCCAGGCATATTATTCTCTTAAATCCTT-TAGGTGCATCTTTTA
66 TCCGAGTACATTCTGAAGACCTCC-GGCATATTATTCTCTTAAATCCTTCCAGGTGCATCTTTTA
*
6174761 AAACCTCTAGG
130 AAACCTCCAGG
*
6174772 TAATTAATGTCAAGATTTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCCAAAT
1 TAATTAATGTCAAGA--TTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAAT
* * *
6174837 CCTTCGGGTACATTCTGAAGACCTCCGGGCACATTATTCTCTTAAATCCT
64 CCTCCGAGTACATTCTGAAGACCTCC-GGCATATTATTCTCTTAAATCCT
6174887 CCGAGTAATT
Statistics
Matches: 231, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
140 136 0.59
141 4 0.02
142 91 0.39
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (140 bp):
TAATTAATGTCAAGATTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATCC
TCCGAGTACATTCTGAAGACCTCCGGCATATTATTCTCTTAAATCCTTCCAGGTGCATCTTTTAA
AACCTCCAGG
Found at i:6175077 original size:20 final size:21
Alignment explanation
Indices: 6175052--6175102 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
6175042 TTTTTCTCTT
* *
6175052 AAAACCTTCGGATATA-TTTC
1 AAAACCTCCGGATACATTTTC
*
6175072 AAAACCTCCGGGTACATTTTC
1 AAAACCTCCGGATACATTTTC
6175093 AAAACCTCCG
1 AAAACCTCCG
6175103 AGTAATCAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (21 bp):
AAAACCTCCGGATACATTTTC
Found at i:6175201 original size:25 final size:24
Alignment explanation
Indices: 6175171--6175250 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 24
6175161 AAACGACAAA
6175171 AAAAAAAACAAAACAAAAAAAAAC
1 AAAAAAAACAAAACAAAAAAAAAC
*
6175195 AACAAAAACAAAACAAAACAAAAA-
1 AAAAAAAACAAAACAAAA-AAAAAC
* *
6175219 AAATAAAAACAACACATAAACAAAAC
1 AAA-AAAAACAAAACA-AAAAAAAAC
6175245 AAAAAA
1 AAAAAA
6175251 GAGGAGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
24 19 0.40
25 23 0.48
26 6 0.12
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (24 bp):
AAAAAAAACAAAACAAAAAAAAAC
Found at i:6175227 original size:36 final size:34
Alignment explanation
Indices: 6175170--6175248 Score: 97
Period size: 36 Copynumber: 2.3 Consensus size: 34
6175160 TAAACGACAA
* *
6175170 AAAAAAAAACAAAACAAAAAAA-AACAACAAAAAC
1 AAAACAAAACAAAAAAAAAAAACAAC-ACAAAAAC
*
6175204 AAAACAAAACAAAAAAAATAAAAACAACACATAAAC
1 AAAACAAAAC-AAAAAAA-AAAAACAACACAAAAAC
6175240 AAAACAAAA
1 AAAACAAAA
6175249 AAGAGGAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
34 9 0.23
35 6 0.15
36 21 0.54
37 3 0.08
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (34 bp):
AAAACAAAACAAAAAAAAAAAACAACACAAAAAC
Found at i:6175230 original size:31 final size:30
Alignment explanation
Indices: 6175169--6175250 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 30
6175159 TTAAACGACA
* *
6175169 AAAAAAAAAACAAAAC-AAAAAAAAACAAC
1 AAAAACAAAACAAAACAAAAAAAAAAAAAC
6175198 AAAAACAAAACAAAACAAAAAAAATAAAAAC
1 AAAAACAAAACAAAACAAAAAAAA-AAAAAC
*
6175229 -AACACATAAACAAAACAAAAAA
1 AAAAACA-AAACAAAACAAAAAA
6175251 GAGGAGAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
29 15 0.32
30 12 0.26
31 20 0.43
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (30 bp):
AAAAACAAAACAAAACAAAAAAAAAAAAAC
Found at i:6175244 original size:5 final size:5
Alignment explanation
Indices: 6175170--6175248 Score: 81
Period size: 5 Copynumber: 15.8 Consensus size: 5
6175160 TAAACGACAA
* * *
6175170 AAAAA AAAAC AAAAC AAAAA AAAAC AACA- AAAAC AAAAC AAAAC AAAA-
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
* *
6175218 AAAATA AAAAC AACAC ATAAAC AAAAC AAAA
1 AAAA-C AAAAC AAAAC A-AAAC AAAAC AAAA
6175249 AAGAGGAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
4 7 0.11
5 47 0.76
6 8 0.13
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (5 bp):
AAAAC
Found at i:6175416 original size:21 final size:21
Alignment explanation
Indices: 6175392--6175441 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
6175382 AAACGAAAAT
6175392 AAATAACAAAT-AAAAAAATGA
1 AAATAA-AAATAAAAAAAATGA
*
6175413 AAATGAAAATAAAAAAAATG-
1 AAATAAAAATAAAAAAAATGA
6175433 AAATAAAAA
1 AAATAAAAA
6175442 AATAGAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (21 bp):
AAATAAAAATAAAAAAAATGA
Found at i:6175441 original size:15 final size:15
Alignment explanation
Indices: 6175386--6175443 Score: 59
Period size: 14 Copynumber: 3.9 Consensus size: 15
6175376 TTTTATAAAC
6175386 GAAAATAAATAACAAAT
1 GAAAATAAA-AA-AAAT
*
6175403 -AAAA-AAATGAAAAT
1 GAAAATAAA-AAAAAT
6175417 GAAAATAAAAAAAAT
1 GAAAATAAAAAAAAT
6175432 G-AAATAAAAAAA
1 GAAAATAAAAAAA
6175444 TAGAAGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
14 15 0.41
15 15 0.41
16 7 0.19
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.14
Consensus pattern (15 bp):
GAAAATAAAAAAAAT
Found at i:6177188 original size:6 final size:6
Alignment explanation
Indices: 6177169--6177250 Score: 55
Period size: 6 Copynumber: 14.2 Consensus size: 6
6177159 ATAATAATGG
** * * * *
6177169 ATAAAA ATTCAA ATAAAA ATAAAA ATAATA AT-AAT ATAATA ATCAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* *
6177216 AT-ATA A-AAAA ATAATAA AT-AAT ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAA-AA ATAAAA ATAAAA ATAAAA A
6177251 AAATAGTAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
5 12 0.21
6 40 0.71
7 4 0.07
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (6 bp):
ATAAAA
Found at i:6177200 original size:3 final size:3
Alignment explanation
Indices: 6177180--6177269 Score: 50
Period size: 3 Copynumber: 31.7 Consensus size: 3
6177170 TAAAAATTCA
* *
6177180 AAT AAA AAT AAA AAT AAT AAT AAT -AT AAT AAT CAA- AAT -AT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * * *
6177222 AAA AAT AAT AAAT AAT -AT AAA AAT AAA AAA AAT AGT AA- AA- AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6177265 AAT AA
1 AAT AA
6177270 AATTCTTGTT
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
2 14 0.21
3 49 0.72
4 5 0.07
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:6177209 original size:11 final size:11
Alignment explanation
Indices: 6177179--6177272 Score: 75
Period size: 12 Copynumber: 8.4 Consensus size: 11
6177169 ATAAAAATTC
*
6177179 AAATAAAAATAA
1 AAATAATAAT-A
6177191 AAATAATAATA
1 AAATAATAATA
*
6177202 ATATAATAATCA
1 AAATAATAAT-A
*
6177214 AAAT-ATAAAA
1 AAATAATAATA
6177224 AAATAATAAATA
1 AAATAAT-AATA
* *
6177236 ATATAAAAATAA
1 AAATAATAAT-A
* *
6177248 AAAAAATAGTA
1 AAATAATAATA
6177259 AAA-AATAATA
1 AAATAATAATA
6177269 AAAT
1 AAAT
6177273 TCTTGTTCAC
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
10 14 0.22
11 23 0.35
12 28 0.43
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (11 bp):
AAATAATAATA
Found at i:6177215 original size:34 final size:32
Alignment explanation
Indices: 6177153--6177269 Score: 112
Period size: 34 Copynumber: 3.4 Consensus size: 32
6177143 ATTCAAGAAC
6177153 AAAAAAATAATAATGGATAAAAATTCAAATAAAAAT
1 AAAAAAATAATAAT--ATAAAAA-TCAAA-AAAAAT
*
6177189 AAAAATAATAATAATATAATAATCAAAATATAAA-
1 AAAAA-AATAATAATATAAAAATCAAAA-A-AAAT
*
6177223 AAAATAATAAATAATATAAAAAT-AAAAAAAAT
1 AAAAAAAT-AATAATATAAAAATCAAAAAAAAT
6177255 AGTAAAAAATAATAA
1 A--AAAAAATAATAA
6177270 AATTCTTGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
31 3 0.04
32 2 0.03
33 13 0.19
34 29 0.41
35 9 0.13
36 5 0.07
37 9 0.13
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.23
Consensus pattern (32 bp):
AAAAAAATAATAATATAAAAATCAAAAAAAAT
Found at i:6177254 original size:37 final size:40
Alignment explanation
Indices: 6177183--6177270 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 40
6177173 AAATTCAAAT
**
6177183 AAAAATAA-AAATAATAATAATATAATAATCAAAATA-TAA
1 AAAAATAATAAATAATAATAATATAATAAAAAAAATAGT-A
6177222 AAAAATAATAAATAAT-ATAA-A-AATAAAAAAAATAGTA
1 AAAAATAATAAATAATAATAATATAATAAAAAAAATAGTA
6177259 AAAAATAATAAA
1 AAAAATAATAAA
6177271 ATTCTTGTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
37 24 0.53
38 2 0.04
39 12 0.27
40 7 0.16
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (40 bp):
AAAAATAATAAATAATAATAATATAATAAAAAAAATAGTA
Found at i:6177264 original size:10 final size:9
Alignment explanation
Indices: 6177213--6177271 Score: 57
Period size: 10 Copynumber: 6.2 Consensus size: 9
6177203 TATAATAATC
6177213 AAAATATAA
1 AAAATATAA
6177222 AAAA-ATAA
1 AAAATATAA
*
6177230 TAAATAATATA
1 AAAAT-ATA-A
*
6177241 AAAATAAAA
1 AAAATATAA
6177250 AAAATAGTAA
1 AAAATA-TAA
6177260 AAAATAATAA
1 AAAAT-ATAA
6177270 AA
1 AA
6177272 TTCTTGTTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
8 7 0.17
9 11 0.27
10 17 0.41
11 6 0.15
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAATATAA
Found at i:6177272 original size:27 final size:28
Alignment explanation
Indices: 6177180--6177271 Score: 123
Period size: 27 Copynumber: 3.2 Consensus size: 28
6177170 TAAAAATTCA
*
6177180 AATAAAAATAAAAATAATAATAATATAAT
1 AATAAAAATAAAAAAAATAATAA-ATAAT
*
6177209 AATCAAAATATAAAAAAATAATAAATAAT
1 AATAAAAATA-AAAAAAATAATAAATAAT
* *
6177238 -ATAAAAATAAAAAAAATAGTAAAAAAT
1 AATAAAAATAAAAAAAATAATAAATAAT
6177265 AATAAAA
1 AATAAAA
6177272 TTCTTGTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.29
28 14 0.25
29 14 0.25
30 12 0.21
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (28 bp):
AATAAAAATAAAAAAAATAATAAATAAT
Found at i:6177526 original size:2 final size:2
Alignment explanation
Indices: 6177519--6177558 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6177509 NNNNNNNNNN
6177519 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6177559 TACATATCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6193164 original size:19 final size:19
Alignment explanation
Indices: 6193140--6193177 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6193130 ACTTCTTAAC
6193140 CTCAAATCAAACTCCAATA
1 CTCAAATCAAACTCCAATA
* *
6193159 CTCAAATCATACTCTAATA
1 CTCAAATCAAACTCCAATA
6193178 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCAAACTCCAATA
Found at i:6193857 original size:20 final size:21
Alignment explanation
Indices: 6193817--6193858 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6193807 TAATGTGTTA
*
6193817 TTTCCTTAATGGACATATTCT
1 TTTCCATAATGGACATATTCT
6193838 TTTCCATAATGGAC-TATTCT
1 TTTCCATAATGGACATATTCT
6193858 T
1 T
6193859 CCCATGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.48
Consensus pattern (21 bp):
TTTCCATAATGGACATATTCT
Found at i:6195199 original size:23 final size:23
Alignment explanation
Indices: 6195173--6195228 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
6195163 CTCTGTAATG
* * *
6195173 TTATATTCTTTATATTTTAATTA
1 TTATATTATTTATATATTAAATA
* *
6195196 TTATTTTATTTGTATATTAAATA
1 TTATATTATTTATATATTAAATA
*
6195219 TTATAATATT
1 TTATATTATT
6195229 ATTTTTCTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATATTATTTATATATTAAATA
Found at i:6199844 original size:62 final size:62
Alignment explanation
Indices: 6199778--6199899 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 62
6199768 CTAATTCATG
* * * *
6199778 CTAATTTTTGCCTAATCAAGTACTATGTAACTAAAGTCGACTTTACTGCTGTTATTAAGGTA
1 CTAATTTTGGCCTAATCAAGTACCATGCAACTAAAGTCGACTTTACTGCTGCTATTAAGGTA
6199840 CTAATTTTGGCCTAATCAAGTACCATGCAACTAAAGTCGACTTTACTGCTGCTATTAAGG
1 CTAATTTTGGCCTAATCAAGTACCATGCAACTAAAGTCGACTTTACTGCTGCTATTAAGG
6199900 CTAGCAAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (62 bp):
CTAATTTTGGCCTAATCAAGTACCATGCAACTAAAGTCGACTTTACTGCTGCTATTAAGGTA
Found at i:6200850 original size:93 final size:93
Alignment explanation
Indices: 6200684--6200871 Score: 281
Period size: 93 Copynumber: 2.0 Consensus size: 93
6200674 ATTTTTTTTT
* * * *
6200684 ATCTCTCTCCTATTTCCTTTCACCTAATCTCCTCTTTTTATTCTGTTAAGAGTAAGTTTGGTAAA
1 ATCTCTCTCCTATTCCCTTTCAACTAACCTCCTCTTTTTATTCTATTAAGAGTAAGTTTGGTAAA
6200749 ATCATGCAATTTCAAGAGTAGTAAGATG
66 ATCATGCAATTTCAAGAGTAGTAAGATG
*
6200777 ATCTCTCTCCTATTCCCTTTCAACTAACCTCCTCTTCTTCT-TTC-ATTAAGAGTAGGTTTGGTA
1 ATCTCTCTCCTATTCCCTTTCAACTAACCTCCTCTT-TT-TATTCTATTAAGAGTAAGTTTGGTA
* *
6200840 AATTCGTGCAATTTCAAGAGTAGTAAGATG
64 AAATCATGCAATTTCAAGAGTAGTAAGATG
6200870 AT
1 AT
6200872 AAAAAGTTTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
93 80 0.93
94 5 0.06
95 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (93 bp):
ATCTCTCTCCTATTCCCTTTCAACTAACCTCCTCTTTTTATTCTATTAAGAGTAAGTTTGGTAAA
ATCATGCAATTTCAAGAGTAGTAAGATG
Found at i:6201777 original size:20 final size:19
Alignment explanation
Indices: 6201734--6201778 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
6201724 TTGGAGTAAT
6201734 TGAAAAAGTACATTAATCA
1 TGAAAAAGTACATTAATCA
6201753 TGAAAAAGTACATTAATCA
1 TGAAAAAGTACATTAATCA
6201772 TGGAAAA
1 T-GAAAA
6201779 TTAGGATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.24
Consensus pattern (19 bp):
TGAAAAAGTACATTAATCA
Found at i:6204256 original size:22 final size:22
Alignment explanation
Indices: 6204231--6204277 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6204221 TGAGTTGTGT
* *
6204231 ATTGTGTGACTGGTTTGTAGGC
1 ATTGCGTGACTGGTTTGTAGAC
*
6204253 ATTGCGTGACTTGTTTGTAGAC
1 ATTGCGTGACTGGTTTGTAGAC
6204275 ATT
1 ATT
6204278 ATATGACCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.11, G:0.30, T:0.43
Consensus pattern (22 bp):
ATTGCGTGACTGGTTTGTAGAC
Found at i:6205123 original size:22 final size:22
Alignment explanation
Indices: 6205106--6205162 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
6205096 AGGCATTAAG
6205106 TGAATGGATATTATGCATTGTC
1 TGAATGGATATTATGCATTGTC
6205128 TGAATGGATATTATGCATTGTC
1 TGAATGGATATTATGCATTGTC
6205150 TGAATGGATATTA
1 TGAATGGATATTA
6205163 AGCGTTACGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (22 bp):
TGAATGGATATTATGCATTGTC
Found at i:6205660 original size:21 final size:21
Alignment explanation
Indices: 6205621--6205660 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6205611 CGTGAGTGGA
*
6205621 TATTAGGCATTGAGTGACTTT
1 TATTAGGCATTGAGAGACTTT
* *
6205642 TATTAGGTATTGCGAGACT
1 TATTAGGCATTGAGAGACT
6205661 AGCGATGCGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (21 bp):
TATTAGGCATTGAGAGACTTT
Found at i:6214239 original size:23 final size:23
Alignment explanation
Indices: 6214117--6214591 Score: 211
Period size: 23 Copynumber: 20.7 Consensus size: 23
6214107 ACAATAAGTG
* * * **
6214117 AGTCACGCAATCCCATATCAAAA
1 AGTCACGCGATTCCATATTAACT
* * *
6214140 AGTAACGCGATTCTATATAAACT
1 AGTCACGCGATTCCATATTAACT
* * *
6214163 AGTAATGCGATTCCATATCAACT
1 AGTCACGCGATTCCATATTAACT
* * * *
6214186 AGTCAAGCAATTCCATAATATCT
1 AGTCACGCGATTCCATATTAACT
* *
6214209 AGTAACGCGATTCCATATTTACT
1 AGTCACGCGATTCCATATTAACT
* * * *
6214232 ACTCACGCGATTCCTTATCAAAT
1 AGTCACGCGATTCCATATTAACT
** *
6214255 -GCTCTTGCGATTCCATAATAACT
1 AG-TCACGCGATTCCATATTAACT
* * *
6214278 AGTAATGCGATTCCATATTTACT
1 AGTCACGCGATTCCATATTAACT
* ** * *
6214301 ACTCACATGATTCCATGTCAACT
1 AGTCACGCGATTCCATATTAACT
* *
6214324 AATCACGCGATTCCATAATAACT
1 AGTCACGCGATTCCATATTAACT
* * * *
6214347 TGTAACGCGATGCCATATTTACT
1 AGTCACGCGATTCCATATTAACT
* * * *
6214370 ACTTACGCGATTCAATATCAACT
1 AGTCACGCGATTCCATATTAACT
** * *
6214393 AGTCACATGA-TCC-TAAATCACAT
1 AGTCACGCGATTCCAT-ATTAAC-T
* * * *
6214416 AGTCATGTGATTCAATATTTACT
1 AGTCACGCGATTCCATATTAACT
* * *
6214439 ACTCACGCGATTCAATATAAACT
1 AGTCACGCGATTCCATATTAACT
* * ** *
6214462 AGTAACGCGATTCCAAATCGATT
1 AGTCACGCGATTCCATATTAACT
*
6214485 AGTCAAGCGATTCCATATTAACCT
1 AGTCACGCGATTCCATATTAA-CT
* * * * * *
6214509 CGTCATGTGATTCCAAATTTAGT
1 AGTCACGCGATTCCATATTAACT
* * * *
6214532 AGTCATGCGATTCCATGTCAAAT
1 AGTCACGCGATTCCATATTAACT
* ** *
6214555 ACTCGTGCGATT-CATATTGACT
1 AGTCACGCGATTCCATATTAACT
* *
6214577 GGTCACGTGATTCCA
1 AGTCACGCGATTCCA
6214592 CAAACACCAT
Statistics
Matches: 323, Mismatches: 121, Indels: 16
0.70 0.26 0.03
Matches are distributed among these distances:
21 1 0.00
22 18 0.06
23 279 0.86
24 24 0.07
25 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (23 bp):
AGTCACGCGATTCCATATTAACT
Found at i:6214242 original size:69 final size:69
Alignment explanation
Indices: 6214140--6214503 Score: 314
Period size: 69 Copynumber: 5.3 Consensus size: 69
6214130 CATATCAAAA
* ** * * * *
6214140 AGTAACGCGATTCTATATAAACTAGTAATGCGATTCCATATCAACTAGTCAAGCAATTCCATAAT
1 AGTAACGCGATTCCATATTTACTACTCACGCGATTCCATATCAACTAGTCAAGCGATTCCATAAT
6214205 ATCT
66 ATCT
* * **
6214209 AGTAACGCGATTCCATATTTACTACTCACGCGATTCCTTATCAAAT-GCTCTTGCGATTCCATAA
1 AGTAACGCGATTCCATATTTACTACTCACGCGATTCCATATCAACTAG-TCAAGCGATTCCATAA
*
6214273 TAACT
65 TATCT
* ** * * *
6214278 AGTAATGCGATTCCATATTTACTACTCACATGATTCCATGTCAACTAATCACGCGATTCCATAAT
1 AGTAACGCGATTCCATATTTACTACTCACGCGATTCCATATCAACTAGTCAAGCGATTCCATAAT
*
6214343 AACT
66 ATCT
* * * * *
6214347 TGTAACGCGATGCCATATTTACTACTTACGCGATTCAATATCAACTAGTCACA-TGA-TCC-TAA
1 AGTAACGCGATTCCATATTTACTACTCACGCGATTCCATATCAACTAGTCA-AGCGATTCCATAA
6214409 -ATCACAT
65 TAT--C-T
* * * * * *
6214416 AGTCATGTGATTCAATATTTACTACTCACGCGATTCAATATAAACTAGT-AACGCGATTCCA-AA
1 AGTAACGCGATTCCATATTTACTACTCACGCGATTCCATATCAACTAGTCAA-GCGATTCCATAA
6214479 TCGAT-T
65 T--ATCT
6214485 AGTCAA-GCGATTCCATATT
1 AGT-AACGCGATTCCATATT
6214504 AACCTCGTCA
Statistics
Matches: 236, Mismatches: 45, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
66 1 0.00
67 4 0.02
68 6 0.03
69 217 0.92
70 6 0.03
73 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.32
Consensus pattern (69 bp):
AGTAACGCGATTCCATATTTACTACTCACGCGATTCCATATCAACTAGTCAAGCGATTCCATAAT
ATCT
Found at i:6216822 original size:12 final size:12
Alignment explanation
Indices: 6216783--6216833 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
6216773 CAGTAAGAGT
6216783 AGCAACATGAGG
1 AGCAACATGAGG
* * *
6216795 AGCATCAGGAGA
1 AGCAACATGAGG
*
6216807 AGCAACATCAGG
1 AGCAACATGAGG
6216819 AGCAACATGAGG
1 AGCAACATGAGG
6216831 AGC
1 AGC
6216834 CGAAGGAGGA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.41, C:0.20, G:0.31, T:0.08
Consensus pattern (12 bp):
AGCAACATGAGG
Found at i:6218602 original size:23 final size:22
Alignment explanation
Indices: 6218543--6218607 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 22
6218533 CGTAATGCCT
* * *
6218543 TATCAATAAGTCACGCAATTAC
1 TATCAACAAGTCACACAATGAC
* * *
6218565 TAACATCAAATCACACAATGATC
1 TATCAACAAGTCACACAATGA-C
*
6218588 TATCAACAAGTCACATAATG
1 TATCAACAAGTCACACAATG
6218608 TTAAGAACAA
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.25
Consensus pattern (22 bp):
TATCAACAAGTCACACAATGAC
Found at i:6218700 original size:23 final size:23
Alignment explanation
Indices: 6218669--6218743 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 23
6218659 CAATATTCAT
* *
6218669 GCAATGACCTACCAACCAGTCAC
1 GCAATGACCTATCAACAAGTCAC
* *
6218692 GCAAAGACCTATCAACAAGTCAT
1 GCAATGACCTATCAACAAGTCAC
* * *
6218715 GCAATTACATATCAACTAGTCAC
1 GCAATGACCTATCAACAAGTCAC
6218738 GCAATG
1 GCAATG
6218744 TTAAACCCTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.19
Consensus pattern (23 bp):
GCAATGACCTATCAACAAGTCAC
Found at i:6228183 original size:2 final size:2
Alignment explanation
Indices: 6228176--6228212 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6228166 NNNNNNNNNN
6228176 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6228213 TCATCATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6228323 original size:42 final size:41
Alignment explanation
Indices: 6228267--6228358 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 41
6228257 TCCCCACTAG
* * *
6228267 CACATGGCTGGGTCATCATCGGCTTATGCGTACA-CCTACTCA
1 CACATAGCTAGGTCATCATCGACTTAT--GTACACCCTACTCA
*
6228309 CACATAGCTAGGTCATCATCGACTTATGTACACTCCTACTCG
1 CACATAGCTAGGTCATCATCGACTTATGTACAC-CCTACTCA
6228351 CACATAGC
1 CACATAGC
6228359 CGGGTCCACA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 5 0.11
42 39 0.89
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (41 bp):
CACATAGCTAGGTCATCATCGACTTATGTACACCCTACTCA
Found at i:6233241 original size:36 final size:36
Alignment explanation
Indices: 6233201--6233308 Score: 117
Period size: 36 Copynumber: 3.0 Consensus size: 36
6233191 ACTTGGACTA
* * *
6233201 GAAAAGTTAGTGTGAGGGTTATCACTTGATCTTGTT
1 GAAAAGCTAGCGTAAGGGTTATCACTTGATCTTGTT
* * * **
6233237 GAAAAGCTGGCGTAAAGATTATTGCTTGATCTTGTT
1 GAAAAGCTAGCGTAAGGGTTATCACTTGATCTTGTT
* * *
6233273 AAAAAGCAAGCGTAAGGGTTATCAATTGATCTTGTT
1 GAAAAGCTAGCGTAAGGGTTATCACTTGATCTTGTT
6233309 AAAGAGCCAT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (36 bp):
GAAAAGCTAGCGTAAGGGTTATCACTTGATCTTGTT
Found at i:6233309 original size:36 final size:36
Alignment explanation
Indices: 6233215--6233311 Score: 122
Period size: 36 Copynumber: 2.7 Consensus size: 36
6233205 AGTTAGTGTG
* **
6233215 AGGGTTATCACTTGATCTTGTTGAAAAGCTGGCGTA
1 AGGGTTATCACTTGATCTTGTTAAAAAGCAAGCGTA
* * **
6233251 AAGATTATTGCTTGATCTTGTTAAAAAGCAAGCGTA
1 AGGGTTATCACTTGATCTTGTTAAAAAGCAAGCGTA
*
6233287 AGGGTTATCAATTGATCTTGTTAAA
1 AGGGTTATCACTTGATCTTGTTAAA
6233312 GAGCCATTAT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (36 bp):
AGGGTTATCACTTGATCTTGTTAAAAAGCAAGCGTA
Found at i:6233329 original size:36 final size:36
Alignment explanation
Indices: 6233217--6233348 Score: 93
Period size: 36 Copynumber: 3.7 Consensus size: 36
6233207 TTAGTGTGAG
* * ** *
6233217 GGTTATCACTTGATCTTGTTGAAAAGCTGGCGTAAA
1 GGTTATCAATTGATCTTGTTAAAAAGCAAGCATAAA
* *** * *
6233253 GATTATTGCTTGATCTTGTTAAAAAGCAAGCGTAAG
1 GGTTATCAATTGATCTTGTTAAAAAGCAAGCATAAA
* * **
6233289 GGTTATCAATTGATCTTGTTAAAGAGCCATTATAAA
1 GGTTATCAATTGATCTTGTTAAAAAGCAAGCATAAA
* * **
6233325 GGTTATTACTTGATCAAGTTAAAA
1 GGTTATCAATTGATCTTGTTAAAA
6233349 TACTGATGTA
Statistics
Matches: 74, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
36 74 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (36 bp):
GGTTATCAATTGATCTTGTTAAAAAGCAAGCATAAA
Found at i:6237437 original size:50 final size:50
Alignment explanation
Indices: 6237374--6237494 Score: 136
Period size: 50 Copynumber: 2.4 Consensus size: 50
6237364 CCACTATCAA
* * *
6237374 GGATTCTTGCTTTTTAATGGGTAGCGATAACCCTTACACAATCCACAAAG
1 GGATTCTTACTTTTTAACGGGAAGCGATAACCCTTACACAATCCACAAAG
* * * * * *
6237424 GGATTTTTACTTTTTAACGGGAAGTGATAACCTTTACATAATCCA-TAAC
1 GGATTCTTACTTTTTAACGGGAAGCGATAACCCTTACACAATCCACAAAG
* *
6237473 GGATTCTTGCTTTTTAAAGGGA
1 GGATTCTTACTTTTTAACGGGA
6237495 TCAAGCGGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 21 0.36
50 38 0.64
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (50 bp):
GGATTCTTACTTTTTAACGGGAAGCGATAACCCTTACACAATCCACAAAG
Found at i:6237942 original size:24 final size:24
Alignment explanation
Indices: 6237915--6237998 Score: 141
Period size: 24 Copynumber: 3.5 Consensus size: 24
6237905 ATGAATTTGC
*
6237915 ATCTTTATGCATCCCATTCAATCA
1 ATCTTTATGCATCCCATTAAATCA
*
6237939 ATCTTTATGCATCCCATAAAATCA
1 ATCTTTATGCATCCCATTAAATCA
6237963 ATCTTTATGCATCCCATTAAATCA
1 ATCTTTATGCATCCCATTAAATCA
*
6237987 ATCTTTGTGCAT
1 ATCTTTATGCAT
6237999 TGATCTTATC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (24 bp):
ATCTTTATGCATCCCATTAAATCA
Found at i:6238550 original size:2 final size:2
Alignment explanation
Indices: 6238537--6238579 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
6238527 TGTAATGTAA
6238537 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6238577 AT A
1 AT A
6238580 AGCTAAGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6242708 original size:13 final size:14
Alignment explanation
Indices: 6242690--6242723 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
6242680 AAATGAGTTT
*
6242690 AAAATTTAATA-AA
1 AAAATTTAAAATAA
6242703 AAAATTTAAAATAA
1 AAAATTTAAAATAA
6242717 AAAATTT
1 AAAATTT
6242724 TAATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAATTTAAAATAA
Found at i:6242717 original size:15 final size:15
Alignment explanation
Indices: 6242697--6242726 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6242687 TTTAAAATTT
6242697 AATAAAAAAATTTAA
1 AATAAAAAAATTTAA
*
6242712 AATAAAAAATTTTAA
1 AATAAAAAAATTTAA
6242727 TTTTAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATAAAAAAATTTAA
Found at i:6244633 original size:13 final size:14
Alignment explanation
Indices: 6244615--6244643 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6244605 TAAGAGTCTC
6244615 AAGCTTGAGA-AAA
1 AAGCTTGAGACAAA
6244628 AAGCTTGAGACAAA
1 AAGCTTGAGACAAA
6244642 AA
1 AA
6244644 CATTACTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.10, G:0.21, T:0.14
Consensus pattern (14 bp):
AAGCTTGAGACAAA
Found at i:6253304 original size:39 final size:40
Alignment explanation
Indices: 6253229--6253310 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 40
6253219 AACCAACAAT
* *
6253229 TGTTCACCTTAGTGGGGTTTTCTAACCTCACCAAGATTGG
1 TGTTCACCTTAGTGGAGTTTTCTAACCTCACAAAGATTGG
*
6253269 TGTTCACCTTAGTGGAG-TTTCTAACCTCGCAAAGATTGG
1 TGTTCACCTTAGTGGAGTTTTCTAACCTCACAAAGATTGG
6253308 TGT
1 TGT
6253311 CTTCATAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 23 0.59
40 16 0.41
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (40 bp):
TGTTCACCTTAGTGGAGTTTTCTAACCTCACAAAGATTGG
Found at i:6259606 original size:22 final size:22
Alignment explanation
Indices: 6259580--6259623 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6259570 TTACATTGGT
*
6259580 ATCAGAGCTTTTGATTTTAAAG
1 ATCAGAGCTTTTGAGTTTAAAG
*
6259602 ATCAGAGCTTTTGGGTTTAAAG
1 ATCAGAGCTTTTGAGTTTAAAG
6259624 TTGTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (22 bp):
ATCAGAGCTTTTGAGTTTAAAG
Found at i:6274075 original size:42 final size:42
Alignment explanation
Indices: 6274028--6274158 Score: 183
Period size: 42 Copynumber: 3.1 Consensus size: 42
6274018 TTTTGTGTGA
*
6274028 TGATGATGACCTAGCCATGTGCATGTAGAAGTACACATGAGC
1 TGATGATGACCCAGCCATGTGCATGTAGAAGTACACATGAGC
*
6274070 TGATGATGACCCAGCCATGTGCGTGTAGAAGTACACATGAGC
1 TGATGATGACCCAGCCATGTGCATGTAGAAGTACACATGAGC
* * * * *
6274112 TGATGATGACCCAGACATGTG-AGTGTAAAAGTGCATATAAGC
1 TGATGATGACCCAGCCATGTGCA-TGTAGAAGTACACATGAGC
6274154 TGATG
1 TGATG
6274159 CTGAACCAAC
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (42 bp):
TGATGATGACCCAGCCATGTGCATGTAGAAGTACACATGAGC
Found at i:6274131 original size:84 final size:85
Alignment explanation
Indices: 6274028--6274204 Score: 196
Period size: 84 Copynumber: 2.1 Consensus size: 85
6274018 TTTTGTGTGA
* * * * * *
6274028 TGATGATGACCTAGCCATGTGCA-TGTAGAAGTACACATGAGCTGATGATGACCCAGCCATGTGC
1 TGATGATGACCCAGACATGTG-AGTGTAAAAGTACACATAAGCTGATGATGAACCAACCATGTGC
*
6274092 GTGT-AGAAGTACACATGAGC
65 GAGTGAGAAGTACACATGAGC
* * * * *
6274112 TGATGATGACCCAGACATGTGAGTGTAAAAGTGCATATAAGCTGATGCTGAACCAACTATGTGTG
1 TGATGATGACCCAGACATGTGAGTGTAAAAGTACACATAAGCTGATGATGAACCAACCATGTGCG
* * *
6274177 AGTGGGGAGTGCACATGAGC
66 AGTGAGAAGTACACATGAGC
6274197 TGATGATG
1 TGATGATG
6274205 GTGGGATGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
83 1 0.01
84 54 0.71
85 21 0.28
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (85 bp):
TGATGATGACCCAGACATGTGAGTGTAAAAGTACACATAAGCTGATGATGAACCAACCATGTGCG
AGTGAGAAGTACACATGAGC
Found at i:6274174 original size:42 final size:41
Alignment explanation
Indices: 6274028--6274174 Score: 134
Period size: 42 Copynumber: 3.5 Consensus size: 41
6274018 TTTTGTGTGA
* * * *
6274028 TGATGATGACCTAGCCATGTGCA-TGTAGAAGTACACATGAGC
1 TGATGATGACCCA-ACATGTG-AGTGTAAAAGTACACATAAGC
* * * *
6274070 TGATGATGACCCAGCCATGTGCGTGTAGAAGTACACATGAGC
1 TGATGATGACCCA-ACATGTGAGTGTAAAAGTACACATAAGC
* *
6274112 TGATGATGACCCAGACATGTGAGTGTAAAAGTGCATATAAGC
1 TGATGATGACCCA-ACATGTGAGTGTAAAAGTACACATAAGC
* *
6274154 TGATGCTGAACCAACTATGTG
1 TGATGATGACCCAAC-ATGTG
6274175 TGAGTGGGGA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
41 2 0.02
42 91 0.98
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (41 bp):
TGATGATGACCCAACATGTGAGTGTAAAAGTACACATAAGC
Found at i:6276373 original size:43 final size:42
Alignment explanation
Indices: 6276314--6276439 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 42
6276304 TTGTGTGATA
* * *
6276314 ATGATGACACAACTATGTGCGATGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGA-GTGGGAGTGCACATGAGCCG
** *
6276357 ATGATGACCCAGCTATGTGCGAGTAGGGAGTGTGCATAAGCCG
1 ATGATGACCCAGCTATGTGCGAGT-GGGAGTGCACATGAGCCG
* *
6276400 ATGATGACCCCAGTTATGTGCGAGTTGGTAGTGCACATGA
1 ATGATGA-CCCAGCTATGTGCGAG-TGGGAGTGCACATGA
6276440 TGATGAATGA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.03
43 41 0.59
44 25 0.36
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGAGTGGGAGTGCACATGAGCCG
Found at i:6280981 original size:10 final size:10
Alignment explanation
Indices: 6280948--6280981 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
6280938 AACATGTGTG
6280948 TATGTATATA
1 TATGTATATA
*
6280958 TATATATATA
1 TATGTATATA
*
6280968 TATGTATATT
1 TATGTATATA
6280978 TATG
1 TATG
6280982 ATTGCCTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (10 bp):
TATGTATATA
Found at i:6288130 original size:233 final size:232
Alignment explanation
Indices: 6287706--6288165 Score: 649
Period size: 233 Copynumber: 2.0 Consensus size: 232
6287696 TATCTTCCCT
* * * *
6287706 TTCATACTTCTCACCACATAAAATCCATCCCAATACACCATCGGATATCATAATTGTTAAGAGTT
1 TTCATACTTCTCACCACATAAAATCCATCCCAATACACCATCGGACACCATAATTATTAAGAATT
6287771 ATACCAAACTCTACCTTCATCTCTTTTTTTCCACATCAGAATTAGGTGCATATACATTATTGAAT
66 ATACCAAACTCTACCTTCATCTCTTTTTTTCCACATCAGAATTAGGTGCATATACATTATTGAAT
*
6287836 CCACATCTCCAATTATGGACCCCTAATGATATCCACTAACAATACATAACTTTTGGACATCGAAC
131 CCACATCTCCAATTATGGACCCCTAATGATATCCACTAACAATACATAACTTTTAGACATCGAAC
* *
6287901 ATTGTTCAATCTAGAAAGCAAATCCTACCAAACATTG
196 ATTGTTCAATCTAAAAAGCAAACCCTACCAAACATTG
* ** **
6287938 TTCATACTTCTTACCACATTAAAATTTATCCTTATACACCAT-GGAACACCATAATTATTAAGAA
1 TTCATACTTCTCACCACA-TAAAATCCATCCCAATACACCATCGG-ACACCATAATTATTAAGAA
* * * * * * *
6288002 TTATACCTAACTTTACCTTGATTTCTTCTCTTTT-CATATCATAATTAGGTGTATATACATTATT
64 TTATACCAAACTCTACCTTCATCTCTT-T-TTTTCCACATCAGAATTAGGTGCATATACATTATT
* * *
6288066 GAATCCACATGTCCAATTATGGA-CCCTAATGATTTCCATTAACAATACATGAA-TTTTAGACAT
127 GAATCCACATCTCCAATTATGGACCCCTAATGATATCCACTAACAATACAT-AACTTTTAGACAT
6288129 CGAACATTGTTCAATCTAAAAAGCAAACCCTACCAAA
191 CGAACATTGTTCAATCTAAAAAGCAAACCCTACCAAA
6288166 TACTAATTAT
Statistics
Matches: 201, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
232 19 0.09
233 126 0.63
234 52 0.26
235 4 0.02
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (232 bp):
TTCATACTTCTCACCACATAAAATCCATCCCAATACACCATCGGACACCATAATTATTAAGAATT
ATACCAAACTCTACCTTCATCTCTTTTTTTCCACATCAGAATTAGGTGCATATACATTATTGAAT
CCACATCTCCAATTATGGACCCCTAATGATATCCACTAACAATACATAACTTTTAGACATCGAAC
ATTGTTCAATCTAAAAAGCAAACCCTACCAAACATTG
Found at i:6288684 original size:2 final size:2
Alignment explanation
Indices: 6288677--6288722 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
6288667 AGTACTTAAC
6288677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6288719 AT AT
1 AT AT
6288723 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6288795 original size:2 final size:2
Alignment explanation
Indices: 6288783--6288856 Score: 91
Period size: 2 Copynumber: 38.5 Consensus size: 2
6288773 NNNNNNAACA
6288783 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
6288824 AT AT AT -T AT AT TT AA AT TT AT AT A- AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6288857 AAATTTTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
1 3 0.05
2 59 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6290153 original size:23 final size:21
Alignment explanation
Indices: 6290112--6290154 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6290102 GTCCATTTCT
*
6290112 CTTTTTTTTTTTTTTTTTTGC
1 CTTTTTTTTTTTTTGTTTTGC
6290133 CTTTTTTTTATTTTTAGTTTTG
1 CTTTTTTTT-TTTTT-GTTTTG
6290155 GAAAAGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.81
Consensus pattern (21 bp):
CTTTTTTTTTTTTTGTTTTGC
Found at i:6290793 original size:12 final size:12
Alignment explanation
Indices: 6290776--6290816 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
6290766 AATTCTTTTA
6290776 AATTAATTAACT
1 AATTAATTAACT
**
6290788 AATTAATTAGTT
1 AATTAATTAACT
6290800 AATTAAATTAACT
1 AATT-AATTAACT
6290813 AATT
1 AATT
6290817 TATTTATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (12 bp):
AATTAATTAACT
Found at i:6298494 original size:3 final size:3
Alignment explanation
Indices: 6298486--6298511 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6298476 GTTCGAACTA
6298486 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6298512 GATGGTTGTT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6304739 original size:13 final size:13
Alignment explanation
Indices: 6304721--6304755 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
6304711 ACGCTACGTG
6304721 TTTGGTTGCAATT
1 TTTGGTTGCAATT
6304734 TTTGGTGTTGCAATT
1 TTT-G-GTTGCAATT
6304749 TTTGGTT
1 TTTGGTT
6304756 TTTATTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.30
14 2 0.10
15 12 0.60
ACGTcount: A:0.11, C:0.06, G:0.26, T:0.57
Consensus pattern (13 bp):
TTTGGTTGCAATT
Found at i:6304745 original size:15 final size:15
Alignment explanation
Indices: 6304725--6304754 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6304715 TACGTGTTTG
6304725 GTTGCAATTTTTGGT
1 GTTGCAATTTTTGGT
6304740 GTTGCAATTTTTGGT
1 GTTGCAATTTTTGGT
6304755 TTTTATTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.27, T:0.53
Consensus pattern (15 bp):
GTTGCAATTTTTGGT
Found at i:6304821 original size:17 final size:17
Alignment explanation
Indices: 6304799--6304831 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6304789 AGTTTTCAAG
*
6304799 TTCTATCCTATTAGAAC
1 TTCTATCCAATTAGAAC
6304816 TTCTATCCAATTAGAA
1 TTCTATCCAATTAGAA
6304832 ATGCTGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (17 bp):
TTCTATCCAATTAGAAC
Found at i:6304948 original size:26 final size:26
Alignment explanation
Indices: 6304912--6305410 Score: 236
Period size: 26 Copynumber: 21.1 Consensus size: 26
6304902 TTTGTGCATG
* *
6304912 GTTTTTGATAAGACATTACGTGACTA
1 GTTTTTGATAAGGCATTGCGTGACTA
** * *
6304938 GTTTTTGATAAATCATTGCGTAACTT
1 GTTTTTGATAAGGCATTGCGTGACTA
* *
6304964 GTTTCTGATAAGGCATTGTGTGACT-
1 GTTTTTGATAAGGCATTGCGTGACTA
** *
6304989 GACTTTG----GGCATTGCCTGACTA
1 GTTTTTGATAAGGCATTGCGTGACTA
6305011 GTTTTTGATAAGGCATTGCGTGACTA
1 GTTTTTGATAAGGCATTGCGTGACTA
* *
6305037 GTGTCTGATAAGGCATTGCGTG---A
1 GTTTTTGATAAGGCATTGCGTGACTA
** * *
6305060 GTAATTGAT-AGGCATTACATGACT-
1 GTTTTTGATAAGGCATTGCGTGACTA
**
6305084 GACTTTG----GGCATTGCGTGACTA
1 GTTTTTGATAAGGCATTGCGTGACTA
*
6305106 GTTTTTGATAAGG---TG-TTGACTA
1 GTTTTTGATAAGGCATTGCGTGACTA
6305128 G---TTGATAA-GCATTGCGTGACT-
1 GTTTTTGATAAGGCATTGCGTGACTA
** *
6305149 GACTTTG----GGCATTGTGTGACTA
1 GTTTTTGATAAGGCATTGCGTGACTA
*
6305171 GTTTTTGATAAGACATTGCGTGACTA
1 GTTTTTGATAAGGCATTGCGTGACTA
* *
6305197 GTTTCTGATAAGGCATTACGTGACT-
1 GTTTTTGATAAGGCATTGCGTGACTA
* *
6305222 -TACTTTG----GGAATTGCGTGACT-
1 GT-TTTTGATAAGGCATTGCGTGACTA
** * *
6305243 GACTTTG---A-GAATTGTGTGACTA
1 GTTTTTGATAAGGCATTGCGTGACTA
6305265 GTTTTTGATAAGGCATTGCGTGACTA
1 GTTTTTGATAAGGCATTGCGTGACTA
*
6305291 GTTTCTGATAAGGCATTGCGTGAC-A
1 GTTTTTGATAAGGCATTGCGTGACTA
* * * *
6305316 --TGTTGAT-AGGCATTGCATAACTT
1 GTTTTTGATAAGGCATTGCGTGACTA
* * * *
6305339 G-TTAT--TAAGGCATTGCATAACTT
1 GTTTTTGATAAGGCATTGCGTGACTA
*
6305362 G-TTAT--TAAGGCATTGCGTGACT-
1 GTTTTTGATAAGGCATTGCGTGACTA
* *
6305384 -TGTTAG-TAAGGCATTGCGTGACTA
1 GTTTTTGATAAGGCATTGCGTGACTA
6305408 GTT
1 GTT
6305411 AGTAAAGAAT
Statistics
Matches: 366, Mismatches: 66, Indels: 83
0.71 0.13 0.16
Matches are distributed among these distances:
18 1 0.00
19 7 0.02
21 68 0.19
22 56 0.15
23 67 0.18
24 10 0.03
25 10 0.03
26 147 0.40
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (26 bp):
GTTTTTGATAAGGCATTGCGTGACTA
Found at i:6305105 original size:69 final size:69
Alignment explanation
Indices: 6305022--6305242 Score: 261
Period size: 65 Copynumber: 3.2 Consensus size: 69
6305012 TTTTTGATAA
* * * *
6305022 GGCATTGCGTGACTAGTGTCTGATAAGGCATTGCGTGAGTAATTGATAGGCATTACATGACTGAC
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAATTGATAGGCATTACGTGACTGAC
6305087 TTTG
66 TTTG
* * * *
6305091 GGCATTGCGTGACTAGTTTTTGATAAGG---TG-TTGACTAGTTGATAAGCATTGCGTGACTGAC
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAATTGATAGGCATTACGTGACTGAC
6305152 TTTG
66 TTTG
* * *
6305156 GGCATTGTGTGACTAGTTTTTGATAAGACATTGCGTGACTAGTTTCTGATAAGGCATTACGTGAC
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTA--AT-TGAT-AGGCATTACGTGAC
*
6305221 TTACTTTG
62 TGACTTTG
*
6305229 GGAATTGCGTGACT
1 GGCATTGCGTGACT
6305243 GACTTTGAGA
Statistics
Matches: 127, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
65 55 0.43
66 2 0.02
68 2 0.02
69 32 0.25
71 1 0.01
72 4 0.03
73 31 0.24
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (69 bp):
GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAATTGATAGGCATTACGTGACTGAC
TTTG
Found at i:6305161 original size:160 final size:160
Alignment explanation
Indices: 6304969--6305314 Score: 453
Period size: 160 Copynumber: 2.1 Consensus size: 160
6304959 AACTTGTTTC
* *
6304969 TGATAAGGCATTGTGTGACTGACTTTGGGCATTGCCTGACTAGTTTTTGATAAGGCATTGCGTGA
1 TGATAAGGCATTGCGTGACTGACTTTGGGCATTGCCTGACTAGTTTTTGATAAGACATTGCGTGA
* * * *
6305034 CTAGTGTCTGATAAGGCATTGCGTGA-GTAATTGATAGGCATTACATGACTGACTTTGGGCATTG
66 CTAGTGTCTGATAAGGCATTACGTGACGTAATT--TAGGAATTACATGACTGACTTTGAGAATTG
6305098 CGTGACTAGTTTTTGATAAGGTGTTGACTAGT
129 CGTGACTAGTTTTTGATAAGGTGTTGACTAGT
**
6305130 TGATAA-GCATTGCGTGACTGACTTTGGGCATTGTGTGACTAGTTTTTGATAAGACATTGCGTGA
1 TGATAAGGCATTGCGTGACTGACTTTGGGCATTGCCTGACTAGTTTTTGATAAGACATTGCGTGA
* * * * * * *
6305194 CTAGTTTCTGATAAGGCATTACGTGACTTACTTTGGGAATTGCGTGACTGACTTTGAGAATTGTG
66 CTAGTGTCTGATAAGGCATTACGTGACGTAATTTAGGAATTACATGACTGACTTTGAGAATTGCG
*
6305259 TGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTT
131 TGACTAGTTTTTGATAAGG---TG-TTGACTAG--T
6305295 CTGATAAGGCATTGCGTGAC
1 -TGATAAGGCATTGCGTGAC
6305315 ATGTTGATAG
Statistics
Matches: 160, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
159 44 0.28
160 78 0.49
161 10 0.06
162 2 0.01
163 7 0.04
165 1 0.01
166 6 0.04
167 12 0.08
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (160 bp):
TGATAAGGCATTGCGTGACTGACTTTGGGCATTGCCTGACTAGTTTTTGATAAGACATTGCGTGA
CTAGTGTCTGATAAGGCATTACGTGACGTAATTTAGGAATTACATGACTGACTTTGAGAATTGCG
TGACTAGTTTTTGATAAGGTGTTGACTAGT
Found at i:6305241 original size:21 final size:21
Alignment explanation
Indices: 6305215--6305263 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6305205 TAAGGCATTA
* *
6305215 CGTGACTTACTTTGGGAATTG
1 CGTGACTGACTTTGAGAATTG
6305236 CGTGACTGACTTTGAGAATTG
1 CGTGACTGACTTTGAGAATTG
*
6305257 TGTGACT
1 CGTGACT
6305264 AGTTTTTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.37
Consensus pattern (21 bp):
CGTGACTGACTTTGAGAATTG
Found at i:6305259 original size:94 final size:94
Alignment explanation
Indices: 6305138--6305314 Score: 318
Period size: 94 Copynumber: 1.9 Consensus size: 94
6305128 GTTGATAAGC
* *
6305138 ATTGCGTGACTGACTTTGGGCATTGTGTGACTAGTTTTTGATAAGACATTGCGTGACTAGTTTCT
1 ATTGCGTGACTGACTTTGAGAATTGTGTGACTAGTTTTTGATAAGACATTGCGTGACTAGTTTCT
6305203 GATAAGGCATTACGTGACTTACTTTGGGA
66 GATAAGGCATTACGTGACTTACTTTGGGA
*
6305232 ATTGCGTGACTGACTTTGAGAATTGTGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCT
1 ATTGCGTGACTGACTTTGAGAATTGTGTGACTAGTTTTTGATAAGACATTGCGTGACTAGTTTCT
*
6305297 GATAAGGCATTGCGTGAC
66 GATAAGGCATTACGTGAC
6305315 ATGTTGATAG
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 79 1.00
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.37
Consensus pattern (94 bp):
ATTGCGTGACTGACTTTGAGAATTGTGTGACTAGTTTTTGATAAGACATTGCGTGACTAGTTTCT
GATAAGGCATTACGTGACTTACTTTGGGA
Found at i:6305401 original size:23 final size:23
Alignment explanation
Indices: 6305273--6305415 Score: 146
Period size: 23 Copynumber: 6.1 Consensus size: 23
6305263 TAGTTTTTGA
* *
6305273 TAAGGCATTGCGTGACTAGTTTCTG
1 TAAGGCATTGCGTGACTTG-TT-AG
*
6305298 ATAAGGCATTGCGTGACATGTT-G
1 -TAAGGCATTGCGTGACTTGTTAG
* * *
6305321 -ATAGGCATTGCATAACTTGTTAT
1 TA-AGGCATTGCGTGACTTGTTAG
* * *
6305344 TAAGGCATTGCATAACTTGTTAT
1 TAAGGCATTGCGTGACTTGTTAG
6305367 TAAGGCATTGCGTGACTTGTTAG
1 TAAGGCATTGCGTGACTTGTTAG
*
6305390 TAAGGCATTGCGTGACTAGTTAG
1 TAAGGCATTGCGTGACTTGTTAG
6305413 TAA
1 TAA
6305416 AGAATGTTAT
Statistics
Matches: 104, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
21 1 0.01
22 16 0.15
23 67 0.64
24 1 0.01
25 2 0.02
26 17 0.16
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (23 bp):
TAAGGCATTGCGTGACTTGTTAG
Found at i:6306514 original size:15 final size:15
Alignment explanation
Indices: 6306493--6306537 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
6306483 GTTATCTTCT
*
6306493 CTGCAATCACATTGC
1 CTGCAATCACATTAC
*
6306508 TTGCAATCACATTAC
1 CTGCAATCACATTAC
6306523 CTGCAATCACATTAC
1 CTGCAATCACATTAC
6306538 ATTGTAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (15 bp):
CTGCAATCACATTAC
Found at i:6316401 original size:21 final size:20
Alignment explanation
Indices: 6316371--6316420 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
6316361 TTAAAGTAAT
*
6316371 TTAAAATAAAATA-ACATAACA
1 TTAAACTAAAATATA-ATAA-A
*
6316392 TTAAACTAAAATATATTAAA
1 TTAAACTAAAATATAATAAA
6316412 TTAAACTAA
1 TTAAACTAA
6316421 TCAACATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 10 0.38
21 15 0.58
22 1 0.04
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (20 bp):
TTAAACTAAAATATAATAAA
Found at i:6320919 original size:53 final size:53
Alignment explanation
Indices: 6320862--6321018 Score: 269
Period size: 53 Copynumber: 3.0 Consensus size: 53
6320852 ATGAAAAACC
6320862 ATGAATGTTCATTCCCTGAAGTGAATGTGACAAACGAGCTACTAATAAAAATT
1 ATGAATGTTCATTCCCTGAAGTGAATGTGACAAACGAGCTACTAATAAAAATT
*
6320915 ATGAATGTTCATTCCCTAAAGTGAATGTGACAAACGAGCTACTAATAAAAATT
1 ATGAATGTTCATTCCCTGAAGTGAATGTGACAAACGAGCTACTAATAAAAATT
* * * *
6320968 ATGAATGTTCATTCTCTGAAGTAAATGCGACAAACGAGCTACAAATAAAAA
1 ATGAATGTTCATTCCCTGAAGTGAATGTGACAAACGAGCTACTAATAAAAA
6321019 AAATTATAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 98 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (53 bp):
ATGAATGTTCATTCCCTGAAGTGAATGTGACAAACGAGCTACTAATAAAAATT
Found at i:6321068 original size:106 final size:105
Alignment explanation
Indices: 6320862--6321057 Score: 259
Period size: 106 Copynumber: 1.8 Consensus size: 105
6320852 ATGAAAAACC
* * * *
6320862 ATGAATGTTCATTCCCTGAAGTGAATGTGACAAACGAGCTACTAATAAAAATTATGAATGTTCAT
1 ATGAATGTTCATTCCCTGAAGTAAATGCGACAAACGAGCTACTAAAAAAAATTATAAATGTTCAT
6320927 TCCCTAAAGTGAATGTGACAAACGAGCTACTAATAAAAATT
66 TCCCTAAAGTGAATGTGACAAACGA-CTACTAATAAAAATT
*
6320968 ATGAATGTTCATTCTCTGAAGTAAATGCGACAAACGAGCTACAAATAAAAAAAATTATAAATTCG
1 ATGAATGTTCATTCCCTGAAGTAAATGCGACAAACGAGCTAC---TAAAAAAAATTATAAA-T-G
* *
6321033 TAT-ATTTCCTGAAGTGAATGTGACA
61 T-TCATTCCCTAAAGTGAATGTGACA
6321058 TCATTTAATA
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
106 39 0.51
109 14 0.18
110 1 0.01
111 22 0.29
112 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (105 bp):
ATGAATGTTCATTCCCTGAAGTAAATGCGACAAACGAGCTACTAAAAAAAATTATAAATGTTCAT
TCCCTAAAGTGAATGTGACAAACGACTACTAATAAAAATT
Found at i:6321501 original size:20 final size:20
Alignment explanation
Indices: 6321476--6321521 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
6321466 TTTTGACCCC
6321476 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
6321496 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
6321516 ATTTGA
1 ATTTGA
6321522 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:6321597 original size:28 final size:27
Alignment explanation
Indices: 6321566--6321618 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
6321556 TTTGGAGTAT
*
6321566 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
6321594 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
6321619 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:6321624 original size:28 final size:28
Alignment explanation
Indices: 6321566--6321624 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
6321556 TTTGGAGTAT
* *
6321566 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
6321594 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
6321622 AGG
1 AGG
6321625 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:6324215 original size:26 final size:26
Alignment explanation
Indices: 6324128--6324215 Score: 92
Period size: 26 Copynumber: 3.4 Consensus size: 26
6324118 TTTTAATTAC
* *
6324128 AATTTTACCACTAGAAGTGGATGGAT
1 AATTTTACCATTAGAAGTGGATAGAT
* **
6324154 AATTTTATCATCT-GAA-TTTA-AGAAT
1 AATTTTACCAT-TAGAAGTGGATAG-AT
6324179 AATTTTACCATTAGAAGTGGATAGAT
1 AATTTTACCATTAGAAGTGGATAGAT
6324205 AATTTTACCAT
1 AATTTTACCAT
6324216 AAAAAATGGA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
24 2 0.04
25 17 0.35
26 27 0.55
27 3 0.06
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (26 bp):
AATTTTACCATTAGAAGTGGATAGAT
Found at i:6324225 original size:26 final size:26
Alignment explanation
Indices: 6324177--6324226 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6324167 GAATTTAAGA
* * *
6324177 ATAATTTTACCATTAGAAGTGGATAG
1 ATAATTTTACCATAAAAAATGGATAG
6324203 ATAATTTTACCATAAAAAATGGAT
1 ATAATTTTACCATAAAAAATGGAT
6324227 GGATGCCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (26 bp):
ATAATTTTACCATAAAAAATGGATAG
Found at i:6344039 original size:68 final size:68
Alignment explanation
Indices: 6343873--6344061 Score: 181
Period size: 68 Copynumber: 2.8 Consensus size: 68
6343863 GCTTACTCAT
* *
6343873 CTCATA-AGGTATATGAGAA-ATACATCATATACATAATCTCATGGCATTCATCATGCTTTCTCA
1 CTCATATA-GTATAT-AGAATATAAATCATATACATAATCTCATGGCATTCATCATGCTGTCTCA
*
6343936 ATCAT
64 ATCAC
* * * * * *
6343941 CTCATGTAGTATTTGGAATATACATTATATACATAATCTCATGGCATTCGTCATGCATAGT-TC-
1 CTCATATAGTATATAGAATATAAATCATATACATAATCTCATGGCATTCATCATGC-T-GTCTCA
6344004 ATCAC
64 ATCAC
* * * *
6344009 CTCATAT-GATATATAGAATTTAAATCATATACATAATCTTATCGTATTCATCA
1 CTCATATAG-TATATAGAATATAAATCATATACATAATCTCATGGCATTCATCA
6344062 AGTGATTTAA
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
67 4 0.04
68 90 0.91
69 4 0.04
70 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.37
Consensus pattern (68 bp):
CTCATATAGTATATAGAATATAAATCATATACATAATCTCATGGCATTCATCATGCTGTCTCAAT
CAC
Found at i:6351101 original size:23 final size:23
Alignment explanation
Indices: 6351074--6351124 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6351064 GTTTAGAGTT
* * *
6351074 TGTGAAATGGCATGTTGGGAATG
1 TGTGAAACGACATGGTGGGAATG
*
6351097 TGTGACACGACATGGTGGGAATG
1 TGTGAAACGACATGGTGGGAATG
6351120 TGTGA
1 TGTGA
6351125 CACGGCTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.39, T:0.27
Consensus pattern (23 bp):
TGTGAAACGACATGGTGGGAATG
Found at i:6351125 original size:23 final size:23
Alignment explanation
Indices: 6351084--6351128 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
6351074 TGTGAAATGG
*
6351084 CATGTTGGGAATGTGTGACACGA
1 CATGGTGGGAATGTGTGACACGA
6351107 CATGGTGGGAATGTGTGACACG
1 CATGGTGGGAATGTGTGACACG
6351129 GCTATGACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.38, T:0.24
Consensus pattern (23 bp):
CATGGTGGGAATGTGTGACACGA
Found at i:6351163 original size:58 final size:58
Alignment explanation
Indices: 6351101--6351246 Score: 193
Period size: 58 Copynumber: 2.5 Consensus size: 58
6351091 GGAATGTGTG
* * * *
6351101 ACACGACATGGTGGGAATGTGTGACACGGCTATGACATGGCAGGGTTTAGAGTTTGTA
1 ACACGACATGGAGGGAATCTGTGACACGACTATAACATGGCAGGGTTTAGAGTTTGTA
* *
6351159 ACACGTCATGGAGGGAATCTGTGACACGACTATAACATGGCAGGGTTTAGAGTTTGTG
1 ACACGACATGGAGGGAATCTGTGACACGACTATAACATGGCAGGGTTTAGAGTTTGTA
* * * * *
6351217 ACAAGCCATGAAAGGAATTTGTGACACGAC
1 ACACGACATGGAGGGAATCTGTGACACGAC
6351247 AGGGTTCAGA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 77 1.00
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (58 bp):
ACACGACATGGAGGGAATCTGTGACACGACTATAACATGGCAGGGTTTAGAGTTTGTA
Found at i:6351272 original size:47 final size:47
Alignment explanation
Indices: 6351207--6351553 Score: 319
Period size: 47 Copynumber: 7.4 Consensus size: 47
6351197 GGCAGGGTTT
* * * *
6351207 AGAGTTTGTGACAAGCCATGAAAGGAATTTGTGACACGACAGGGTTC
1 AGAGTTTGTGACACGCCATGGAAGGAATCTGTGACACGACAGCGTTC
* * * * *
6351254 AGAGTTTGTGACACGCCATGGAGGGAATCTATGATACGACAACATTC
1 AGAGTTTGTGACACGCCATGGAAGGAATCTGTGACACGACAGCGTTC
* * * * * * *
6351301 AGAGTTTATGACACGACATGGAGGGAATCTATGACATGCCAGCTTTC
1 AGAGTTTGTGACACGCCATGGAAGGAATCTGTGACACGACAGCGTTC
* * * *
6351348 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGTCAGCCTTT
1 AGAGTTTGTGACACGCCATGGAAGGAATCTGTGACACGACAGCGTTC
* * * *
6351395 AGAGTTTGTGACATGCCATGG-AGGAAATCTGTGATAGGATAGCGTTC
1 AGAGTTTGTGACACGCCATGGAAGG-AATCTGTGACACGACAGCGTTC
* *
6351442 AGAGTTTGTGACACGCCATAG-AGGAAATCTGTGACACGACAAG-GTTA
1 AGAGTTTGTGACACGCCATGGAAGG-AATCTGTGACACGAC-AGCGTTC
* * * * * *
6351489 AGAGTTTGTCAAACTCCATGG-A-G-ATCTGTGACACGGCAGGGTTT
1 AGAGTTTGTGACACGCCATGGAAGGAATCTGTGACACGACAGCGTTC
* *
6351533 AGAGTGTGTGACACGGCATGG
1 AGAGTTTGTGACACGCCATGG
6351554 CAATTTATGA
Statistics
Matches: 249, Mismatches: 48, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
43 2 0.01
44 32 0.13
46 3 0.01
47 210 0.84
48 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (47 bp):
AGAGTTTGTGACACGCCATGGAAGGAATCTGTGACACGACAGCGTTC
Found at i:6351381 original size:141 final size:140
Alignment explanation
Indices: 6351202--6351553 Score: 386
Period size: 141 Copynumber: 2.5 Consensus size: 140
6351192 AACATGGCAG
* * * * *
6351202 GGTTTAGAGTTTGTGACAAGCCATGAAAGGAATTTGTGACACGACAGGGTTCAGAGTTTGTGACA
1 GGTTAAGAGTTTGTGACACGCCATG-GAGGAATCTGTGACACGACAGGGTTTAGAGTTTGTGACA
* * *
6351267 CGCCATGGAGGGAATCTATGATACGACAACATTCAGAGTTTATGACACGACATGGAGGGAATCTA
65 CGCCATGGAGGAAATCTATGATACGACAACATTCAGAGTTTATGACACGACATAGAGGAAATCTA
* *
6351332 TGACATG-CCA
130 TGACACGACAA
* * * **
6351342 GCTTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGTCAGCCTTTAGAGTTTGTGAC
1 G-GTTAAGAGTTTGTGACACGCCATGGA-GGAATCTGTGACACGACAGGGTTTAGAGTTTGTGAC
* * * * * * * *
6351407 ATGCCATGGAGGAAATCTGTGATAGGATAGCGTTCAGAGTTTGTGACACGCCATAGAGGAAATCT
64 ACGCCATGGAGGAAATCTATGATACGACAACATTCAGAGTTTATGACACGACATAGAGGAAATCT
*
6351472 GTGACACGACAA
129 ATGACACGACAA
* * * * *
6351484 GGTTAAGAGTTTGTCAAACTCCATGGA-G-ATCTGTGACACGGCAGGGTTTAGAGTGTGTGACAC
1 GGTTAAGAGTTTGTGACACGCCATGGAGGAATCTGTGACACGACAGGGTTTAGAGTTTGTGACAC
*
6351547 GGCATGG
66 GCCATGG
6351554 CAATTTATGA
Statistics
Matches: 175, Mismatches: 34, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
138 36 0.21
139 1 0.01
140 2 0.01
141 133 0.76
142 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (140 bp):
GGTTAAGAGTTTGTGACACGCCATGGAGGAATCTGTGACACGACAGGGTTTAGAGTTTGTGACAC
GCCATGGAGGAAATCTATGATACGACAACATTCAGAGTTTATGACACGACATAGAGGAAATCTAT
GACACGACAA
Found at i:6351493 original size:94 final size:93
Alignment explanation
Indices: 6351202--6351553 Score: 352
Period size: 94 Copynumber: 3.8 Consensus size: 93
6351192 AACATGGCAG
* * *
6351202 GGTTTAGAGTTTGTGACAAGCCATGAAAGGAATTTGTGACACGACAGGGTTCAGAGTTTGTGACA
1 GGTTTAGAGTTTGTGACAAGCCATG-GAGGAATCTGTGACACGACAGCGTTCAGAGTTTGTGACA
* *
6351267 CGCCATGGAGGGAATCTATGATACGACAA
65 CGCCATGGAGGGAATCTGTGACACGACAA
** * * * * * * * *
6351296 CATTCAGAGTTTATGACACGACATGGAGGGAATCTATGACATGCCAGCTTTCAGAGTTTGTGACA
1 GGTTTAGAGTTTGTGACAAGCCATGGA-GGAATCTGTGACACGACAGCGTTCAGAGTTTGTGACA
*
6351361 CGCCATGGAGGGAATCTGTGACACGTC-A
65 CGCCATGGAGGGAATCTGTGACACGACAA
* * * * *
6351389 GCCTTTAGAGTTTGTGACATGCCATGGAGGAAATCTGTGATAGGATAGCGTTCAGAGTTTGTGAC
1 G-GTTTAGAGTTTGTGACAAGCCATGGAGG-AATCTGTGACACGACAGCGTTCAGAGTTTGTGAC
* *
6351454 ACGCCATAGAGGAAATCTGTGACACGACAA
64 ACGCCATGGAGGGAATCTGTGACACGACAA
* * * * * * *
6351484 GGTTAAGAGTTTGTCA-AACTCCATGGA-G-ATCTGTGACACGGCAGGGTTTAGAGTGTGTGACA
1 GGTTTAGAGTTTGTGACAA-GCCATGGAGGAATCTGTGACACGACAGCGTTCAGAGTTTGTGACA
*
6351546 CGGCATGG
65 CGCCATGG
6351554 CAATTTATGA
Statistics
Matches: 208, Mismatches: 45, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
91 33 0.16
93 6 0.03
94 167 0.80
95 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (93 bp):
GGTTTAGAGTTTGTGACAAGCCATGGAGGAATCTGTGACACGACAGCGTTCAGAGTTTGTGACAC
GCCATGGAGGGAATCTGTGACACGACAA
Found at i:6352217 original size:31 final size:31
Alignment explanation
Indices: 6352179--6352411 Score: 380
Period size: 31 Copynumber: 7.5 Consensus size: 31
6352169 GTGTCAACGT
* *
6352179 TGGCGTGTTACAACATTTGAC-TTGATACGCA
1 TGGCGTGTTACAACATTTTACGTT-ATATGCA
*
6352210 TGGCGTGTTACAACATTTTACATTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
6352241 TGGCGTGTTACAACATTTTACGTTTTATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
* *
6352272 T-GTGTGTTATAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
6352302 TGGCGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
6352333 TGGCGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
6352364 TGGCGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
6352395 TTGCGTGTTACAACATT
1 TGGCGTGTTACAACATT
6352412 ATGGGTTAAC
Statistics
Matches: 190, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
30 27 0.14
31 161 0.85
32 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (31 bp):
TGGCGTGTTACAACATTTTACGTTATATGCA
Found at i:6352346 original size:123 final size:124
Alignment explanation
Indices: 6352179--6352411 Score: 389
Period size: 123 Copynumber: 1.9 Consensus size: 124
6352169 GTGTCAACGT
6352179 TGGCGTGTTACAACATTTGACTTGATACGCATGGCGTGTTACAACATTTTACATTATATGCATGG
1 TGGCGTGTTACAACATTTGACTTGATACGCATGGCGTGTTACAACATTTTACATTATATGCATGG
* * *
6352244 CGTGTTACAACATTTTACGTTTTATGCA-TGTGTGTTATAACATTTTACGTTATATGCA
66 CGTGTTACAACATTTTACGTTATATGCATTGCGTGTTACAACATTTTACGTTATATGCA
* * *
6352302 TGGCGTGTTACAACATTTTACGTT-ATATGCATGGCGTGTTACAACATTTTACGTTATATGCATG
1 TGGCGTGTTACAACATTTGAC-TTGATACGCATGGCGTGTTACAACATTTTACATTATATGCATG
6352366 GCGTGTTACAACATTTTACGTTATATGCATTGCGTGTTACAACATT
65 GCGTGTTACAACATTTTACGTTATATGCATTGCGTGTTACAACATT
6352412 ATGGGTTAAC
Statistics
Matches: 102, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
123 86 0.84
124 16 0.16
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (124 bp):
TGGCGTGTTACAACATTTGACTTGATACGCATGGCGTGTTACAACATTTTACATTATATGCATGG
CGTGTTACAACATTTTACGTTATATGCATTGCGTGTTACAACATTTTACGTTATATGCA
Found at i:6354088 original size:145 final size:145
Alignment explanation
Indices: 6353818--6354089 Score: 384
Period size: 145 Copynumber: 1.9 Consensus size: 145
6353808 CGATAAAGAC
* * * *
6353818 GGTTCTAACGGTTTGTGTTCAACAATTCTATATGTGATTATCGAATAACATATCTGTGTTTGCAG
1 GGTTATAACAGTTTGTGCTCAACAATTCCATATGTGATTATCGAATAACATATCTGTGTTTGCAG
* * *
6353883 TTGGACCATGCGACGACAGCTCCACAACCACCGAGAGGTCCTCTTCAAACTCACAGTGCTAACAA
66 TTAGACCATGCGACGACAACTCCACAACCACCGAGAGGTCCTCTTCAAACTCACAATGCTAACAA
6353948 CGAGCCAGTAAGGAT
131 CGAGCCAGTAAGGAT
* *
6353963 GGTTATAACAGTTTGTGCTCAATAATTCCATATGTGATTATCGAATAACATATCTTTGTTTGCAG
1 GGTTATAACAGTTTGTGCTCAACAATTCCATATGTGATTATCGAATAACATATCTGTGTTTGCAG
* * * ** * *
6354028 TTAGACCATGCGATGATAACTCCTCAACCATTGAGAGGTTCTCTTCAGA-TGCACAATGCTAA
66 TTAGACCATGCGACGACAACTCCACAACCACCGAGAGGTCCTCTTCAAACT-CACAATGCTAA
6354090 TGACCCATCG
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
144 1 0.01
145 109 0.99
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (145 bp):
GGTTATAACAGTTTGTGCTCAACAATTCCATATGTGATTATCGAATAACATATCTGTGTTTGCAG
TTAGACCATGCGACGACAACTCCACAACCACCGAGAGGTCCTCTTCAAACTCACAATGCTAACAA
CGAGCCAGTAAGGAT
Found at i:6356319 original size:31 final size:31
Alignment explanation
Indices: 6356284--6356353 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
6356274 AACAAGTCAG
6356284 CGTGTCACGCCAAGTATCTACTTCCACTCAA
1 CGTGTCACGCCAAGTATCTACTTCCACTCAA
* *
6356315 CGTGTCATGCCAAGTATCTGCTTCCACTCAA
1 CGTGTCACGCCAAGTATCTACTTCCACTCAA
6356346 CGTGTCAC
1 CGTGTCAC
6356354 CACAATTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.27
Consensus pattern (31 bp):
CGTGTCACGCCAAGTATCTACTTCCACTCAA
Found at i:6356540 original size:31 final size:31
Alignment explanation
Indices: 6356488--6356656 Score: 90
Period size: 31 Copynumber: 5.7 Consensus size: 31
6356478 TGGGGCATGC
* *
6356488 CGTGTCACC-CCATAATACTGCAAGAAGTCAG
1 CGTGTCACCACAAAAAT-CTGCAAGAAGTCAG
* * * *
6356519 CGTGTCACCACAAAAATCTGCATGCACTCAA
1 CGTGTCACCACAAAAATCTGCAAGAAGTCAG
* *
6356550 CGTGTCACCAC---AAT-TG--GGGAGT--G
1 CGTGTCACCACAAAAATCTGCAAGAAGTCAG
* *
6356573 CCGTGTCACCTC-ACAATACTGCAAGAAGTCAG
1 -CGTGTCACCACAAAAAT-CTGCAAGAAGTCAG
* * * * *
6356605 TGTGTCACCACAGAAATCTGCATGCACTCAG
1 CGTGTCACCACAAAAATCTGCAAGAAGTCAG
6356636 CGTGTCA-CACAAAATATCTGC
1 CGTGTCACCACAAAA-ATCTGC
6356657 TTCCAATCAA
Statistics
Matches: 104, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
24 10 0.10
25 3 0.03
26 3 0.03
27 2 0.02
28 5 0.05
30 10 0.10
31 62 0.60
32 9 0.09
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.21
Consensus pattern (31 bp):
CGTGTCACCACAAAAATCTGCAAGAAGTCAG
Found at i:6356543 original size:118 final size:117
Alignment explanation
Indices: 6356245--6356557 Score: 423
Period size: 117 Copynumber: 2.7 Consensus size: 117
6356235 CATCCCATTA
* * * * ** * *
6356245 GGGCATGGCGTGTCA-CCCTTGAATACTGGAACAAGTCAGCGTGTCACGC-CAAGTATCTACTTC
1 GGGCATGCCGTGTCACCCCAT-AATACTGCAAGAAGTCAGCGTGTCAC-CACAAAAATCTACATG
* *
6356308 CACTCAACGTGTCATGCCAAGTATCTGCTTCCACTCAACGTGTCACCACAATTG
64 CACTCAACGTGTCACGCCAAGTATCTGCTTCCACTCAACGTGTCACCACAAATG
* * * * *
6356362 GGGCGTGCCGTGTCACCCCACAATATTGCAAGAAGTCAACGTGTCACCACAGAAATCTACATGCA
1 GGGCATGCCGTGTCACCCCATAATACTGCAAGAAGTCAGCGTGTCACCACAAAAATCTACATGCA
* *
6356427 CTCAGCGTGTCACGCCAAGTATCTGCTTCCACTCAACGTGTCATCACAAGATG
66 CTCAACGTGTCACGCCAAGTATCTGCTTCCACTCAACGTGTCACCACAA-ATG
*
6356480 GGGCATGCCGTGTCACCCCATAATACTGCAAGAAGTCAGCGTGTCACCACAAAAATCTGCATGCA
1 GGGCATGCCGTGTCACCCCATAATACTGCAAGAAGTCAGCGTGTCACCACAAAAATCTACATGCA
6356545 CTCAACGTGTCAC
66 CTCAACGTGTCAC
6356558 CACAATTGGG
Statistics
Matches: 169, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
116 1 0.01
117 92 0.54
118 76 0.45
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (117 bp):
GGGCATGCCGTGTCACCCCATAATACTGCAAGAAGTCAGCGTGTCACCACAAAAATCTACATGCA
CTCAACGTGTCACGCCAAGTATCTGCTTCCACTCAACGTGTCACCACAAATG
Found at i:6356610 original size:86 final size:86
Alignment explanation
Indices: 6356428--6356647 Score: 293
Period size: 86 Copynumber: 2.5 Consensus size: 86
6356418 CTACATGCAC
** * *
6356428 TCAGCGTGTCACGC-CAAGTATCTGCTTCCACTCAACGTGTCATCACAAGATGGGGCATGCCGTG
1 TCAGCGTGTCAC-CACAAAAATCTGCATGCACTCAACGTGTCA-CACAAGATGGGGCATGCCGTG
*
6356492 TCACCCCATAATACTGCAAGAAG
64 TCACCCCACAATACTGCAAGAAG
*
6356515 TCAGCGTGTCACCACAAAAATCTGCATGCACTCAACGTGTCACCACAA-TTGGGG-AGTGCCGTG
1 TCAGCGTGTCACCACAAAAATCTGCATGCACTCAACGTGTCA-CACAAGATGGGGCA-TGCCGTG
*
6356578 TCACCTCACAATACTGCAAGAAG
64 TCACCCCACAATACTGCAAGAAG
* * *
6356601 TCAGTGTGTCACCACAGAAATCTGCATGCACTCAGCGTGTCACACAA
1 TCAGCGTGTCACCACAAAAATCTGCATGCACTCAACGTGTCACACAA
6356648 AATATCTGCT
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
85 6 0.05
86 73 0.61
87 41 0.34
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (86 bp):
TCAGCGTGTCACCACAAAAATCTGCATGCACTCAACGTGTCACACAAGATGGGGCATGCCGTGTC
ACCCCACAATACTGCAAGAAG
Found at i:6356634 original size:204 final size:203
Alignment explanation
Indices: 6356330--6356759 Score: 671
Period size: 204 Copynumber: 2.1 Consensus size: 203
6356320 CATGCCAAGT
* * * *
6356330 ATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATATTGCAAGA
1 ATCTGCATGCACTCAACGTGTCACCACAATTGGGGAGTGCCGTGTCACCCCACAATACTGCAAGA
* * * *
6356395 AGTCAACGTGTCACCACAGAAATCTACATGCACTCAGCGTGTCACGCCAAGTATCTGCTTCCACT
66 AGTCAACGTGTCACCACAGAAATCTACATGCACTCAGCGTGTCACACAAAATATCTGCTTCCAAT
* * *
6356460 CAACGTGTCATCACAAGATGGGGCATGCCGTGTCACCCCATAATACTGCAAGAAGTCAGCGTGTC
131 CAACGTGTCACCACAA-ATGGGGCATGCCGTGTCACCCCACAATACTGCAAGAAGTCAACGTGTC
6356525 ACCACAAAA
195 ACCACAAAA
*
6356534 ATCTGCATGCACTCAACGTGTCACCACAATTGGGGAGTGCCGTGTCACCTCACAATACTGCAAGA
1 ATCTGCATGCACTCAACGTGTCACCACAATTGGGGAGTGCCGTGTCACCCCACAATACTGCAAGA
** *
6356599 AGTCAGTGTGTCACCACAGAAATCTGCATGCACTCAGCGTGTCACACAAAATATCTGCTTCCAAT
66 AGTCAACGTGTCACCACAGAAATCTACATGCACTCAGCGTGTCACACAAAATATCTGCTTCCAAT
* * *
6356664 CAATGTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATACTGCAAGAAGTCAACGTGTCA
131 CAACGTGTCACCACAAATGGGGCATGCCGTGTCACCCCACAATACTGCAAGAAGTCAACGTGTCA
6356729 CCACAAAA
196 CCACAAAA
* *
6356737 ATCTACATGCACTCAGCGTGTCA
1 ATCTGCATGCACTCAACGTGTCA
6356760 GACCAAGCAT
Statistics
Matches: 206, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
203 74 0.36
204 132 0.64
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (203 bp):
ATCTGCATGCACTCAACGTGTCACCACAATTGGGGAGTGCCGTGTCACCCCACAATACTGCAAGA
AGTCAACGTGTCACCACAGAAATCTACATGCACTCAGCGTGTCACACAAAATATCTGCTTCCAAT
CAACGTGTCACCACAAATGGGGCATGCCGTGTCACCCCACAATACTGCAAGAAGTCAACGTGTCA
CCACAAAA
Found at i:6356655 original size:117 final size:117
Alignment explanation
Indices: 6356515--6356883 Score: 501
Period size: 117 Copynumber: 3.1 Consensus size: 117
6356505 CTGCAAGAAG
* *
6356515 TCAGCGTGTCACCACAAAAATCTGCATGCACTCAACGTGTCACCACAATTGGGGAGTGCCGTGTC
1 TCAGCGTGTCACCACAAAAATCTGCTTCCACTCAACGTGTCACCACAATTGGGGAGTGCCGTGTC
* *
6356580 ACCTCACAATACTGCAAGAAGTCAGTGTGTCACCACAGAAATCTGCATGCAC
66 ACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
* * *
6356632 TCAGCGTGTCA-CACAAAATATCTGCTTCCAATCAATGTGTCACCACAATTGGGGCGTGCCGTGT
1 TCAGCGTGTCACCACAAAA-ATCTGCTTCCACTCAACGTGTCACCACAATTGGGGAGTGCCGTGT
* * *
6356696 CACCCCACAATACTGCAAGAAGTCAACGTGTCACCACAAAAATCTACATGCAC
65 CACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
* ** * * *
6356749 TCAGCGTGTCA-GACCAAGCATTTGCTTCCACTCAGCGTGTCATCACAATATGGGGCA-TGCCGT
1 TCAGCGTGTCACCA-CAAAAATCTGCTTCCACTCAACGTGTCACCACAAT-TGGGG-AGTGCCGT
* * * *
6356812 GTCACCCCACAATATTGCAAGAAGTTAGCGTGTCACCATAGATATCTGCATGCAC
63 GTCACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
6356867 TCAGCGTGTCACCACAA
1 TCAGCGTGTCACCACAA
6356884 TTGGGGCGTG
Statistics
Matches: 220, Mismatches: 27, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
116 7 0.03
117 136 0.62
118 76 0.35
119 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (117 bp):
TCAGCGTGTCACCACAAAAATCTGCTTCCACTCAACGTGTCACCACAATTGGGGAGTGCCGTGTC
ACCCCACAATACTGCAAGAAGTCAGCGTGTCACCACAGAAATCTGCATGCAC
Found at i:6356815 original size:87 final size:86
Alignment explanation
Indices: 6356722--6356968 Score: 225
Period size: 86 Copynumber: 2.9 Consensus size: 86
6356712 AAGAAGTCAA
* * *
6356722 CGTGTCACCACA-AAAATCTACATGCACTCAGCGTGTCAGACCA-AGCAT-T-TGCTTCCACTCA
1 CGTGTCACCACACAAAAT-TACAAGAACTCAGCGTGTC--ACCATAG-ATATCTGCATCCACTCA
*
6356783 GCGTGTCATCACAATATGGGGCATGC
62 GCGTGTCACCACAAT-TGGGGCATGC
* * * * * *
6356809 CGTGTCACCCCACAATATTGCAAGAAGTTAGCGTGTCACCATAGATATCTGCATGCACTCAGCGT
1 CGTGTCACCACACAAAATTACAAGAACTCAGCGTGTCACCATAGATATCTGCATCCACTCAGCGT
*
6356874 GTCACCACAATTGGGGCGTGC
66 GTCACCACAATTGGGGCATGC
* * * * * * * * * *
6356895 CGTGTCACCTCACAATACTGCAAGAAGTCAGTGTGTCACCATAGAAATTTGGATGCACTCAGCGT
1 CGTGTCACCACACAAAATTACAAGAACTCAGCGTGTCACCATAGATATCTGCATCCACTCAGCGT
6356960 GTCA-CACAA
66 GTCACCACAA
6356969 AAGTATCTGC
Statistics
Matches: 138, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
85 11 0.08
86 74 0.54
87 49 0.36
88 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (86 bp):
CGTGTCACCACACAAAATTACAAGAACTCAGCGTGTCACCATAGATATCTGCATCCACTCAGCGT
GTCACCACAATTGGGGCATGC
Found at i:6356835 original size:321 final size:322
Alignment explanation
Indices: 6356326--6357200 Score: 1369
Period size: 321 Copynumber: 2.7 Consensus size: 322
6356316 GTGTCATGCC
*
6356326 AAGTATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATATTGC
1 AAGTATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATACTGC
6356391 AAGAAGTCAACGTGTCACCACAGAAATCTACATGCACTCAGCGTGTCACGCCAAGTATCTGCTTC
66 AAGAAGTCAACGTGTCACCACAGAAATCTACATGCACTCAGCGTGTCACGCCAAGTATCTGCTTC
* *
6356456 CACTCAACGTGTCATCACAAGATGGGGCATGCCGTGTCACCCCATAATACTGCAAGAAGTCAGCG
131 CACTCAACGTGTCATCACAATATGGGGCATGCCGTGTCACCCCACAATACTGCAAGAAGTCAGCG
* *
6356521 TGTCACCACAAAAATCTGCATGCACTCAACGTGTCACCACAATTGGGGAGTGCCGTGTCACCTCA
196 TGTCACCACAGAAATCTGCATGCACTCAGCGTGTCACCACAATTGGGGAGTGCCGTGTCACCTCA
6356586 CAATACTGCAAGAAGTCAGTGTGTCACCACAGAAATCTGCATGCACTCAGCGTGTCACACAA
261 CAATACTGCAAGAAGTCAGTGTGTCACCACAGAAATCTGCATGCACTCAGCGTGTCACACAA
* *
6356648 AA-TATCTGCTTCCAATCAATGTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATACTGC
1 AAGTATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATACTGC
* * *
6356712 AAGAAGTCAACGTGTCACCACAAAAATCTACATGCACTCAGCGTGTCA-GACCAAGCATTTGCTT
66 AAGAAGTCAACGTGTCACCACAGAAATCTACATGCACTCAGCGTGTCACG-CCAAGTATCTGCTT
* * *
6356776 CCACTCAGCGTGTCATCACAATATGGGGCATGCCGTGTCACCCCACAATATTGCAAGAAGTTAGC
130 CCACTCAACGTGTCATCACAATATGGGGCATGCCGTGTCACCCCACAATACTGCAAGAAGTCAGC
* * *
6356841 GTGTCACCATAGATATCTGCATGCACTCAGCGTGTCACCACAATTGGGGCGTGCCGTGTCACCTC
195 GTGTCACCACAGAAATCTGCATGCACTCAGCGTGTCACCACAATTGGGGAGTGCCGTGTCACCTC
* * *
6356906 ACAATACTGCAAGAAGTCAGTGTGTCACCATAGAAATTTGGATGCACTCAGCGTGTCACACAA
260 ACAATACTGCAAGAAGTCAGTGTGTCACCACAGAAATCTGCATGCACTCAGCGTGTCACACAA
* * * *
6356969 AAGTATCTGCTTCCACTCAACGTGTCACCACAAGATGGGGCATGCCATGTCACCCCACAATACTA
1 AAGTATCTGCTTCCACTCAACGTGTCACCACAA-TTGGGGCGTGCCGTGTCACCCCACAATACTG
* * * ** *
6357034 CAAGAAGTCAACGTGTCACCATAGAAATCTGCATGCACTCAGCGTATCACGTTAAGTATCTACTT
65 CAAGAAGTCAACGTGTCACCACAGAAATCTACATGCACTCAGCGTGTCACGCCAAGTATCTGCTT
* * * * * *
6357099 CCACTCAACTTGTCACCACAAT-TGGGGCATGTCGTGTTACACCACAATACTGTAAGAAGTCAGC
130 CCACTCAACGTGTCATCACAATATGGGGCATGCCGTGTCACCCCACAATACTGCAAGAAGTCAGC
* * *
6357163 GTATCACCACAGAAATCTACATGCACTCAGCATGTCAC
195 GTGTCACCACAGAAATCTGCATGCACTCAGCGTGTCAC
6357201 GCCAAGTATC
Statistics
Matches: 501, Mismatches: 48, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
320 1 0.00
321 300 0.60
322 99 0.20
323 100 0.20
324 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (322 bp):
AAGTATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATACTGC
AAGAAGTCAACGTGTCACCACAGAAATCTACATGCACTCAGCGTGTCACGCCAAGTATCTGCTTC
CACTCAACGTGTCATCACAATATGGGGCATGCCGTGTCACCCCACAATACTGCAAGAAGTCAGCG
TGTCACCACAGAAATCTGCATGCACTCAGCGTGTCACCACAATTGGGGAGTGCCGTGTCACCTCA
CAATACTGCAAGAAGTCAGTGTGTCACCACAGAAATCTGCATGCACTCAGCGTGTCACACAA
Found at i:6356917 original size:86 final size:86
Alignment explanation
Indices: 6356777--6356968 Score: 287
Period size: 86 Copynumber: 2.2 Consensus size: 86
6356767 CATTTGCTTC
* *
6356777 CACTCAGCGTGTCATCACAATATGGGGCATGCCGTGTCACCCCACAATATTGCAAGAAGTTAGCG
1 CACTCAGCGTGTCA-CACAATATGGGGCATGCCGTGTCACCCCACAATACTGCAAGAAGTCAGCG
*
6356842 TGTCACCATAGATATCTGCATG
65 TGTCACCATAGAAATCTGCATG
* * *
6356864 CACTCAGCGTGTCACCACAAT-TGGGGCGTGCCGTGTCACCTCACAATACTGCAAGAAGTCAGTG
1 CACTCAGCGTGTCA-CACAATATGGGGCATGCCGTGTCACCCCACAATACTGCAAGAAGTCAGCG
* *
6356928 TGTCACCATAGAAATTTGGATG
65 TGTCACCATAGAAATCTGCATG
6356950 CACTCAGCGTGTCACACAA
1 CACTCAGCGTGTCACACAA
6356969 AAGTATCTGC
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 5 0.05
86 71 0.74
87 20 0.21
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (86 bp):
CACTCAGCGTGTCACACAATATGGGGCATGCCGTGTCACCCCACAATACTGCAAGAAGTCAGCGT
GTCACCATAGAAATCTGCATG
Found at i:6357069 original size:205 final size:204
Alignment explanation
Indices: 6356668--6357083 Score: 625
Period size: 205 Copynumber: 2.0 Consensus size: 204
6356658 TCCAATCAAT
6356668 GTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATACTGCAAGAAGTCAACGTGTCACCAC
1 GTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATACTGCAAGAAGTCAACGTGTCACCAC
* * * * * *
6356733 AAAAATCTACATGCACTCAGCGTGTCAGACCAAGCATTTGCTTCCACTCAGCGTGTCATCACAAT
66 AAAAATCTACATGCACTCAGCGTGTCACACAAAGCATCTGCTTCCACTCAACGTGTCACCACAAG
* * * * * *
6356798 ATGGGGCATGCCGTGTCACCCCACAATATTGCAAGAAGTTAGCGTGTCACCATAGATATCTGCAT
131 ATGGGGCATGCCATGTCACCCCACAATACTACAAGAAGTCAACGTGTCACCATAGAAATCTGCAT
6356863 GCACTCAGC
196 GCACTCAGC
* ** *
6356872 GTGTCACCACAATTGGGGCGTGCCGTGTCACCTCACAATACTGCAAGAAGTCAGTGTGTCACCAT
1 GTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATACTGCAAGAAGTCAACGTGTCACCAC
* * ** *
6356937 AGAAATTTGGATGCACTCAGCGTGTCACACAAAAGTATCTGCTTCCACTCAACGTGTCACCACAA
66 AAAAATCTACATGCACTCAGCGTGTCACAC-AAAGCATCTGCTTCCACTCAACGTGTCACCACAA
6357002 GATGGGGCATGCCATGTCACCCCACAATACTACAAGAAGTCAACGTGTCACCATAGAAATCTGCA
130 GATGGGGCATGCCATGTCACCCCACAATACTACAAGAAGTCAACGTGTCACCATAGAAATCTGCA
6357067 TGCACTCAGC
195 TGCACTCAGC
*
6357077 GTATCAC
1 GTGTCAC
6357084 GTTAAGTATC
Statistics
Matches: 189, Mismatches: 22, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
204 86 0.46
205 103 0.54
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (204 bp):
GTGTCACCACAATTGGGGCGTGCCGTGTCACCCCACAATACTGCAAGAAGTCAACGTGTCACCAC
AAAAATCTACATGCACTCAGCGTGTCACACAAAGCATCTGCTTCCACTCAACGTGTCACCACAAG
ATGGGGCATGCCATGTCACCCCACAATACTACAAGAAGTCAACGTGTCACCATAGAAATCTGCAT
GCACTCAGC
Found at i:6357170 original size:117 final size:116
Alignment explanation
Indices: 6356854--6357235 Score: 460
Period size: 117 Copynumber: 3.3 Consensus size: 116
6356844 TCACCATAGA
* * * *
6356854 TATCTGCATGCACTCAGCGTGTCACCACAATTGGGGCGTGCCGTGTCACCTCACAATACTGCAAG
1 TATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCATGCCGTGTCACC-CACAATACTGCAAG
* * * *
6356919 AAGTCAGTGTGTCACCATAGAAATTTGGATGCACTCAGCGTGTCACACAAAAG
65 AAGTCAGCGTGTCACCATAGAAATCTGCATGCACTCAGCGTGTCAC-GAAAAG
* * *
6356972 TATCTGCTTCCACTCAACGTGTCACCACAAGATGGGGCATGCCATGTCACCCCACAATACTACAA
1 TATCTGCTTCCACTCAACGTGTCACCACAA-TTGGGGCATGCCGTGTCA-CCCACAATACTGCAA
* * **
6357037 GAAGTCAACGTGTCACCATAGAAATCTGCATGCACTCAGCGTATCACGTTAAG
64 GAAGTCAGCGTGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGAAAAG
* * * * *
6357090 TATCTACTTCCACTCAACTTGTCACCACAATTGGGGCATGTCGTGTTACACCACAATACTGTAAG
1 TATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCATGCCGTGTCAC-CCACAATACTGCAAG
* * * * **
6357155 AAGTCAGCGTATCACCACAGAAATCTACATGCACTCAGCATGTCACGCCAAG
65 AAGTCAGCGTGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGAAAAG
* *
6357207 TATCTGC-TCCACTTAGCGTGTCACCACAA
1 TATCTGCTTCCACTCAACGTGTCACCACAA
6357236 GATGTCATTA
Statistics
Matches: 226, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
116 20 0.09
117 77 0.34
118 58 0.26
119 69 0.31
120 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (116 bp):
TATCTGCTTCCACTCAACGTGTCACCACAATTGGGGCATGCCGTGTCACCCACAATACTGCAAGA
AGTCAGCGTGTCACCATAGAAATCTGCATGCACTCAGCGTGTCACGAAAAG
Found at i:6361152 original size:31 final size:31
Alignment explanation
Indices: 6361114--6361241 Score: 184
Period size: 31 Copynumber: 4.1 Consensus size: 31
6361104 TTTGTCAGTC
* *
6361114 ATGTTGTAACACGCCATGCATATAACTTAAA
1 ATGTTGTAACACACCATGCATATAACGTAAA
*
6361145 ATGTTGTAACACACCATGTATATAACGTAAA
1 ATGTTGTAACACACCATGCATATAACGTAAA
* *
6361176 ATGTTGTAACACGCCATGCATATAACATAAA
1 ATGTTGTAACACACCATGCATATAACGTAAA
* * *
6361207 AGGTCGTAACATACCATGCATATAACGTAAA
1 ATGTTGTAACACACCATGCATATAACGTAAA
6361238 ATGT
1 ATGT
6361242 GATAATACGC
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 85 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (31 bp):
ATGTTGTAACACACCATGCATATAACGTAAA
Found at i:6361253 original size:62 final size:62
Alignment explanation
Indices: 6361114--6361241 Score: 211
Period size: 62 Copynumber: 2.1 Consensus size: 62
6361104 TTTGTCAGTC
* * * *
6361114 ATGTTGTAACACGCCATGCATATAACTTAAAATGTTGTAACACACCATGTATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACATAAAAGGTCGTAACACACCATGCATATAACGTAAA
*
6361176 ATGTTGTAACACGCCATGCATATAACATAAAAGGTCGTAACATACCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACATAAAAGGTCGTAACACACCATGCATATAACGTAAA
6361238 ATGT
1 ATGT
6361242 GATAATACGC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (62 bp):
ATGTTGTAACACGCCATGCATATAACATAAAAGGTCGTAACACACCATGCATATAACGTAAA
Found at i:6361673 original size:63 final size:63
Alignment explanation
Indices: 6361599--6361722 Score: 194
Period size: 63 Copynumber: 2.0 Consensus size: 63
6361589 ACCACAGCTC
* * *
6361599 GATGACTATGGTGCTCAACAGAGAGTTGACAAAGCTCATACAGTTCAGAGAGCTGAGAGAGTT
1 GATGACGATGGTGCTCAACAGAGAGTTGACAAAGCTCAGACAGCTCAGAGAGCTGAGAGAGTT
* * *
6361662 GATGACGATGGTGCTCAACAGAGAGTTGACAGAGTTGAGACAGCTCAGAGAGCTGAGAGAG
1 GATGACGATGGTGCTCAACAGAGAGTTGACAAAGCTCAGACAGCTCAGAGAGCTGAGAGAG
6361723 AAAGATGAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.19
Consensus pattern (63 bp):
GATGACGATGGTGCTCAACAGAGAGTTGACAAAGCTCAGACAGCTCAGAGAGCTGAGAGAGTT
Found at i:6362865 original size:107 final size:106
Alignment explanation
Indices: 6362674--6362885 Score: 318
Period size: 107 Copynumber: 2.0 Consensus size: 106
6362664 GATTTTTTTT
* * *
6362674 TTCTAAACAAAATATAACCATCAATAATAATACAAAACATTGCTGTTTAAACCAATAGAAAAAGA
1 TTCTAAACAAAATATAACCATCAATAACAATACAAAACATTACTCTTTAAACCAATAGAAAAAGA
*
6362739 AATGCTAACATGAATTCATCACAAGTATCAAGCAATAAGAG
66 AATGCTAACATGAATTCATCACAAATATCAAGCAATAAGAG
*
6362780 TTCTAAACAAAAT-TCAACCATCAATAACAATACAAAACATTACTACTTTAAGCCAATAGAAAAA
1 TTCTAAACAAAATAT-AACCATCAATAACAATACAAAACATTACT-CTTTAAACCAATAGAAAAA
* * * *
6362844 GAAATGCTAACTTGAATTCATCATAAATATTAAGCAGTAAGA
64 GAAATGCTAACATGAATTCATCACAAATATCAAGCAATAAGA
6362886 AAGATCTAAG
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
105 1 0.01
106 40 0.42
107 54 0.57
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (106 bp):
TTCTAAACAAAATATAACCATCAATAACAATACAAAACATTACTCTTTAAACCAATAGAAAAAGA
AATGCTAACATGAATTCATCACAAATATCAAGCAATAAGAG
Found at i:6366703 original size:21 final size:22
Alignment explanation
Indices: 6366668--6366738 Score: 99
Period size: 22 Copynumber: 3.3 Consensus size: 22
6366658 TAATCACTAT
* *
6366668 GTGACTAGTTTTTAGACATTAC
1 GTGACTGGTTTTTAGACATTGC
* *
6366690 GTGATTGG-TTTTAGGCATTGC
1 GTGACTGGTTTTTAGACATTGC
6366711 GTGACTGGTTTTTAGACATTGC
1 GTGACTGGTTTTTAGACATTGC
6366733 GTGACT
1 GTGACT
6366739 AATTTTTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 18 0.43
22 24 0.57
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.41
Consensus pattern (22 bp):
GTGACTGGTTTTTAGACATTGC
Found at i:6366744 original size:22 final size:22
Alignment explanation
Indices: 6366668--6366746 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
6366658 TAATCACTAT
*
6366668 GTGACTAGTTTTTAGACATTAC
1 GTGACTAGTTTTTAGACATTGC
* * *
6366690 GTGA-TTGGTTTTAGGCATTGC
1 GTGACTAGTTTTTAGACATTGC
*
6366711 GTGACTGGTTTTTAGACATTGC
1 GTGACTAGTTTTTAGACATTGC
*
6366733 GTGACTAATTTTTA
1 GTGACTAGTTTTTA
6366747 AGCAATGCCT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 17 0.36
22 30 0.64
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (22 bp):
GTGACTAGTTTTTAGACATTGC
Found at i:6366784 original size:23 final size:23
Alignment explanation
Indices: 6366757--6366861 Score: 138
Period size: 23 Copynumber: 4.6 Consensus size: 23
6366747 AGCAATGCCT
* * *
6366757 AAGTCACACAATACTTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
*
6366780 TAGTCACGCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
*
6366803 AAGTCATGCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
* *
6366826 AAGTCACGCAATGCCATATTAAC
1 AAGTCACGCAATGCCTTACTAAC
*
6366849 CAGTCACGCAATG
1 AAGTCACGCAATG
6366862 TCCAAAGTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTACTAAC
Found at i:6366824 original size:46 final size:45
Alignment explanation
Indices: 6366772--6366906 Score: 134
Period size: 46 Copynumber: 3.0 Consensus size: 45
6366762 ACACAATACT
*
6366772 TTACTAACTAGTCACGCAATGCCTTACTAACAAGTCATGCAATGCC
1 TTACTAACTAGTCACGCAATGCC-TAATAACAAGTCATGCAATGCC
* * * *
6366818 TTACTAACAAGTCACGCAATGCCATATTAACCAGTCACGCAATGTCC
1 TTACTAACTAGTCACGCAATGCC-TAATAACAAGTCATGCAATG-CC
* * *
6366865 --A--AAGTCAGTCACGCAATGCCTAAAAACTAGTCATGCAATGCC
1 TTACTAACT-AGTCACGCAATGCCTAATAACAAGTCATGCAATGCC
6366907 AAAAAACCAC
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.03
43 18 0.24
44 14 0.18
45 1 0.01
46 39 0.51
47 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (45 bp):
TTACTAACTAGTCACGCAATGCCTAATAACAAGTCATGCAATGCC
Found at i:6369657 original size:24 final size:23
Alignment explanation
Indices: 6369630--6369687 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
6369620 AATCTAGTTA
* *
6369630 TATTAGAATAACAATTCCTAATTT
1 TATTAGGATAA-AATTCCTAATTG
*
6369654 TATTAGGATAAGATTCCTAATTG
1 TATTAGGATAAAATTCCTAATTG
6369677 TATTAGGATAA
1 TATTAGGATAA
6369688 GGTTATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (23 bp):
TATTAGGATAAAATTCCTAATTG
Found at i:6369673 original size:23 final size:23
Alignment explanation
Indices: 6369643--6369688 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
6369633 TAGAATAACA
*
6369643 ATTCCTAATTTTATTAGGATAAG
1 ATTCCTAATTGTATTAGGATAAG
6369666 ATTCCTAATTGTATTAGGATAAG
1 ATTCCTAATTGTATTAGGATAAG
6369689 GTTATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (23 bp):
ATTCCTAATTGTATTAGGATAAG
Found at i:6373157 original size:23 final size:23
Alignment explanation
Indices: 6373111--6373172 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
6373101 TTAAATCTAG
*
6373111 TTATATTAGAATAACAATTCCTAA
1 TTATATTAGAATAA-GATTCCTAA
6373135 TTATATTAGAATAAGATTCCTAA
1 TTATATTAGAATAAGATTCCTAA
* *
6373158 TTGTATTAGGATAAG
1 TTATATTAGAATAAG
6373173 GTTATTGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 21 0.60
24 14 0.40
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (23 bp):
TTATATTAGAATAAGATTCCTAA
Found at i:6375608 original size:2 final size:2
Alignment explanation
Indices: 6375601--6375649 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
6375591 AAGCTAATTT
*
6375601 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA AA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6375641 TA TA TA TA T
1 TA TA TA TA T
6375650 TTAAAATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6375663 original size:26 final size:27
Alignment explanation
Indices: 6375602--6375665 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
6375592 AGCTAATTTT
* *
6375602 ATATATATATATATATATATATATAAT
1 ATATAAATATATATATATATATATAAA
*
6375629 ATATAAATAT-TATATATATATTTAAA
1 ATATAAATATATATATATATATATAAA
* *
6375655 ATTTTAATATA
1 ATATAAATATA
6375666 ATTAATTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATATAAATATATATATATATATATAAA
Found at i:6375990 original size:2 final size:2
Alignment explanation
Indices: 6375983--6376025 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
6375973 ACACCCTGAN
*
6375983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6376025 A
1 A
6376026 AAATTGTATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6376401 original size:197 final size:195
Alignment explanation
Indices: 6376059--6376433 Score: 590
Period size: 197 Copynumber: 1.9 Consensus size: 195
6376049 CGTACATATA
* * *
6376059 TTTAATTTATATATAATCATTACTATAACTTATAATAAACTTTATTCATATGATTACACTTAATA
1 TTTAATTTATACATAAGCATTACTATAACTTATAATAAACTTTATTCATACGATTACACTTAATA
6376124 ACTTTATTAGTTATCACCTTAGTTTTTATTACATATTGTTTATAATTAGTTATTATTTAAACAAA
66 ACTTTATTAGTTATCACCTTAGTTTTTATTACATATTGTTTATAATTAGTTATTATTTAAACAAA
* * * * *
6376189 TTTTGATATAAAACATTATAACATATAAGTTGTGTCATTAATTTTATATTATACACACACATACA
131 CTTTAATACAAAACATTAT-A-ATATAAGTTGCGTCATTAATTTCATATTATACACACACATACA
6376254 TG
194 TG
* *
6376256 TTTAATTTATACATAAGCATTACTATAATTTATAATAAACTTTATTTATACGATTACACTTAATA
1 TTTAATTTATACATAAGCATTACTATAACTTATAATAAACTTTATTCATACGATTACACTTAATA
* * **
6376321 ACTTTATTAGTTATCATCTTAGTTTTTA-TAGCATATTGTTTATAATTAGTTATTATTTATATGA
66 ACTTTATTAGTTATCACCTTAGTTTTTATTA-CATATTGTTTATAATTAGTTATTATTTAAACAA
6376385 ACTTTAATACAAAACATTATAATATAAGTTGCGTCATTAATTTCATATT
130 ACTTTAATACAAAACATTATAATATAAGTTGCGTCATTAATTTCATATT
6376434 TATATATAAA
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
195 26 0.16
196 3 0.02
197 134 0.82
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (195 bp):
TTTAATTTATACATAAGCATTACTATAACTTATAATAAACTTTATTCATACGATTACACTTAATA
ACTTTATTAGTTATCACCTTAGTTTTTATTACATATTGTTTATAATTAGTTATTATTTAAACAAA
CTTTAATACAAAACATTATAATATAAGTTGCGTCATTAATTTCATATTATACACACACATACATG
Found at i:6382203 original size:12 final size:12
Alignment explanation
Indices: 6382186--6382233 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
6382176 TATCAAACAA
6382186 AATATATAAAAT
1 AATATATAAAAT
6382198 AATATA-AAAACT
1 AATATATAAAA-T
6382210 AA-A-ATAAAAT
1 AATATATAAAAT
6382220 -ATATATAATAAT
1 AATATATAA-AAT
6382232 AA
1 AA
6382234 AAATAGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
9 1 0.03
10 3 0.10
11 13 0.43
12 12 0.40
13 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATATATAAAAT
Found at i:6382238 original size:23 final size:22
Alignment explanation
Indices: 6382191--6382235 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
6382181 AACAAAATAT
6382191 ATAAAATAATATAAAAACTAAA
1 ATAAAATAATATAAAAACTAAA
*
6382213 ATAAAATATATATAATAA-TAAA
1 ATAAAATA-ATATAAAAACTAAA
6382235 A
1 A
6382236 ATAGATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
ATAAAATAATATAAAAACTAAA
Found at i:6382457 original size:26 final size:23
Alignment explanation
Indices: 6382403--6382457 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
6382393 GTTTATTAAG
6382403 ATTAAAAAATAATAATAAAAAAA
1 ATTAAAAAATAATAATAAAAAAA
* *
6382426 AATAAAAAATAATTAAGCTAAACAAA
1 ATTAAAAAATAA-TAA--TAAAAAAA
6382452 ATTAAA
1 ATTAAA
6382458 TATGAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 11 0.42
24 3 0.12
26 12 0.46
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (23 bp):
ATTAAAAAATAATAATAAAAAAA
Done.