Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 34 of 222
Found at i:10107675 original size:18 final size:20
Alignment explanation
Indices: 10107652--10107688 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
10107642 TAACATTATA
10107652 TATAATTTA-AC-TAATAAT
1 TATAATTTATACATAATAAT
10107670 TATAATTTATACATAATAA
1 TATAATTTATACATAATAA
10107689 AATTTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAATTTATACATAATAAT
Found at i:10112686 original size:45 final size:45
Alignment explanation
Indices: 10112637--10112804 Score: 219
Period size: 45 Copynumber: 3.7 Consensus size: 45
10112627 GACCTAATGT
* * * * *
10112637 CATAGTGTCTTTCAACCATGGTCTTACACATTTGAATCGTGATGC
1 CATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGATGC
10112682 CATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGATGC
1 CATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGATGC
* * * * *
10112727 CATAACATCTTTCAGCTATAGTCTTACTCGTTTGTATCGTGATGT
1 CATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGATGC
* * *
10112772 CACAGCGTCTTTTAGCTATGGTCTTACTTGTTT
1 CATAGCGTCTTTCAGCTATGGTCTTACTCGTTT
10112805 TCAACCAACG
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 107 1.00
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.40
Consensus pattern (45 bp):
CATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGATGC
Found at i:10121383 original size:19 final size:19
Alignment explanation
Indices: 10121361--10121398 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10121351 AGCAAGATAC
*
10121361 AAAAAGGGAAAGAAAGTTG
1 AAAAAGAGAAAGAAAGTTG
*
10121380 AAAATGAGAAAGAAAGTTG
1 AAAAAGAGAAAGAAAGTTG
10121399 GTGATGGCTA
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:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (19 bp):
AAAAAGAGAAAGAAAGTTG
Found at i:10124257 original size:19 final size:19
Alignment explanation
Indices: 10124233--10124285 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
10124223 TAAATAATTT
10124233 AAAAATTATAAAAATATTC
1 AAAAATTATAAAAATATTC
*
10124252 AAAAATTA-AAAATAAATTC
1 AAAAATTATAAAA-ATATTC
*
10124271 --AAATTTTAAAAATAT
1 AAAAATTATAAAAATAT
10124286 AAAATGTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 8 0.28
18 8 0.28
19 13 0.45
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAATATTC
Found at i:10130729 original size:20 final size:19
Alignment explanation
Indices: 10130700--10130738 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
10130690 GGCGTTACAG
*
10130700 AATATCTTTCAAATCACAAT
1 AATATATTTCAAAT-ACAAT
*
10130720 AATATATTTCCAATACAAT
1 AATATATTTCAAATACAAT
10130739 TCCTATGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATATTTCAAATACAAT
Found at i:10141303 original size:21 final size:21
Alignment explanation
Indices: 10141258--10141303 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
10141248 TATTAAACAT
10141258 TTAATTTTTTAGTATGTTTAA
1 TTAATTTTTTAGTATGTTTAA
*
10141279 -TAATTTTATTAGT-TTTTTAA
1 TTAATTTT-TTAGTATGTTTAA
10141299 TTAAT
1 TTAAT
10141304 AAAAGATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (21 bp):
TTAATTTTTTAGTATGTTTAA
Found at i:10182538 original size:29 final size:29
Alignment explanation
Indices: 10182505--10182563 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
10182495 ATAATTAGGA
*
10182505 ATTGAGAGAAGGACAAATTGAACCAAAGT
1 ATTGAGAAAAGGACAAATTGAACCAAAGT
10182534 ATTGAGAAAAGGACAAATTGAACCAAAGT
1 ATTGAGAAAAGGACAAATTGAACCAAAGT
10182563 A
1 A
10182564 ACTCTACCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.17
Consensus pattern (29 bp):
ATTGAGAAAAGGACAAATTGAACCAAAGT
Found at i:10192771 original size:66 final size:66
Alignment explanation
Indices: 10192665--10192790 Score: 207
Period size: 66 Copynumber: 1.9 Consensus size: 66
10192655 TGAAAGTTAG
* *
10192665 AACTTTGAAGAATGCTTTAGGATGCATGGATGTAGGTTGACTAAGACCAAAACTGAATAAATGTG
1 AACTTAGAAGAATGCTTTAGGATGCATGGATGTACGTTGACTAAGACCAAAACTGAATAAATGTG
10192730 A
66 A
* * *
10192731 AACTTAGAAGAGTGCTTTAGGATGCATGGATGTACTTTGACTAGGACCAAAACTGAATAA
1 AACTTAGAAGAATGCTTTAGGATGCATGGATGTACGTTGACTAAGACCAAAACTGAATAA
10192791 TAGGATGTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (66 bp):
AACTTAGAAGAATGCTTTAGGATGCATGGATGTACGTTGACTAAGACCAAAACTGAATAAATGTG
A
Found at i:10198276 original size:31 final size:30
Alignment explanation
Indices: 10198241--10198298 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
10198231 TATTTAATTA
10198241 ATTTTAAAAATTTTAAAAATTCAAAAAAAAC
1 ATTTTAAAAATTTT-AAAATTCAAAAAAAAC
* * * *
10198272 ATTTTTAATATTTTTAAATTTAAAAAA
1 ATTTTAAAAATTTTAAAATTCAAAAAA
10198299 TTAACTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 11 0.48
31 12 0.52
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (30 bp):
ATTTTAAAAATTTTAAAATTCAAAAAAAAC
Found at i:10203095 original size:11 final size:11
Alignment explanation
Indices: 10203075--10203166 Score: 84
Period size: 11 Copynumber: 8.5 Consensus size: 11
10203065 TGTTTCTTTC
*
10203075 TATTCTATTAG
1 TATTATATTAG
*
10203086 TATTAAATTAG
1 TATTATATTAG
*
10203097 TATTATATT-C
1 TATTATATTAG
10203107 TATTATTATTAG
1 TATTA-TATTAG
10203119 -ATTAGTATTAG
1 TATTA-TATTAG
10203130 TATTAGTATTAG
1 TATTA-TATTAG
*
10203142 TATTA-GTTAG
1 TATTATATTAG
*
10203152 -ATTAGATTAG
1 TATTATATTAG
10203162 TATTA
1 TATTA
10203167 GTTAGTGATC
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
9 4 0.06
10 13 0.19
11 35 0.51
12 16 0.24
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (11 bp):
TATTATATTAG
Found at i:10203101 original size:6 final size:6
Alignment explanation
Indices: 10203080--10203168 Score: 95
Period size: 6 Copynumber: 16.2 Consensus size: 6
10203070 CTTTCTATTC
* * *
10203080 TATTAG TATTA- AATTAG TATTA- TATT-C TATTAT TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
10203124 TATTAG TATTAG TATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
10203168 T
1 T
10203169 TAGTGATCCC
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
4 4 0.05
5 26 0.36
6 43 0.59
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (6 bp):
TATTAG
Found at i:10203116 original size:27 final size:28
Alignment explanation
Indices: 10203075--10203146 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
10203065 TGTTTCTTTC
10203075 TATTCTATTAGTATTAAATTAGTATTA-
1 TATTCTATTAGTATTAAATTAGTATTAG
* *
10203102 TATTCTATTATTATTAGATTAGTATTAG
1 TATTCTATTAGTATTAAATTAGTATTAG
*
10203130 TATTAGTATTAGTATTA
1 TATT-CTATTAGTATTA
10203147 GTTAGATTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 25 0.64
28 4 0.10
29 10 0.26
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (28 bp):
TATTCTATTAGTATTAAATTAGTATTAG
Found at i:10203129 original size:33 final size:32
Alignment explanation
Indices: 10203082--10203168 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 32
10203072 TTCTATTCTA
* *
10203082 TTAGTATTAAATTAGTATTA-TATTCTATTATTA-
1 TTAG-ATTAGATTAGTATTAGTA-T-TAGTATTAG
10203115 TTAGATTAGTATTAGTATTAGTATTAGTATTAG
1 TTAGATTAG-ATTAGTATTAGTATTAGTATTAG
10203148 TTAGATTAGATTAGTATTAGT
1 TTAGATTAGATTAGTATTAGT
10203169 TAGTGATCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
32 23 0.47
33 24 0.49
34 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (32 bp):
TTAGATTAGATTAGTATTAGTATTAGTATTAG
Found at i:10203168 original size:38 final size:39
Alignment explanation
Indices: 10203081--10203168 Score: 112
Period size: 38 Copynumber: 2.3 Consensus size: 39
10203071 TTTCTATTCT
* *
10203081 ATTAGTATTA-AATTAGTATTATATTCTATTATTATTAG
1 ATTAGTATTAGTATTAGTATTATATTCTATTATGATTAG
10203119 ATTAGTATTAGTATTAGTATTAGTA-T-TAGTTA-GATTAG
1 ATTAGTATTAGTATTAGTATTA-TATTCTA-TTATGATTAG
10203157 ATTAGTATTAGT
1 ATTAGTATTAGT
10203169 TAGTGATCCC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
38 29 0.64
39 14 0.31
40 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.14, T:0.50
Consensus pattern (39 bp):
ATTAGTATTAGTATTAGTATTATATTCTATTATGATTAG
Found at i:10205153 original size:42 final size:42
Alignment explanation
Indices: 10205098--10205196 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
10205088 TATATGAACA
10205098 GCACTAAGTGTGCGAAACTAAAAT-GACGAGGTTGAATAAAGG
1 GCACTAAGTGTGCGAAACTAAAATGGA-GAGGTTGAATAAAGG
* * *
10205140 GCACTAAGTGTGCGAAATTAAAATGGAGATGTTGAATAACGG
1 GCACTAAGTGTGCGAAACTAAAATGGAGAGGTTGAATAAAGG
10205182 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
10205197 TACCAAGAGC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
42 51 0.96
43 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.21
Consensus pattern (42 bp):
GCACTAAGTGTGCGAAACTAAAATGGAGAGGTTGAATAAAGG
Found at i:10212315 original size:21 final size:22
Alignment explanation
Indices: 10212289--10212335 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
10212279 CTCTGCTCAA
*
10212289 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
10212310 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
10212332 ACTC
1 ACTC
10212336 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:10221846 original size:21 final size:21
Alignment explanation
Indices: 10221817--10221865 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
10221807 ATTAAAAATA
*
10221817 AATAGATTAAATGTTGTTAAT
1 AATAAATTAAATGTTGTTAAT
* * **
10221838 AATAAATTAACTTTTGTTGTT
1 AATAAATTAAATGTTGTTAAT
10221859 AATAAAT
1 AATAAAT
10221866 ATAATTTGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (21 bp):
AATAAATTAAATGTTGTTAAT
Found at i:10242233 original size:21 final size:21
Alignment explanation
Indices: 10242175--10242261 Score: 97
Period size: 21 Copynumber: 4.1 Consensus size: 21
10242165 CCTGATCAGT
10242175 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
** *
10242195 -TAACGACACACGAGGTGCCTG
1 AT-ACGACACATAAAGTGCCTG
10242216 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
*
10242239 ATATGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
10242260 AT
1 AT
10242262 CGGCAAAGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 8 0.14
21 26 0.46
22 1 0.02
23 20 0.36
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:10242259 original size:44 final size:41
Alignment explanation
Indices: 10242175--10242261 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
10242165 CCTGATCAGT
* * *
10242175 ATACGACACATAAGTGCCTGTAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGGAACGACACACAAAGTGCCTG
* *
10242216 ATACGACACATAAAGTGCCTGAGATATGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTG-GA-ACGACACACAAAGTGCCTG
10242260 AT
1 AT
10242262 CGGCAAAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 11 0.29
42 9 0.24
43 1 0.03
44 17 0.45
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGGAACGACACACAAAGTGCCTG
Found at i:10243461 original size:30 final size:27
Alignment explanation
Indices: 10243417--10243481 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
10243407 TTTCCTATAA
*
10243417 TATATTATCTTAATTTTAATTAATATAATT
1 TATAATATCTTAATTTT-A-TAATAT-ATT
* *
10243447 TATAATATTTTAATTTTATAATATTTT
1 TATAATATCTTAATTTTATAATATATT
10243474 TATAATAT
1 TATAATAT
10243482 AAATTAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 6 0.19
29 1 0.03
30 15 0.47
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TATAATATCTTAATTTTATAATATATT
Found at i:10249332 original size:40 final size:40
Alignment explanation
Indices: 10249281--10249745 Score: 761
Period size: 40 Copynumber: 11.6 Consensus size: 40
10249271 CATTTGAATG
10249281 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
10249321 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
10249361 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
10249401 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
10249441 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
10249481 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
10249521 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
10249561 ATATCCGGGATAAGACCCGAAGGTATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
10249601 ATATCCTGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
10249641 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
10249681 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
10249721 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
10249746 ATTGAGCTTG
Statistics
Matches: 396, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 393 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:10257056 original size:40 final size:40
Alignment explanation
Indices: 10257005--10257389 Score: 664
Period size: 40 Copynumber: 9.6 Consensus size: 40
10256995 CATTTGAATG
10257005 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
10257045 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
10257085 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
10257125 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
10257165 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
10257205 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
10257245 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
10257285 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
10257325 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
10257365 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
10257390 ATTGAGCTTG
Statistics
Matches: 330, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.01
40 327 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:10273677 original size:21 final size:20
Alignment explanation
Indices: 10273647--10273691 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
10273637 GATTGAGATC
10273647 TTTATTTTATTTATATATAT
1 TTTATTTTATTTATATATAT
* *
10273667 TTTATATTTATTTATCTATTT
1 TTTAT-TTTATTTATATATAT
10273688 TTTA
1 TTTA
10273692 AAAAATATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATTTTATTTATATATAT
Found at i:10274728 original size:28 final size:28
Alignment explanation
Indices: 10274697--10274751 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
10274687 CAACATAAAT
10274697 AATAAAATAA-AACGACAATAAT-ATAATG
1 AATAAAATAATAA-GA-AATAATAATAATG
*
10274725 AATACAATAATAAGAAATAATAATAAT
1 AATAAAATAATAAGAAATAATAATAAT
10274752 TATTCAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.25
28 16 0.67
29 2 0.08
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (28 bp):
AATAAAATAATAAGAAATAATAATAATG
Found at i:10279067 original size:36 final size:36
Alignment explanation
Indices: 10279020--10279088 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
10279010 AAAATGAAAA
* *
10279020 CAAACTTGATCAATTAGT-CCCGTGACAGCTTCTGCC
1 CAAACTCGATCAATGA-TACCCGTGACAGCTTCTGCC
*
10279056 CAAACTCGATCAATGATACTCGTGACAGCTTCT
1 CAAACTCGATCAATGATACCCGTGACAGCTTCT
10279089 TTGAACTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 1 0.03
36 28 0.97
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (36 bp):
CAAACTCGATCAATGATACCCGTGACAGCTTCTGCC
Found at i:10281040 original size:29 final size:28
Alignment explanation
Indices: 10280972--10281043 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
10280962 TCTTTTCTTG
**
10280972 CTCGTATTCTTTTTCTTTCTCTTTTTTTT
1 CTCGT-TTCTTTTTCTTTCAATTTTTTTT
** *
10281001 CAAGCTCTCTTTTTCTTTCAATTTTTTTCT
1 CTCG-TTTCTTTTTCTTTCAATTTTTTT-T
10281031 CTCGTTTCTTTTT
1 CTCGTTTCTTTTT
10281044 TTCTTCTCTC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
29 29 0.88
30 4 0.12
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (28 bp):
CTCGTTTCTTTTTCTTTCAATTTTTTTT
Found at i:10281078 original size:20 final size:19
Alignment explanation
Indices: 10281022--10281078 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
10281012 TTTCTTTCAA
*
10281022 TTTTTTTCTCTCGTTTCTT
1 TTTTTTTCTCTCATTTCTT
10281041 TTTTTCTTCTCTCTATTTCTT
1 TTTTT-TTCTCTC-ATTTCTT
*
10281062 TTATTTTTCGCTCATTT
1 TT-TTTTTCTCTCATTT
10281079 TCTCTCATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 5 0.15
20 11 0.33
21 14 0.42
22 3 0.09
ACGTcount: A:0.05, C:0.21, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTTTTCTCTCATTTCTT
Found at i:10283302 original size:39 final size:39
Alignment explanation
Indices: 10283240--10283364 Score: 191
Period size: 39 Copynumber: 3.3 Consensus size: 39
10283230 AACACTTAAT
* * *
10283240 TAAA-ACACATATTAGTGA-GTTCAAAATAAGACATAAC
1 TAAAGACATATATTAATGATGTTCAAACTAAGACATAAC
10283277 TAAAGACATATATTAATGATGTTCAAACTAAGACATAAC
1 TAAAGACATATATTAATGATGTTCAAACTAAGACATAAC
*
10283316 TAAAGACATATATTAATGATGTTCAAACTAAGACATAAT
1 TAAAGACATATATTAATGATGTTCAAACTAAGACATAAC
*
10283355 TAATGACATA
1 TAAAGACATA
10283365 ACTAAGACAT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
37 4 0.05
38 12 0.15
39 65 0.80
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (39 bp):
TAAAGACATATATTAATGATGTTCAAACTAAGACATAAC
Found at i:10283371 original size:23 final size:23
Alignment explanation
Indices: 10283308--10283393 Score: 93
Period size: 23 Copynumber: 3.5 Consensus size: 23
10283298 TTCAAACTAA
10283308 GACATAACTAAAGACATATATTAAT
1 GACATAACT-AAGACATA-ATTAAT
10283333 GATGTTCA-AACTAAGACATAATTAAT
1 GA----CATAACTAAGACATAATTAAT
*
10283359 GACATAACTAAGACATAATTAAG
1 GACATAACTAAGACATAATTAAT
10283382 GACATGAACTAA
1 GACAT-AACTAA
10283394 AATAACTAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
22 2 0.04
23 22 0.41
24 6 0.11
25 2 0.04
26 8 0.15
27 8 0.15
28 4 0.07
29 2 0.04
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.26
Consensus pattern (23 bp):
GACATAACTAAGACATAATTAAT
Found at i:10284305 original size:159 final size:159
Alignment explanation
Indices: 10284016--10284331 Score: 614
Period size: 159 Copynumber: 2.0 Consensus size: 159
10284006 GGGCTAAATA
*
10284016 TATATCCCAACCTGAGATACCCACGAACAAGGGGATCCCTCATATGAGTATATTAGAAAACAATG
1 TATATCCCAACCCGAGATACCCACGAACAAGGGGATCCCTCATATGAGTATATTAGAAAACAATG
10284081 AACATGGGATCGAACTTTTTAATACCCTAAAGTTACTCTGAGCACTTGTCTTATCTATCCACTTG
66 AACATGGGATCGAACTTTTTAATACCCTAAAGTTACTCTGAGCACTTGTCTTATCTATCCACTTG
10284146 TCCTTGTATTGGTTCTCGGCCTCTACAGG
131 TCCTTGTATTGGTTCTCGGCCTCTACAGG
10284175 TATATCCCAACCCGAGATACCCACGAACAAGGGGATCCCTCATATGAGTATATTAGAAAACAATG
1 TATATCCCAACCCGAGATACCCACGAACAAGGGGATCCCTCATATGAGTATATTAGAAAACAATG
*
10284240 AACATGGGATCGAACTTTTTAATACCCTAAAGTTACTCTGAGCACTTGTCTTCTCTATCCACTTG
66 AACATGGGATCGAACTTTTTAATACCCTAAAGTTACTCTGAGCACTTGTCTTATCTATCCACTTG
10284305 TCCTTGTATTGGTTCTCGGCCTCTACA
131 TCCTTGTATTGGTTCTCGGCCTCTACA
10284332 AGTGAACCAG
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 155 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (159 bp):
TATATCCCAACCCGAGATACCCACGAACAAGGGGATCCCTCATATGAGTATATTAGAAAACAATG
AACATGGGATCGAACTTTTTAATACCCTAAAGTTACTCTGAGCACTTGTCTTATCTATCCACTTG
TCCTTGTATTGGTTCTCGGCCTCTACAGG
Found at i:10290680 original size:14 final size:14
Alignment explanation
Indices: 10290663--10290706 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
10290653 TCATTTAAGA
10290663 TTTAATTTTTATAT
1 TTTAATTTTTATAT
*
10290677 TTTAATTTTTA-AC
1 TTTAATTTTTATAT
* *
10290690 TTTGATTTCTATAT
1 TTTAATTTTTATAT
10290704 TTT
1 TTT
10290707 TATAATATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTAATTTTTATAT
Found at i:10294399 original size:41 final size:41
Alignment explanation
Indices: 10294336--10294531 Score: 295
Period size: 41 Copynumber: 4.8 Consensus size: 41
10294326 TTTCGGGGGC
* *
10294336 TTTAGCGGAGTTTTTATGTAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
10294377 TTTAGCGGCGTTTTGT-TTTAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTT-TATTTAAGCGCCGCTAATGTTCTGGGA
10294418 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
* * *
10294459 TTTAGTGGCGTTTTTAATTAAGCGCCGCTAATGTTCTGGGC
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
* * * *
10294500 TTTAACGGCTTTTTTATTGATGCGCCGCTAAT
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAAT
10294532 TCGCAGGCCT
Statistics
Matches: 142, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 1 0.01
41 140 0.99
42 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
Found at i:10294585 original size:123 final size:123
Alignment explanation
Indices: 10294336--10294596 Score: 282
Period size: 123 Copynumber: 2.1 Consensus size: 123
10294326 TTTCGGGGGC
* * *
10294336 TTTAGCGGAGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTGTTTTAAGCG
1 TTTAGTGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAACGGCGTTTTGTTTTAAGCG
* * * * * * *
10294401 CCGCTAATGTTCTGGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
66 CCGCTAATGTGCAGGCATTTAGCGGCGTTTTTATTAAAACGCCGCTAATGCTCTGGCA
* *
10294459 TTTAGTGGCGTTTTTAAT-TAAGCGCCGCTAATGTTCTGGGCTTTAACGGC-TTTT-TTATTGAT
1 TTTAGTGGCGTTTTT-ATGTAAGCGCCGCTAATGTTCTGGGATTTAACGGCGTTTTGTT-TT-AA
* * *
10294521 GCGCCGCTAAT-TCGCAGGCCTTTAGCGGTGCTTTTT-TTAAAAACGCCGCTAATGCTCT-TCA
63 GCGCCGCTAATGT-GCAGGCATTTAGCGGCG-TTTTTATT-AAAACGCCGCTAATGCTCTGGCA
*
10294582 TTTAGTGGCATTTTT
1 TTTAGTGGCGTTTTT
10294597 GGAAAGAGCC
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
121 2 0.02
122 7 0.06
123 84 0.72
124 23 0.20
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (123 bp):
TTTAGTGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAACGGCGTTTTGTTTTAAGCG
CCGCTAATGTGCAGGCATTTAGCGGCGTTTTTATTAAAACGCCGCTAATGCTCTGGCA
Found at i:10294987 original size:16 final size:16
Alignment explanation
Indices: 10294966--10295035 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
10294956 CTATAGTATG
10294966 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
*
10294982 TAGTTTAA-GGTTTAA
1 TAGTTTAAGGGTTTTA
** * *
10294997 T-GTTTACTATAG-TATG
1 TAGTTTA--AGGGTTTTA
10295013 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
10295029 TAGTTTA
1 TAGTTTA
10295036 TGGTTTAAGG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
14 5 0.12
15 9 0.22
16 20 0.50
17 6 0.15
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.50
Consensus pattern (16 bp):
TAGTTTAAGGGTTTTA
Found at i:10294994 original size:23 final size:23
Alignment explanation
Indices: 10294968--10295054 Score: 81
Period size: 23 Copynumber: 3.7 Consensus size: 23
10294958 ATAGTATGTA
10294968 GTTTAAGGGTTTTATAGTTTAAG
1 GTTTAAGGGTTTTATAGTTTAAG
*
10294991 GTTTAA-TGTTTACTATAGTATGT-A-
1 GTTTAAGGGTTT--TATAGT-T-TAAG
*
10295015 GTTTAAGGGTTTTATAGTTTATG
1 GTTTAAGGGTTTTATAGTTTAAG
*
10295038 GTTTAAGGTTTGTTATA
1 GTTTAAGGGTT-TTATA
10295055 TTGGGTTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
21 1 0.02
22 5 0.10
23 22 0.42
24 17 0.33
25 6 0.12
26 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.23, T:0.51
Consensus pattern (23 bp):
GTTTAAGGGTTTTATAGTTTAAG
Found at i:10295007 original size:47 final size:47
Alignment explanation
Indices: 10294956--10295048 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
10294946 GGTTTAAGGG
*
10294956 CTATAGTATGTAGTTTAAGGGTTTTATAGTTTAAGGTTTAATGTTTA
1 CTATAGTATGTAGTTTAAGGGTTTTATAGTTTAAGGTTTAAGGTTTA
*
10295003 CTATAGTATGTAGTTTAAGGGTTTTATAGTTTATGGTTTAAGGTTT
1 CTATAGTATGTAGTTTAAGGGTTTTATAGTTTAAGGTTTAAGGTTT
10295049 GTTATATTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (47 bp):
CTATAGTATGTAGTTTAAGGGTTTTATAGTTTAAGGTTTAAGGTTTA
Found at i:10295084 original size:22 final size:21
Alignment explanation
Indices: 10295059--10295099 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
10295049 GTTATATTGG
10295059 GTTTGTGA-TTTAGTGTTTTAAA
1 GTTTG-GAGTTTAGT-TTTTAAA
10295081 GTTTGGAGTTTAGTTTTTA
1 GTTTGGAGTTTAGTTTTTA
10295100 TAGTCAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (21 bp):
GTTTGGAGTTTAGTTTTTAAA
Found at i:10299667 original size:66 final size:66
Alignment explanation
Indices: 10299597--10299732 Score: 218
Period size: 66 Copynumber: 2.1 Consensus size: 66
10299587 GACTACAGTT
* * * *
10299597 GAGGTTCAAAAGAAATATGAAGAACTCTAGCTACAACTTAGAGCAGATGCGGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
10299662 A
66 A
* *
10299663 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
10299728 A
66 A
10299729 GAGG
1 GAGG
10299733 CTGCAGCGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.15
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
A
Found at i:10300127 original size:43 final size:43
Alignment explanation
Indices: 10300080--10300255 Score: 248
Period size: 43 Copynumber: 4.1 Consensus size: 43
10300070 AAACAAAAGT
*
10300080 GGCGTTTGTGAAAAAAGCGCCGCTAAAGAACAT-TAGCTTTAGC
1 GGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGT-TCTTTAGC
** * *
10300123 GGCGTTTGTGTTAGAAGCGCCGCTAAAGCACATGTTCTTTAGC
1 GGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
*
10300166 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
* *
10300209 GGCGTTTGT-ATAAAATGCGCCGCTATAGAACATGTTCTTTAGC
1 GGCGTTTGTGA-AAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
10300252 GGCG
1 GGCG
10300256 CTTTTAAAAA
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 119 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
Found at i:10300147 original size:86 final size:85
Alignment explanation
Indices: 10300054--10300217 Score: 197
Period size: 86 Copynumber: 1.9 Consensus size: 85
10300044 TTAAAAAAAA
*
10300054 CGCCGCTAAAACAACCA-AACAAAAGTGGCGTTTGTGAAAAAAGCGCCGCTAAAGAACAT-TAGC
1 CGCCGCTAAAAC-A-CAGAACAAAAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGT-GC
10300117 TTTAGCGGCGTTTGTGTTAGAAG
63 TTTAGCGGCGTTTGTGTTAGAAG
* ** *** * *
10300140 CGCCGCTAAAGCACATGTTCTTTAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTT
1 CGCCGCTAAAACACA-GAACAAAAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGTGCTT
10300205 TAGCGGCGTTTGT
65 TAGCGGCGTTTGT
10300218 ATAAAATGCG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
84 2 0.03
85 1 0.02
86 62 0.94
87 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (85 bp):
CGCCGCTAAAACACAGAACAAAAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGTGCTTT
AGCGGCGTTTGTGTTAGAAG
Found at i:10307562 original size:25 final size:25
Alignment explanation
Indices: 10307534--10307584 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
10307524 AAAGACTTGA
10307534 GCCTATTACAGAAGAATGTTAGGAT
1 GCCTATTACAGAAGAATGTTAGGAT
10307559 GCCTATTACAGAAGAATGTTAGGAT
1 GCCTATTACAGAAGAATGTTAGGAT
10307584 G
1 G
10307585 ACATACTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (25 bp):
GCCTATTACAGAAGAATGTTAGGAT
Found at i:10309304 original size:11 final size:11
Alignment explanation
Indices: 10309286--10309318 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
10309276 CACATATATC
10309286 TCTTTTC-TTT
1 TCTTTTCTTTT
10309296 TCTTTTTCTTTT
1 TC-TTTTCTTTT
10309308 TCTTTTCTTTT
1 TCTTTTCTTTT
10309319 ATCTCATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.10
11 14 0.67
12 5 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:10310981 original size:15 final size:16
Alignment explanation
Indices: 10310963--10310999 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10310953 TTAATCTAAT
10310963 TTAACTTAA-TAAATC
1 TTAACTTAAGTAAATC
*
10310978 TTAA-TTAAGTTAATC
1 TTAACTTAAGTAAATC
10310993 TTAACTT
1 TTAACTT
10311000 TAATTAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 13 0.68
16 2 0.11
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (16 bp):
TTAACTTAAGTAAATC
Found at i:10314697 original size:11 final size:11
Alignment explanation
Indices: 10314681--10314706 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10314671 ATTTTTTTAA
10314681 TTTTAAAATAC
1 TTTTAAAATAC
10314692 TTTTAAAATAC
1 TTTTAAAATAC
10314703 TTTT
1 TTTT
10314707 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:10314710 original size:39 final size:39
Alignment explanation
Indices: 10314666--10314813 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 39
10314656 ATAATAAATA
*
10314666 TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACTT
* * *
10314705 TTTTTAAATTTTTTAAATTTAAAATTTTTTTAAAAATACTT
1 TTTTT-ATTTTTTTAATTTTAAAATATTTTT-AAAATACTT
**
10314746 TTTAAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
1 TTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACTT
*
10314785 TTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTT--TATTT-TTTTAA-TTTTAAAATA
10314814 AATTTTTGGT
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 17 0.19
40 43 0.47
41 15 0.16
42 6 0.07
43 10 0.11
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (39 bp):
TTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACTT
Found at i:10314769 original size:17 final size:17
Alignment explanation
Indices: 10314744--10314777 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10314734 TTAAAAATAC
* *
10314744 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
10314761 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
10314778 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:10319821 original size:35 final size:35
Alignment explanation
Indices: 10319782--10319852 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
10319772 GTCCATCCAG
10319782 AAAGCCATGCTCGGTTTTATTGCAAAAGAAGAAGA
1 AAAGCCATGCTCGGTTTTATTGCAAAAGAAGAAGA
10319817 AAAGCCATGCTCGGTTTTATTGCAAAAGAAGAAGA
1 AAAGCCATGCTCGGTTTTATTGCAAAAGAAGAAGA
10319852 A
1 A
10319853 TTTTAATGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (35 bp):
AAAGCCATGCTCGGTTTTATTGCAAAAGAAGAAGA
Found at i:10328242 original size:16 final size:16
Alignment explanation
Indices: 10328216--10328265 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
10328206 ACGTGAAATT
10328216 TAATCATTTTATTGAA-A
1 TAAT-ATTTTATT-AATA
10328233 TAATATTTTAATTAATA
1 TAATATTTT-ATTAATA
10328250 TAAT-TTTTATTTAATA
1 TAATATTTTA-TTAATA
10328266 AATGATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.03
16 17 0.57
17 12 0.40
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TAATATTTTATTAATA
Found at i:10339149 original size:21 final size:21
Alignment explanation
Indices: 10339123--10339164 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10339113 ATCTGCTCAA
* *
10339123 ACTCCACCTGTTTTGGAGTAT
1 ACTCCACCTGCTGTGGAGTAT
10339144 ACTCCACCTGCTGTGGAGTAT
1 ACTCCACCTGCTGTGGAGTAT
10339165 TGCTCGTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAT
Found at i:10345241 original size:16 final size:16
Alignment explanation
Indices: 10345199--10345243 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
10345189 TTTGGTTGGT
10345199 TGTAATAGAATAGGGC
1 TGTAATAGAATAGGGC
* * *
10345215 CGTAATTGAATAGTGC
1 TGTAATAGAATAGGGC
*
10345231 TGTAGTAGAATAG
1 TGTAATAGAATAG
10345244 AGTTGTAATC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (16 bp):
TGTAATAGAATAGGGC
Found at i:10345875 original size:13 final size:13
Alignment explanation
Indices: 10345857--10345883 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10345847 AATGGCATTC
10345857 TATCATTATATCA
1 TATCATTATATCA
10345870 TATCATTATATCA
1 TATCATTATATCA
10345883 T
1 T
10345884 CCAAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (13 bp):
TATCATTATATCA
Found at i:10355618 original size:24 final size:24
Alignment explanation
Indices: 10355590--10355638 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10355580 CAACTCTATT
10355590 TTTCTATTACAGAAATGGGATTTC
1 TTTCTATTACAGAAATGGGATTTC
10355614 TTTCTATTACAGAAATGGGATTTC
1 TTTCTATTACAGAAATGGGATTTC
10355638 T
1 T
10355639 GTCAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (24 bp):
TTTCTATTACAGAAATGGGATTTC
Found at i:10363740 original size:18 final size:18
Alignment explanation
Indices: 10363717--10363753 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10363707 TTTCTATGTT
10363717 ATGTTAATATCTAATATG
1 ATGTTAATATCTAATATG
10363735 ATGTTAATATCTAATATG
1 ATGTTAATATCTAATATG
10363753 A
1 A
10363754 GATATATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (18 bp):
ATGTTAATATCTAATATG
Found at i:10364201 original size:13 final size:13
Alignment explanation
Indices: 10364151--10364214 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
10364141 ACACTCAAAT
*
10364151 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
* *
10364164 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
10364177 TTTTTC-ACAGCAC
1 -TTTTCAAAAGCAC
10364190 TTTTCAAAAGCA-
1 TTTTCAAAAGCAC
10364202 TCTTTCAAAAGCA
1 T-TTTCAAAAGCA
10364215 ATAAAGAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 6 0.15
13 31 0.76
14 4 0.10
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:10364214 original size:26 final size:27
Alignment explanation
Indices: 10364156--10364214 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
10364146 CAAATTTTTT
* *
10364156 AAAAGCACTTCTCAAAAGTACTTTTTC
1 AAAAGCACTTCTCAAAAGCACTCTTTC
* *
10364183 -ACAGCACTTTTCAAAAGCA-TCTTTC
1 AAAAGCACTTCTCAAAAGCACTCTTTC
10364208 AAAAGCA
1 AAAAGCA
10364215 ATAAAGAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAAGCACTTCTCAAAAGCACTCTTTC
Found at i:10373627 original size:27 final size:27
Alignment explanation
Indices: 10373596--10373647 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
10373586 ACAAACAACA
*
10373596 AAATTCAAAACAAAGGAAAACAGAAGC
1 AAATTCAAAAAAAAGGAAAACAGAAGC
* *
10373623 AAATTCAAAAAAAATGATAACAGAA
1 AAATTCAAAAAAAAGGAAAACAGAA
10373648 AATTTCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (27 bp):
AAATTCAAAAAAAAGGAAAACAGAAGC
Found at i:10375937 original size:16 final size:15
Alignment explanation
Indices: 10375912--10375945 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10375902 CATAGGAAAC
*
10375912 AGAAATGGGAAAATAA
1 AGAAAAGGGAAAA-AA
10375928 AGAAAAGGGAAAAAA
1 AGAAAAGGGAAAAAA
10375943 AGA
1 AGA
10375946 GAGAGATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (15 bp):
AGAAAAGGGAAAAAA
Found at i:10376866 original size:27 final size:28
Alignment explanation
Indices: 10376800--10376870 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
10376790 AAACAAACAA
* *
10376800 CAAAATTCAAAACAAAGGAAAACAGCAG
1 CAAAATTCAAAATAAAGGAAAACACCAG
* *
10376828 C-AAATTCAAAATAAATGATAACACCAG
1 CAAAATTCAAAATAAAGGAAAACACCAG
10376855 CAAAATTC-AAATAAAG
1 CAAAATTCAAAATAAAG
10376871 AATTACACCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 30 0.81
28 7 0.19
ACGTcount: A:0.59, C:0.17, G:0.10, T:0.14
Consensus pattern (28 bp):
CAAAATTCAAAATAAAGGAAAACACCAG
Found at i:10377667 original size:27 final size:26
Alignment explanation
Indices: 10377637--10377692 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
10377627 AAAAAATTCA
* *
10377637 AAATAAATGATAACACCAGCAAATTTC
1 AAATAAAGGATAACACCAG-AAAGTTC
*
10377664 AAATAAAGGATAACCCCAGAAAGTTC
1 AAATAAAGGATAACACCAGAAAGTTC
10377690 AAA
1 AAA
10377693 CACATTCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.54, C:0.18, G:0.11, T:0.18
Consensus pattern (26 bp):
AAATAAAGGATAACACCAGAAAGTTC
Found at i:10378237 original size:2 final size:2
Alignment explanation
Indices: 10378230--10378264 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10378220 GTATATTGGA
10378230 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10378265 ATGAAGCAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10385964 original size:40 final size:43
Alignment explanation
Indices: 10385871--10385979 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 43
10385861 CTTTTCCTCT
* *
10385871 AAATCGCGTCCACGTCAGCGCGATTT-CAAGGGATGTGTCAAC
1 AAATCGCGTCCACGTCAGCGCGGTTTGCAAGCGATGTGTCAAC
10385913 AAATCGCGTCCACGTCAGCGCGGTTTGCTAA-CG-TG-G-CAAC
1 AAATCGCGTCCACGTCAGCGCGGTTTGC-AAGCGATGTGTCAAC
*
10385953 AAATCGCGTCCACGTAAGCGCGGTTTG
1 AAATCGCGTCCACGTCAGCGCGGTTTG
10385980 TGTCCACGTC
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
40 30 0.48
41 1 0.02
42 27 0.44
43 2 0.03
44 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.21
Consensus pattern (43 bp):
AAATCGCGTCCACGTCAGCGCGGTTTGCAAGCGATGTGTCAAC
Found at i:10386172 original size:12 final size:12
Alignment explanation
Indices: 10386155--10386210 Score: 64
Period size: 11 Copynumber: 4.9 Consensus size: 12
10386145 AAACTAATCC
10386155 TCTCTCAAATTT
1 TCTCTCAAATTT
10386167 TCTCTC-AATTT
1 TCTCTCAAATTT
10386178 TCTCT-AAATTT
1 TCTCTCAAATTT
*
10386189 CCTCTC-AATTT
1 TCTCTCAAATTT
* *
10386200 GCTTTCAAATT
1 TCTCTCAAATT
10386211 CCTTCCAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.23, C:0.25, G:0.02, T:0.50
Consensus pattern (12 bp):
TCTCTCAAATTT
Found at i:10386187 original size:22 final size:23
Alignment explanation
Indices: 10386155--10386231 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 23
10386145 AAACTAATCC
*
10386155 TCTCTCAAATTTTCTCTCAATTT
1 TCTCTCAAATTTCCTCTCAATTT
10386178 TCTCT-AAATTTCCTCTCAATTT
1 TCTCTCAAATTTCCTCTCAATTT
* * **
10386200 GCTTTCAAA-TTCCT-TCCAAACT
1 TCTCTCAAATTTCCTCT-CAATTT
10386222 TCTCTCAAAT
1 TCTCTCAAAT
10386232 CCATATTCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 1 0.02
22 35 0.80
23 8 0.18
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.45
Consensus pattern (23 bp):
TCTCTCAAATTTCCTCTCAATTT
Found at i:10387448 original size:7 final size:7
Alignment explanation
Indices: 10387436--10387461 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10387426 TAGTCGATTG
10387436 GTATTTA
1 GTATTTA
10387443 GTATTTA
1 GTATTTA
10387450 GTATTTA
1 GTATTTA
10387457 GTATT
1 GTATT
10387462 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:10388719 original size:22 final size:22
Alignment explanation
Indices: 10388694--10389364 Score: 888
Period size: 22 Copynumber: 31.0 Consensus size: 22
10388684 TTTAATTGAC
* * *
10388694 AAACCTTAAACCTTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
10388716 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
10388737 AAACCCT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
10388758 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
*
10388780 AAACCCT-AACCCTTAACATAA
1 AAACCCTAAACCCTTAACTTAA
10388801 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
10388823 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
10388845 AAACCCTAAACCCTGAACTTAA
1 AAACCCTAAACCCTTAACTTAA
10388867 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
10388888 AAACCATAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
10388910 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
10388932 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
10388954 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
10388975 AAACCCT-AACTCCTTAACTTAA
1 AAACCCTAAAC-CCTTAACTTAA
*
10388997 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
10389019 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
10389041 AAACTCT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
10389062 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
**
10389084 AAACCCTAAACATTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
10389106 AAACCCT-AACCTTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
10389127 AAACCCT-AACCTCTTGACTTAA
1 AAACCCTAAACC-CTTAACTTAA
10389149 AAACCCTAAACCCTTGAA-TTAA
1 AAACCCTAAACCCTT-AACTTAA
*
10389171 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* *
10389193 AAACCCTAAACCTTTAAGTTAA
1 AAACCCTAAACCCTTAACTTAA
*
10389215 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
10389236 AAACACTAAACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
10389258 AAA--CTATAACCCTTAAATTAA
1 AAACCCTA-AACCCTTAACTTAA
*
10389279 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
** * *
10389301 AAACTGT-AACCCTTAAATAAA
1 AAACCCTAAACCCTTAACTTAA
*
10389322 AAACCCT-AACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
**
10389343 AAGTCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
10389364 A
1 A
10389365 TATAATTTGA
Statistics
Matches: 586, Mismatches: 49, Indels: 29
0.88 0.07 0.04
Matches are distributed among these distances:
20 3 0.01
21 226 0.39
22 346 0.59
23 11 0.02
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.24
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:10388771 original size:43 final size:43
Alignment explanation
Indices: 10388713--10389364 Score: 893
Period size: 43 Copynumber: 15.1 Consensus size: 43
10388703 ACCTTTAACC
10388713 TAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAAAT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAAT
*
10388755 TAAAAACCCTAAACCCTTAACCTAAAAACCCTAACCCTTAACA-
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAA-AT
*
10388798 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAAAT
* *
10388842 TAAAAACCCTAAACCCTGAACTTAAAAACCCTAACCCTTAACT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAAT
* *
10388885 TAAAAACCATAAACCCTTAAATTAAAAACCCTAAACCCTTAAAT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAAAT
*
10388929 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAAT
10388972 TAAAAACCCT-AACTCCTTAACTTAAAAACCCTAAACCCTTAAAT
1 TAAAAACCCTAAAC-CCTTAACTTAAAAACCCT-AACCCTTAAAT
*
10389016 TAAAAACCCTAAACCCTTAACTTAAAAACTCTAACCCTTAAAT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAAT
* ** *
10389059 TAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACATTTAACT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAAAT
* * * *
10389103 TAAAAACCCT-AACCTTTAACTTTAAAACCCTAACCTCTTGACT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACC-CTTAAAT
10389146 TAAAAACCCTAAACCCTTGAA-TTAAAAACCCTAAACCCTTAAAT
1 TAAAAACCCTAAACCCTT-AACTTAAAAACCCT-AACCCTTAAAT
* * *
10389190 TAAAAACCCTAAACCTTTAAGTTAAAAACCCTAACCCTTAACT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAAT
* * * **
10389233 TTAAAACACTAAACACTTAACTTAAAAACTATAACCCTTAAAT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAAT
* **
10389276 TAAAAACCCTAAACCCTTAAATTAAAAACTGTAACCCTTAAAT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAAT
* * ** *
10389319 AAAAAACCCT-AACACTTAACTTAAAAGTCCTAACCCTTAACT
1 TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAAT
10389361 TAAA
1 TAAA
10389365 TATAATTTGA
Statistics
Matches: 544, Mismatches: 52, Indels: 28
0.87 0.08 0.04
Matches are distributed among these distances:
42 44 0.08
43 306 0.56
44 185 0.34
45 9 0.02
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.24
Consensus pattern (43 bp):
TAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAAT
Found at i:10388868 original size:87 final size:87
Alignment explanation
Indices: 10388702--10389364 Score: 948
Period size: 87 Copynumber: 7.7 Consensus size: 87
10388692 ACAAACCTTA
* *
10388702 AACCTTTAACCTAAAAACCCT-AACCCTTAACTTAAAAACCCT-AACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
*
10388765 AAACCCTTAACCTAAAAACCCT
66 AAACCCTTAACTTAAAAACCCT
* *
10388787 AACCCTTAACATAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
*
10388852 AAACCCTGAACTTAAAAACCCT
66 AAACCCTTAACTTAAAAACCCT
* *
10388874 AACCCTTAACTTAAAAACCATAAACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
10388939 AAACCCTTAACTTAAAAACCCT
66 AAACCCTTAACTTAAAAACCCT
10388961 AACCCTTAACTTAAAAACCCT-AACTCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCC
1 AACCCTTAACTTAAAAACCCTAAAC-CCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCC
*
10389025 TAAACCCTTAACTTAAAAACTCT
65 TAAACCCTTAACTTAAAAACCCT
* * ** *
10389048 AACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACATTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
* *
10389113 -AACCTTTAACTTTAAAACCCT
66 AAACCCTTAACTTAAAAACCCT
*
10389134 AACCTCTTGACTTAAAAACCCTAAACCCTTGAA-TTAAAAACCCTAAACCCTTAAATTAAAAACC
1 AACC-CTTAACTTAAAAACCCTAAACCCTT-AACTTAAAAACCCTAAACCCTTAAATTAAAAACC
* *
10389198 CTAAACCTTTAAGTTAAAAACCCT
64 CTAAACCCTTAACTTAAAAACCCT
* * *
10389222 AACCCTTAACTTTAAAACACTAAACACTTAACTTAAAAA--CTATAACCCTTAAATTAAAAACCC
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA-AACCCTTAAATTAAAAACCC
* **
10389285 TAAACCCTTAAATTAAAAACTGT
65 TAAACCCTTAACTTAAAAACCCT
* * * ** *
10389308 AACCCTTAAATAAAAAACCCT-AACACTTAACTTAAAAGTCCT-AACCCTTAACTTAAA
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAA
10389365 TATAATTTGA
Statistics
Matches: 525, Mismatches: 42, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
85 52 0.10
86 104 0.20
87 341 0.65
88 28 0.05
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (87 bp):
AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
AAACCCTTAACTTAAAAACCCT
Found at i:10392946 original size:127 final size:125
Alignment explanation
Indices: 10392523--10392983 Score: 658
Period size: 126 Copynumber: 3.7 Consensus size: 125
10392513 AACATGCTAT
*
10392523 TGTAGCAAAAGCGCGTCCAC-ATGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGCTAG
1 TGTAGCAAAAGCGCGTCCACGA-GGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGCTTG
* * *
10392587 AAGCG-ATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGTACCTAC
65 AAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACCTAC
* *
10392647 TGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTG
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTG
* * * * * * *
10392711 CAGTGTTGTTTTATACTACTTGCTTAGAAATGTCAAGTCGAAATTATTTTTTCAGGACCTAC
65 AAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACCTAC
* *
10392773 TGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCTTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* * *
10392838 AGCGTTTTTTTAAATTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCAAC
66 AGCG-TTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTT-TTCCAGGACCTAC
* * * *
10392900 TGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTTTTCTCATAAAGCATCTTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
10392965 AGCGTTTTTTAAACTATTT
66 AGCGTTTTTTAAACTATTT
10392984 TCCAGGACCT
Statistics
Matches: 301, Mismatches: 29, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
123 2 0.01
124 60 0.20
125 1 0.00
126 158 0.52
127 80 0.27
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (125 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
AGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACCTAC
Found at i:10393192 original size:9 final size:9
Alignment explanation
Indices: 10393175--10393205 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10393165 TTTTTCTCCC
10393175 AAAACCCTA
1 AAAACCCTA
*
10393184 AAAATCCTA
1 AAAACCCTA
10393193 AAAACCCTA
1 AAAACCCTA
10393202 AAAA
1 AAAA
10393206 TTCTAACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAACCCTA
Found at i:10393198 original size:18 final size:18
Alignment explanation
Indices: 10393175--10393211 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10393165 TTTTTCTCCC
10393175 AAAACCCTAAAAATCCTA
1 AAAACCCTAAAAATCCTA
*
10393193 AAAACCCTAAAAATTCTA
1 AAAACCCTAAAAATCCTA
10393211 A
1 A
10393212 CCTGGGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAACCCTAAAAATCCTA
Found at i:10393498 original size:12 final size:13
Alignment explanation
Indices: 10393470--10393499 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10393460 TAATTGTTAA
10393470 TATTATTAAATTT
1 TATTATTAAATTT
10393483 TATTATTAAA-TT
1 TATTATTAAATTT
10393495 TATTA
1 TATTA
10393500 GATGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATTAAATTT
Found at i:10406094 original size:17 final size:17
Alignment explanation
Indices: 10406072--10406135 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
10406062 AATCTTAGAG
10406072 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
10406089 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
10406108 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
10406125 TTTTAATTGTA
1 TTCTAATTGTA
10406136 GCCTTTGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.55
18 4 0.11
19 11 0.29
20 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:10406111 original size:36 final size:36
Alignment explanation
Indices: 10406064--10406134 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
10406054 GATTATGTAA
10406064 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
*
10406100 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
10406135 AGCCTTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
Found at i:10406113 original size:19 final size:19
Alignment explanation
Indices: 10406063--10406119 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
10406053 TGATTATGTA
10406063 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
10406082 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
10406099 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
10406118 AT
1 AT
10406120 ACAGCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.37
18 4 0.13
19 13 0.43
20 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:10406400 original size:48 final size:48
Alignment explanation
Indices: 10406329--10406423 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
10406319 TGAGGGAATT
*
10406329 CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCGTTTTTG
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTTG
10406377 CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTT
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTT
10406424 TAAGCAAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTTG
Found at i:10411239 original size:36 final size:36
Alignment explanation
Indices: 10411194--10411264 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
10411184 GATTATGTAA
* *
10411194 TCTTAGAGTTCTAATTGTATATAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
* *
10411230 TCTTGGAGTTCTAATTGTATACAACTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGT
10411265 AGCCTTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
Found at i:10415986 original size:26 final size:26
Alignment explanation
Indices: 10415910--10415991 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 26
10415900 AACTTCAAGC
* *
10415910 GAGCCA-T-ATCGGGAAGCTCCTG-A
1 GAGCCATTAATCGAGAAGCTCATGAA
**
10415933 GAGCCATTAATC-AGGAAGCTCACAAA
1 GAGCCATTAATCGA-GAAGCTCATGAA
**
10415959 GAGCTTTTAATCGAGAAGCTCATGAA
1 GAGCCATTAATCGAGAAGCTCATGAA
10415985 GAGCCAT
1 GAGCCAT
10415992 ATATTGGGAC
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
23 6 0.14
24 1 0.02
25 10 0.23
26 26 0.59
27 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (26 bp):
GAGCCATTAATCGAGAAGCTCATGAA
Found at i:10417053 original size:16 final size:13
Alignment explanation
Indices: 10417016--10417043 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10417006 TTTATTTTTA
10417016 TTATTTATCATCT
1 TTATTTATCATCT
10417029 TTATTTATCATCT
1 TTATTTATCATCT
10417042 TT
1 TT
10417044 CCAATTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:10418530 original size:57 final size:58
Alignment explanation
Indices: 10418410--10418551 Score: 182
Period size: 57 Copynumber: 2.5 Consensus size: 58
10418400 ATTAGAAAAA
* * *
10418410 AAAAAGTGTCAAGTT-TAGATACCACATTGGACCAAAAAAACTAATGTACTAAATTAAG
1 AAAAAGTGTCAAGTTCAAG-TACCAAATTGGACCAAAAAAACTAATATACTAAATTAAG
*
10418468 AAAAAGTGTCAAGTTCAAGTACCAAATTGGA-CAAAAAAACTTATATATCTAAA-TAAG
1 AAAAAGTGTCAAGTTCAAGTACCAAATTGGACCAAAAAAACTAATATA-CTAAATTAAG
* * *
10418525 AAAAAGCGTCAAATTCATGTACCAAAT
1 AAAAAGTGTCAAGTTCAAGTACCAAAT
10418552 ACTATATTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
57 42 0.56
58 31 0.41
59 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.24
Consensus pattern (58 bp):
AAAAAGTGTCAAGTTCAAGTACCAAATTGGACCAAAAAAACTAATATACTAAATTAAG
Found at i:10419443 original size:18 final size:18
Alignment explanation
Indices: 10419405--10419440 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10419395 TTATTATTTT
*
10419405 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
10419423 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
10419441 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:10422070 original size:41 final size:41
Alignment explanation
Indices: 10421968--10422073 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
10421958 ACTGGCAATT
* * **
10421968 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCACCA
10422009 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCACCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCACCA
10422050 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
10422074 TTATCTCATT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCACCA
Found at i:10426188 original size:14 final size:14
Alignment explanation
Indices: 10426122--10426181 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
10426112 GATATTTTAG
10426122 TTAATATATATTATA
1 TTAAT-TATATTATA
*
10426137 TTTATT-TACTTA-A
1 TTAATTATA-TTATA
* *
10426150 TAAATAAGTATTATA
1 TTAATTA-TATTATA
10426165 TTAATTATATTATA
1 TTAATTATATTATA
10426179 TTA
1 TTA
10426182 TATATATGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
13 6 0.17
14 17 0.49
15 12 0.34
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (14 bp):
TTAATTATATTATA
Found at i:10427134 original size:19 final size:19
Alignment explanation
Indices: 10427110--10427159 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
10427100 AAATGCGAAA
10427110 GTGAATTGTG-AATTGATAT
1 GTGAATT-TGAAATTGATAT
10427129 GTGAATTTGAAATTGATAT
1 GTGAATTTGAAATTGATAT
*
10427148 ATGAGATTTGAA
1 GTGA-ATTTGAA
10427160 GATATGAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 2 0.07
19 19 0.68
20 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (19 bp):
GTGAATTTGAAATTGATAT
Found at i:10433319 original size:14 final size:15
Alignment explanation
Indices: 10433290--10433322 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10433280 AAATATAAAC
10433290 ATACAATTGAAACAA
1 ATACAATTGAAACAA
*
10433305 ATACAATT-CAACAA
1 ATACAATTGAAACAA
10433319 ATAC
1 ATAC
10433323 TTTAGTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.21
Consensus pattern (15 bp):
ATACAATTGAAACAA
Found at i:10451471 original size:18 final size:17
Alignment explanation
Indices: 10451443--10451477 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10451433 ATTATTAAGA
*
10451443 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
10451460 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
10451478 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:10451583 original size:17 final size:17
Alignment explanation
Indices: 10451563--10451596 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10451553 ATTATTAAGA
10451563 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
10451580 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
10451597 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:10451681 original size:119 final size:120
Alignment explanation
Indices: 10451352--10451733 Score: 748
Period size: 120 Copynumber: 3.2 Consensus size: 120
10451342 TTTTCAAGTT
*
10451352 ATATATTTAATAATTATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
10451417 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
10451472 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
10451537 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT-AA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
10451591 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
10451656 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
10451711 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
10451734 TAAATATGAT
Statistics
Matches: 260, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
119 119 0.46
120 141 0.54
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:10451710 original size:18 final size:17
Alignment explanation
Indices: 10451682--10451716 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10451672 ATTATTAAGA
*
10451682 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
10451699 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
10451717 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:10451973 original size:16 final size:16
Alignment explanation
Indices: 10451952--10452019 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
10451942 GATTTGCTAT
10451952 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
10451968 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
10451984 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
10452000 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
10452016 TACA
1 TACA
10452020 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:10460455 original size:18 final size:18
Alignment explanation
Indices: 10460434--10460472 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10460424 GAACGATGCC
* *
10460434 AAAAGAAAGAAGAAAAGG
1 AAAAGAAAAAAGAAAAAG
*
10460452 AAAATAAAAAAGAAAAAG
1 AAAAGAAAAAAGAAAAAG
10460470 AAA
1 AAA
10460473 CTGTGAGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAAAG
Found at i:10465115 original size:78 final size:78
Alignment explanation
Indices: 10464970--10465408 Score: 601
Period size: 78 Copynumber: 5.6 Consensus size: 78
10464960 AGTTAACTAG
* * * * *
10464970 ATCAAATACTTAAAGGTCAAATAATACAACAT-TTTTTTTTAATCTCGACATTCCCCCACAAGTT
1 ATCAATTACTT-AAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTT
*
10465034 AATTGGATCCTAAT
65 AATTGGATCTTAAT
* * * * * *
10465048 ATAAATTACTTAAGGTCAAATATTACAACATATTTCTTTTAATCTCGATACTCTCCCATAAGCTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
*
10465113 ATTGGATTTTAAT
66 ATTGGATCTTAAT
* * *
10465126 ATCAATTAATTAAGGTCAAAGATTATAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
*
10465191 ATTGGATCTTAAA
66 ATTGGATCTTAAT
* *
10465204 ATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
* * *
10465269 ACTAGATCCTAAT
66 ATTGGATCTTAAT
* * * *
10465282 ATCAATTACTTAAGGTCAAAGATTTCAACATATTTCTTTTAATCTCTACACTCCCCCATAAGCTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
* *
10465347 ACTGGATTTTAAT
66 ATTGGATCTTAAT
*
10465360 ATCAATTACCTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGAC
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGAC
10465409 TTCTTCTAAT
Statistics
Matches: 319, Mismatches: 41, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
77 19 0.06
78 300 0.94
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (78 bp):
ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
ATTGGATCTTAAT
Found at i:10465282 original size:156 final size:156
Alignment explanation
Indices: 10464970--10465595 Score: 707
Period size: 156 Copynumber: 3.9 Consensus size: 156
10464960 AGTTAACTAG
* * * * * *
10464970 ATCAAATACTTAAAGGTCAAATAATACAACAT-TTTTTTTTAATCTCGACATTCCCCCACAAGTT
1 ATCAATTACTT-AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTT
* * * * * *
10465034 AATTGGATCCTAATATAAATTACTTAAGGTCAAATATTACAACATATTTCTTTTAATCTCGATAC
65 AACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACAC
* * * *
10465099 TCTCCCATAAGCTAATTGGATTTTAAT
130 TCCCCCACAAGTTAACTGGATTTTAAT
* *
10465126 ATCAATTAATTAAGGTCAAAGATTATAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
* * *
10465191 ATTGGATCTTAAAATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACT
66 ACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACT
* **
10465256 CCCCCACAAGTTAACTAGATCCTAAT
131 CCCCCACAAGTTAACTGGATTTTAAT
* * * * *
10465282 ATCAATTACTTAAGGTCAAAGATTTCAACATATTTCTTTTAATCTCTACACTCCCCCATAAGCTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
** *
10465347 ACTGGATTTTAATATCAATTACCTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACTTC
66 ACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAAC--A--------AA--T----TTC
* *
10465412 TTCTAATCTCGACATTCCCCCACAAATTAACTGGATTTTAAT
115 TTCTAATCTCGACACTCCCCCACAAGTTAACTGGATTTTAAT
* * *
10465454 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATATTGACACTTCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
* * * *
10465519 ACTAGATCCTAATATCAATTAGTTAAGGTCAAATG-TTACAACATATTTCTTTTAATCTCGACAC
66 ACTGGATCCTAATATCAATTACTTAAGGTCAAA-GATTACAACAAATTTCTTCTAATCTCGACAC
10465583 TCCCCCACAAGTT
130 TCCCCCACAAGTT
10465596 GGTGCGTAGA
Statistics
Matches: 397, Mismatches: 55, Indels: 36
0.81 0.11 0.07
Matches are distributed among these distances:
155 17 0.04
156 240 0.60
158 1 0.00
160 1 0.00
162 1 0.00
166 2 0.01
168 1 0.00
170 1 0.00
172 132 0.33
173 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (156 bp):
ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
ACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACT
CCCCCACAAGTTAACTGGATTTTAAT
Found at i:10465418 original size:16 final size:16
Alignment explanation
Indices: 10465393--10465424 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10465383 TACAACATAT
*
10465393 TTCTTTTAATCTCGAC
1 TTCTTCTAATCTCGAC
10465409 TTCTTCTAATCTCGAC
1 TTCTTCTAATCTCGAC
10465425 ATTCCCCCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.28, G:0.06, T:0.47
Consensus pattern (16 bp):
TTCTTCTAATCTCGAC
Found at i:10465476 original size:94 final size:94
Alignment explanation
Indices: 10465315--10465496 Score: 292
Period size: 94 Copynumber: 1.9 Consensus size: 94
10465305 TTCAACATAT
* * * *
10465315 TTCTTTTAATCTCTACACTCCCCCATAAGCTAACTGGATTTTAATATCAATTACCTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAACTAACTGGATTTTAATATCAATTACCTAAGGTCAAA
*
10465380 GATTACAACATATTTCTTTTAATCTCGAC
66 GATTACAACATATTTCTTCTAATCTCGAC
* * *
10465409 TTCTTCTAATCTCGACATTCCCCCACAAATTAACTGGATTTTAATATCAATTACTTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAACTAACTGGATTTTAATATCAATTACCTAAGGTCAAA
10465474 GATTACAACATATTTCTTCTAAT
66 GATTACAACATATTTCTTCTAAT
10465497 ATTGACACTT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 80 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (94 bp):
TTCTTCTAATCTCGACACTCCCCCACAAACTAACTGGATTTTAATATCAATTACCTAAGGTCAAA
GATTACAACATATTTCTTCTAATCTCGAC
Found at i:10465534 original size:172 final size:172
Alignment explanation
Indices: 10465237--10465580 Score: 512
Period size: 172 Copynumber: 2.0 Consensus size: 172
10465227 TACAACAAAT
*
10465237 TTCTTCTAATCTCGACACTCCCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAATTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
* * * * * **
10465302 GATTTCAACATATTTCTTTTAATCTCTACACTCCCCCATAAGCTAACTGGATTTTAATATCAATT
66 GATTACAACATATTTCTTCTAATATCTACACTCCCCCACAAGCTAACTAGATCCTAATATCAATT
10465367 ACCTAAGGTCAAA-GATTACAACATATTTCTTTTAATCTCGAC
131 ACCTAAGGTCAAATG-TTACAACATATTTCTTTTAATCTCGAC
* * **
10465409 TTCTTCTAATCTCGACATTCCCCCACAAATTAACTGGATTTTAATATCAATTACTTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAATTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
* *
10465474 GATTACAACATATTTCTTCTAATAT-TGACACTTCCCCACAAGTTAACTAGATCCTAATATCAAT
66 GATTACAACATATTTCTTCTAATATCT-ACACTCCCCCACAAGCTAACTAGATCCTAATATCAAT
**
10465538 TAGTTAAGGTCAAATGTTACAACATATTTCTTTTAATCTCGAC
130 TACCTAAGGTCAAATGTTACAACATATTTCTTTTAATCTCGAC
10465581 ACTCCCCCAC
Statistics
Matches: 154, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
171 1 0.01
172 152 0.99
173 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (172 bp):
TTCTTCTAATCTCGACACTCCCCCACAAATTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
GATTACAACATATTTCTTCTAATATCTACACTCCCCCACAAGCTAACTAGATCCTAATATCAATT
ACCTAAGGTCAAATGTTACAACATATTTCTTTTAATCTCGAC
Found at i:10465593 original size:78 final size:78
Alignment explanation
Indices: 10465409--10465595 Score: 268
Period size: 78 Copynumber: 2.4 Consensus size: 78
10465399 TAATCTCGAC
* * * **
10465409 TTCTTCTAATCTCGACATTCCCCCACAAATTAACTGGATTTTAATATCAATTACTTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
10465474 GATTACAACATAT
66 GATTACAACATAT
* * * *
10465487 TTCTTCTAATATTGACACTTCCCCACAAGTTAACTAGATCCTAATATCAATTAGTTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
10465552 TG-TTACAACATAT
66 -GATTACAACATAT
*
10465565 TTCTTTTAATCTCGACACTCCCCCACAAGTT
1 TTCTTCTAATCTCGACACTCCCCCACAAGTT
10465596 GGTGCGTAGA
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 94 0.99
79 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.35
Consensus pattern (78 bp):
TTCTTCTAATCTCGACACTCCCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
GATTACAACATAT
Found at i:10468613 original size:19 final size:18
Alignment explanation
Indices: 10468574--10468615 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
10468564 CATCATATTC
*
10468574 CACATTTCATTTTTCAAT
1 CACATTTCATTTCTCAAT
10468592 CACATTCTCATTTCT-AACT
1 CACATT-TCATTTCTCAA-T
10468611 CACAT
1 CACAT
10468616 ACTTTGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (18 bp):
CACATTTCATTTCTCAAT
Found at i:10470301 original size:42 final size:41
Alignment explanation
Indices: 10470255--10470353 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 41
10470245 TAGGCGTGCG
*
10470255 TCCAGGCCATGTGGCTCACACGGGCAAGGACACGGGCGTGTA
1 TCCAGGCCGTGTGGC-CACACGGGCAAGGACACGGGCGTGTA
* * * * * *
10470297 TCCAGGTCGTGTAAGCCATACGGGCAAGTACATGGGCGTGTG
1 TCCAGGCCGTGT-GGCCACACGGGCAAGGACACGGGCGTGTA
10470339 TCCAGGCCGTGTGGC
1 TCCAGGCCGTGTGGC
10470354 ATATAAATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.04
42 43 0.91
43 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.18
Consensus pattern (41 bp):
TCCAGGCCGTGTGGCCACACGGGCAAGGACACGGGCGTGTA
Found at i:10470866 original size:22 final size:22
Alignment explanation
Indices: 10470841--10470910 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
10470831 GAATAATTGC
10470841 ATATGGATA-TGATATGTTCTGT
1 ATATGGA-ACTGATATGTTCTGT
* * *
10470863 ATATGAAATTGAAATTGCTTCTGT
1 ATATGGAACTGATA-TG-TTCTGT
* *
10470887 ATATGTAACTGATCTGTTCTGT
1 ATATGGAACTGATATGTTCTGT
10470909 AT
1 AT
10470911 CTGAGCTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 18 0.46
23 4 0.10
24 16 0.41
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.44
Consensus pattern (22 bp):
ATATGGAACTGATATGTTCTGT
Found at i:10484440 original size:18 final size:18
Alignment explanation
Indices: 10484417--10484454 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10484407 TTCAATTAAG
*
10484417 TCTTTCATT-AAGTGTTTT
1 TCTTTC-TTCAAGTATTTT
10484435 TCTTTCTTCAAGTATTTT
1 TCTTTCTTCAAGTATTTT
10484453 TC
1 TC
10484455 ATTTAATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (18 bp):
TCTTTCTTCAAGTATTTT
Found at i:10484568 original size:12 final size:11
Alignment explanation
Indices: 10484464--10484564 Score: 60
Period size: 12 Copynumber: 8.5 Consensus size: 11
10484454 CATTTAATTC
10484464 TTTTATCAAGT
1 TTTTATCAAGT
10484475 TTTTAATTACCAAGT
1 TTTT-A-T--CAAGT
10484490 TTTCTATCAAGT
1 TTT-TATCAAGT
*
10484502 TTTGTAGCAAGT
1 TTT-TATCAAGT
*
10484514 TTTT-TTAAGT
1 TTTTATCAAGT
10484524 TTTTCATCAAGT
1 TTTT-ATCAAGT
* * *
10484536 CTTTCATAAAAT
1 -TTTTATCAAGT
*
10484548 TTTCCATCAAGT
1 TTT-TATCAAGT
10484560 TTTTA
1 TTTTA
10484565 ATCATTTCGT
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
10 8 0.11
11 9 0.13
12 38 0.54
13 4 0.06
14 1 0.01
15 9 0.13
16 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (11 bp):
TTTTATCAAGT
Found at i:10487156 original size:14 final size:14
Alignment explanation
Indices: 10487139--10487191 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
10487129 TTGTTTAAAT
10487139 TTTTTTTAAAATAC
1 TTTTTTTAAAATAC
**
10487153 TTTTTTTAAAATTT
1 TTTTTTTAAAATAC
10487167 TTTTAATTTAAAATAC
1 TTTT--TTTAAAATAC
10487183 TTTTTTTAA
1 TTTTTTTAA
10487192 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 21 0.64
16 12 0.36
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTTTAAAATAC
Found at i:10487194 original size:54 final size:52
Alignment explanation
Indices: 10487090--10487203 Score: 158
Period size: 52 Copynumber: 2.1 Consensus size: 52
10487080 AAGTTTTTAA
*
10487090 TTTTAAAATACTTTTTTTAATTTTTTTAATTTTAAATTTTTGTTTAAATTTT
1 TTTTAAAATACTTTTTTTAATTTTTTTAATTTAAAATTTTTGTTTAAATTTT
*
10487142 TTTTAAAATACTTTTTTTAAAATTTTTTTAATTTAAAATACTTTT-TTTAATTTTT
1 TTTTAAAATACTTTTTTT--AATTTTTTTAATTTAAAAT--TTTTGTTTAAATTTT
10487197 ATTTTAA
1 -TTTTAA
10487204 TTTTTAAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
52 18 0.33
54 18 0.33
55 9 0.16
56 10 0.18
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (52 bp):
TTTTAAAATACTTTTTTTAATTTTTTTAATTTAAAATTTTTGTTTAAATTTT
Found at i:10487202 original size:31 final size:30
Alignment explanation
Indices: 10487071--10487206 Score: 139
Period size: 30 Copynumber: 4.8 Consensus size: 30
10487061 AATATTTTTA
*
10487071 TTTTTTTAAAA-GTTTTTAATTTTAAAATAC
1 TTTTTTTAAAATTTTTTTAA-TTTAAAATAC
*
10487101 TTTTTTT--AATTTTTTTAATTTTAAAT--
1 TTTTTTTAAAATTTTTTTAATTTAAAATAC
10487127 TTTTGTTT-AAA--TTTTT--TTTAAAATAC
1 TTTT-TTTAAAATTTTTTTAATTTAAAATAC
10487153 TTTTTTTAAAATTTTTTTAATTTAAAATAC
1 TTTTTTTAAAATTTTTTTAATTTAAAATAC
**
10487183 TTTTTTTAATTTTTATTTTAATTT
1 TTTTTTTAAAATTT-TTTTAATTT
10487207 TTAAAATAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 21
0.78 0.04 0.18
Matches are distributed among these distances:
24 7 0.08
25 3 0.03
26 16 0.18
27 3 0.03
28 16 0.18
29 7 0.08
30 29 0.32
31 9 0.10
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (30 bp):
TTTTTTTAAAATTTTTTTAATTTAAAATAC
Found at i:10494312 original size:78 final size:78
Alignment explanation
Indices: 10494183--10494786 Score: 485
Period size: 78 Copynumber: 7.7 Consensus size: 78
10494173 TCTACGCACC
* * *
10494183 AACTTGTGGGGGAGTGTCGAGATTAAAAGAAATATGTTGTAACCTTTGACCTTAACTAATTGATA
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGATA
* *
10494248 TTAGGATCTAGTT
66 TTAAGATCCAGTT
* *
10494261 AACTTGTGGGGAAGTGTCGATATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTAATA
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGATA
*
10494326 TTAAAATCCAGTT
66 TTAAGATCCAGTT
* * * *
10494339 AACTTGTGGGGGAA-TGTCGAGATTAGAAGAAGTCGA-GATTAAAAGAAATATGTTGTAATCTTT
1 AACTTGT-GGGGAAGTGTCGAGATTAGAAGAAAT--ATG-TT----GTAATCT-TTG--A-CCTT
* * * * ** *
10494402 GACCTTAAGT-A-ATTGATATTAATGTC
54 -AAC-TAATTGATATTAAGATCCA-GTT
* * * *** * ** * *** * *
10494428 CAGTT-AGCTTATG-GGGGAG-TGTAG-AG-ATTA-AAAGAAATCTTTGACCTTAAGTAATTGAT
1 AACTTGTGGGGAAGTGTCGAGAT-TAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGAT
* *
10494487 ATTAGGATCTAGTT
65 ATTAAGATCCAGTT
* * *
10494501 AACTTGTGGGGGAGTGTCGAGATTAGAAGAAATTTGTTGTAATCTTTGACCTTAAGTAATTGATA
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGATA
10494566 TTAAGATCCAGTT
66 TTAAGATCCAGTT
* *
10494579 AACTTGTGGGGGAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAATTAATTGATA
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGATA
*
10494644 TTAAAATCCAGTT
66 TTAAGATCCAGTT
* * * * * * * *
10494657 AGCTTAT-GGGAGAGTATCGAGATTAAAAGAAATATGTTGTAATATTTGACCTTCAGTAATTTAT
1 AACTTGTGGGGA-AGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGAT
* *
10494721 ATTAGGATCCAATT
65 ATTAAGATCCAGTT
* *
10494735 AACTTGTGGGGAA-TGTCGAGATTAAAAGAAATATGTTGTAATATTTGACCTT
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTT
10494787 TTAAGTATTT
Statistics
Matches: 419, Mismatches: 80, Indels: 55
0.76 0.14 0.10
Matches are distributed among these distances:
72 4 0.01
73 7 0.02
74 11 0.03
75 8 0.02
76 3 0.01
77 46 0.11
78 280 0.67
79 11 0.03
80 3 0.01
83 1 0.00
84 5 0.01
85 5 0.01
86 3 0.01
87 10 0.02
88 10 0.02
89 8 0.02
90 4 0.01
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (78 bp):
AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGATA
TTAAGATCCAGTT
Found at i:10494375 original size:16 final size:16
Alignment explanation
Indices: 10494354--10494385 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10494344 GTGGGGGAAT
*
10494354 GTCGAGATTAGAAGAA
1 GTCGAGATTAAAAGAA
10494370 GTCGAGATTAAAAGAA
1 GTCGAGATTAAAAGAA
10494386 ATATGTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.28, T:0.19
Consensus pattern (16 bp):
GTCGAGATTAAAAGAA
Found at i:10494443 original size:94 final size:94
Alignment explanation
Indices: 10494276--10494463 Score: 277
Period size: 94 Copynumber: 2.0 Consensus size: 94
10494266 GTGGGGAAGT
* *
10494276 GTCGATATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTAATATTAAAATCCAGTTAA
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAACTAATTAATATTAAAATCCAGTTAA
* * *
10494341 CTTGTGGGGGAATGTCGAGATTAGAAGAA
66 CTTATGGGGGAATGTAGAGATTAAAAGAA
* * ** *
10494370 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAATGTCCAGTTAG
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAACTAATTAATATTAAAATCCAGTTAA
*
10494435 CTTATGGGGGAGTGTAGAGATTAAAAGAA
66 CTTATGGGGGAATGTAGAGATTAAAAGAA
10494464 ATCTTTGACC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 83 1.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.33
Consensus pattern (94 bp):
GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAACTAATTAATATTAAAATCCAGTTAA
CTTATGGGGGAATGTAGAGATTAAAAGAA
Found at i:10508545 original size:18 final size:18
Alignment explanation
Indices: 10508524--10508562 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10508514 GAACGATGCC
* *
10508524 AAAAGAAAGAAGAAAAGG
1 AAAAGAAAAAAGAAAAAG
*
10508542 AAAATAAAAAAGAAAAAG
1 AAAAGAAAAAAGAAAAAG
10508560 AAA
1 AAA
10508563 CTGTGAGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAAAG
Found at i:10513191 original size:78 final size:78
Alignment explanation
Indices: 10513046--10513484 Score: 601
Period size: 78 Copynumber: 5.6 Consensus size: 78
10513036 AGTTAACTAG
* * * * *
10513046 ATCAAATACTTAAAGGTCAAATAATACAACAT-TTTTTTTTAATCTCGACATTCCCCCACAAGTT
1 ATCAATTACTT-AAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTT
*
10513110 AATTGGATCCTAAT
65 AATTGGATCTTAAT
* * * * * *
10513124 ATAAATTACTTAAGGTCAAATATTACAACATATTTCTTTTAATCTCGATACTCTCCCATAAGCTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
*
10513189 ATTGGATTTTAAT
66 ATTGGATCTTAAT
* * *
10513202 ATCAATTAATTAAGGTCAAAGATTATAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
*
10513267 ATTGGATCTTAAA
66 ATTGGATCTTAAT
* *
10513280 ATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
* * *
10513345 ACTAGATCCTAAT
66 ATTGGATCTTAAT
* * * *
10513358 ATCAATTACTTAAGGTCAAAGATTTCAACATATTTCTTTTAATCTCTACACTCCCCCATAAGCTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
* *
10513423 ACTGGATTTTAAT
66 ATTGGATCTTAAT
*
10513436 ATCAATTACCTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGAC
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGAC
10513485 TTCTTCTAAT
Statistics
Matches: 319, Mismatches: 41, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
77 19 0.06
78 300 0.94
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (78 bp):
ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
ATTGGATCTTAAT
Found at i:10513358 original size:156 final size:156
Alignment explanation
Indices: 10513046--10513670 Score: 698
Period size: 156 Copynumber: 3.9 Consensus size: 156
10513036 AGTTAACTAG
* * * * * *
10513046 ATCAAATACTTAAAGGTCAAATAATACAACAT-TTTTTTTTAATCTCGACATTCCCCCACAAGTT
1 ATCAATTACTT-AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTT
* * * * * *
10513110 AATTGGATCCTAATATAAATTACTTAAGGTCAAATATTACAACATATTTCTTTTAATCTCGATAC
65 AACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACAC
* * * *
10513175 TCTCCCATAAGCTAATTGGATTTTAAT
130 TCCCCCACAAGTTAACTGGATTTTAAT
* *
10513202 ATCAATTAATTAAGGTCAAAGATTATAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
* * *
10513267 ATTGGATCTTAAAATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACT
66 ACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACT
* **
10513332 CCCCCACAAGTTAACTAGATCCTAAT
131 CCCCCACAAGTTAACTGGATTTTAAT
* * * * *
10513358 ATCAATTACTTAAGGTCAAAGATTTCAACATATTTCTTTTAATCTCTACACTCCCCCATAAGCTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
** *
10513423 ACTGGATTTTAATATCAATTACCTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACTTC
66 ACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAAC--A--------AA--T----TTC
* *
10513488 TTCTAATCTCGACATTCCCCCACAAATTAACTGGATTTTAAT
115 TTCTAATCTCGACACTCCCCCACAAGTTAACTGGATTTTAAT
* * *
10513530 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATATTGACACT-TCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
* * * *
10513594 ACTAGATCCTAATATCAATTAGTTAAGGTCAAATG-TTACAACATATTTCTTTTAATCTCGACAC
66 ACTGGATCCTAATATCAATTACTTAAGGTCAAA-GATTACAACAAATTTCTTCTAATCTCGACAC
10513658 TCCCCCACAAGTT
130 TCCCCCACAAGTT
10513671 GGTGCGTAGA
Statistics
Matches: 396, Mismatches: 55, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
155 45 0.11
156 212 0.54
158 1 0.00
159 1 0.00
161 1 0.00
166 2 0.01
168 1 0.00
169 1 0.00
171 44 0.11
172 88 0.22
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.35
Consensus pattern (156 bp):
ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
ACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACT
CCCCCACAAGTTAACTGGATTTTAAT
Found at i:10513468 original size:234 final size:239
Alignment explanation
Indices: 10513046--10513664 Score: 804
Period size: 234 Copynumber: 2.6 Consensus size: 239
10513036 AGTTAACTAG
* * * * * * *
10513046 ATCAAATACTTAAAGGTCAAATAATACAAC-ATTTTTTTTTAATCTCGACATTCCCCCACAAGTT
1 ATCAATTACTT-AAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCCACAAGTT
* * * * *
10513110 AATTGGATCCTAATATAAATTACTTAAGGTCAAATATTACAACATATTTCTTTTAATCTCGATAC
65 AACTAGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACAC
* * * *
10513175 TCTCCCATAAGCTAATTGGATTTTAATATCAATTAATTAAGGTCAAAGATTATAAC-A-T-A-T-
130 TCCCCCATAAGCTAACTGGATTTTAATATCAATTAACTAAGGTCAAAGATTACAACAATTAACTC
* *
10513235 TTCTTCTAATCTCGACACTCCCCCACAAGTTAATTGGATCTTAAA
195 TTCTTCTAATCTCGACACTCCCCCACAAATTAACTGGATCTTAAA
10513280 ATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
* *
10513345 ACTAGATCCTAATATCAATTACTTAAGGTCAAAGATTTCAACATATTTCTTTTAATCTCTACACT
66 ACTAGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACT
*
10513410 CCCCCATAAGCTAACTGGATTTTAATATCAATTACCTAAGGTCAAAGATTACAACATATTTCTTT
131 CCCCCATAAGCTAACTGGATTTTAATATCAATTAACTAAGGTCAAAGATTACAACA-A------T
* * *
10513475 TAATCTCGACTTCTTCTAATCTCGACATTCCCCCACAAATTAACTGGATTTTAAT
189 TAA-CT---CTTCTTCTAATCTCGACACTCCCCCACAAATTAACTGGATCTTAAA
* * * *
10513530 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATATTGACACT-TCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
*
10513594 ACTAGATCCTAATATCAATTAGTTAAGGTCAAATG-TTACAACATATTTCTTTTAATCTCGACAC
66 ACTAGATCCTAATATCAATTACTTAAGGTCAAA-GATTACAACATATTTCTTTTAATCTCGACAC
10513658 TCCCCCA
130 TCCCCCA
10513665 CAAGTTGGTG
Statistics
Matches: 336, Mismatches: 31, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
233 16 0.05
234 149 0.44
236 1 0.00
243 1 0.00
244 1 0.00
246 1 0.00
249 77 0.23
250 90 0.27
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.35
Consensus pattern (239 bp):
ATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
ACTAGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACT
CCCCCATAAGCTAACTGGATTTTAATATCAATTAACTAAGGTCAAAGATTACAACAATTAACTCT
TCTTCTAATCTCGACACTCCCCCACAAATTAACTGGATCTTAAA
Found at i:10513494 original size:16 final size:16
Alignment explanation
Indices: 10513469--10513500 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10513459 TACAACATAT
*
10513469 TTCTTTTAATCTCGAC
1 TTCTTCTAATCTCGAC
10513485 TTCTTCTAATCTCGAC
1 TTCTTCTAATCTCGAC
10513501 ATTCCCCCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.28, G:0.06, T:0.47
Consensus pattern (16 bp):
TTCTTCTAATCTCGAC
Found at i:10513552 original size:94 final size:94
Alignment explanation
Indices: 10513391--10513572 Score: 292
Period size: 94 Copynumber: 1.9 Consensus size: 94
10513381 TTCAACATAT
* * * *
10513391 TTCTTTTAATCTCTACACTCCCCCATAAGCTAACTGGATTTTAATATCAATTACCTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAACTAACTGGATTTTAATATCAATTACCTAAGGTCAAA
*
10513456 GATTACAACATATTTCTTTTAATCTCGAC
66 GATTACAACATATTTCTTCTAATCTCGAC
* * *
10513485 TTCTTCTAATCTCGACATTCCCCCACAAATTAACTGGATTTTAATATCAATTACTTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAACTAACTGGATTTTAATATCAATTACCTAAGGTCAAA
10513550 GATTACAACATATTTCTTCTAAT
66 GATTACAACATATTTCTTCTAAT
10513573 ATTGACACTT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 80 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (94 bp):
TTCTTCTAATCTCGACACTCCCCCACAAACTAACTGGATTTTAATATCAATTACCTAAGGTCAAA
GATTACAACATATTTCTTCTAATCTCGAC
Found at i:10513587 original size:77 final size:78
Alignment explanation
Indices: 10513485--10513667 Score: 244
Period size: 77 Copynumber: 2.4 Consensus size: 78
10513475 TAATCTCGAC
* * * **
10513485 TTCTTCTAATCTCGACATTCCCCCACAAATTAACTGGATTTTAATATCAATTACTTAAGGTCAAA
1 TTCTTCTAATATCGACACTCCCCCACAAATTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
10513550 -GATTACAACATAT
66 TG-TTACAACATAT
* * * *
10513563 TTCTTCTAATATTGACACT-TCCCACAAGTTAACTAGATCCTAATATCAATTAGTTAAGGTCAAA
1 TTCTTCTAATATCGACACTCCCCCACAAATTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
10513627 TGTTACAACATAT
66 TGTTACAACATAT
* *
10513640 TTCTTTTAATCTCGACACTCCCCCACAA
1 TTCTTCTAATATCGACACTCCCCCACAA
10513668 GTTGGTGCGT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
77 66 0.73
78 24 0.27
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.34
Consensus pattern (78 bp):
TTCTTCTAATATCGACACTCCCCCACAAATTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
TGTTACAACATAT
Found at i:10516687 original size:19 final size:18
Alignment explanation
Indices: 10516648--10516689 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
10516638 CATCATATTC
*
10516648 CACATTTCATTTTTCAAT
1 CACATTTCATTTCTCAAT
10516666 CACATTCTCATTTCT-AACT
1 CACATT-TCATTTCTCAA-T
10516685 CACAT
1 CACAT
10516690 ACTTTGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (18 bp):
CACATTTCATTTCTCAAT
Found at i:10518376 original size:42 final size:41
Alignment explanation
Indices: 10518330--10518428 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 41
10518320 TAGGCGTGCG
*
10518330 TCCAGGCCATGTGGCTCACACGGGCAAGGACACGGGCGTGTA
1 TCCAGGCCGTGTGGC-CACACGGGCAAGGACACGGGCGTGTA
* * * * * *
10518372 TCCAGGTCGTGTAAGCCATACGGGCAAGTACATGGGCGTGTG
1 TCCAGGCCGTGT-GGCCACACGGGCAAGGACACGGGCGTGTA
10518414 TCCAGGCCGTGTGGC
1 TCCAGGCCGTGTGGC
10518429 ATATAAATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.04
42 43 0.91
43 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.18
Consensus pattern (41 bp):
TCCAGGCCGTGTGGCCACACGGGCAAGGACACGGGCGTGTA
Found at i:10518942 original size:22 final size:22
Alignment explanation
Indices: 10518917--10518986 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
10518907 GAATAATTGC
10518917 ATATGGATA-TGATATGTTCTGT
1 ATATGGA-ACTGATATGTTCTGT
* * *
10518939 ATATGAAATTGAAATTGCTTCTGT
1 ATATGGAACTGATA-TG-TTCTGT
* *
10518963 ATATGTAACTGATCTGTTCTGT
1 ATATGGAACTGATATGTTCTGT
10518985 AT
1 AT
10518987 CTGAGCTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 18 0.46
23 4 0.10
24 16 0.41
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.44
Consensus pattern (22 bp):
ATATGGAACTGATATGTTCTGT
Found at i:10533770 original size:8 final size:8
Alignment explanation
Indices: 10533757--10533784 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
10533747 CTCTTCTTTA
10533757 CTTTACTG
1 CTTTACTG
10533765 CTTTACTG
1 CTTTACTG
10533773 CTTTACTG
1 CTTTACTG
10533781 CTTT
1 CTTT
10533785 GCTTTACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.25, G:0.11, T:0.54
Consensus pattern (8 bp):
CTTTACTG
Found at i:10533798 original size:13 final size:13
Alignment explanation
Indices: 10533757--10533799 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
10533747 CTCTTCTTTA
10533757 CTTTACTGCTTTACTG
1 CTTTACTG-TTT--TG
*
10533773 CTTTACTGCTTTG
1 CTTTACTGTTTTG
10533786 CTTTACTGTTTTG
1 CTTTACTGTTTTG
10533799 C
1 C
10533800 CAAGGAAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 15 0.60
15 2 0.08
16 8 0.32
ACGTcount: A:0.09, C:0.23, G:0.14, T:0.53
Consensus pattern (13 bp):
CTTTACTGTTTTG
Found at i:10538651 original size:10 final size:10
Alignment explanation
Indices: 10538634--10538696 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
10538624 AAGATAACTT
10538634 TATTTTATTA
1 TATTTTATTA
* *
10538644 TGTTTTATCA
1 TATTTTATTA
10538654 TATTTTATT-
1 TATTTTATTA
10538663 TA-TTTATT-
1 TATTTTATTA
10538671 TATTATTATTA
1 TATT-TTATTA
* *
10538682 -GTTTTATCA
1 TATTTTATTA
10538691 TATTTT
1 TATTTT
10538697 TATCTTAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 8 0.19
9 8 0.19
10 26 0.62
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
TATTTTATTA
Done.