Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 65 of 255
Found at i:19041380 original size:48 final size:48
Alignment explanation
Indices: 19041311--19041414 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 48
19041301 NNNNNNNTAT
* *
19041311 TCTTTTC-ATACATAACATATATCACATATAGATTTACATTAACTTAC
1 TCTTTTCAATACATAACATATATCACATATAGAGTCACATTAACTTAC
* * * * *
19041358 TTTTTTCAATACATATCGTATATCTCATATAGAGTCATATTAACTTAC
1 TCTTTTCAATACATAACATATATCACATATAGAGTCACATTAACTTAC
19041406 TCTTTTCAA
1 TCTTTTCAA
19041415 ATCTTTCCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 6 0.12
48 42 0.88
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.43
Consensus pattern (48 bp):
TCTTTTCAATACATAACATATATCACATATAGAGTCACATTAACTTAC
Found at i:19045701 original size:22 final size:22
Alignment explanation
Indices: 19045673--19045794 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
19045663 TTCCACATCC
19045673 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
19045695 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
19045719 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
19045742 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
19045766 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
19045789 ATCACA
1 ATCACA
19045795 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:19045708 original size:47 final size:47
Alignment explanation
Indices: 19045645--19046241 Score: 835
Period size: 47 Copynumber: 12.6 Consensus size: 47
19045635 CCCTTCGGGA
* * *
19045645 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
19045692 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19045739 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
19045786 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
19045833 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
19045880 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
19045927 CTTATCACACATACACA-TGTTCACCTTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
19045974 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19046023 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
19046070 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
19046119 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19046166 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
19046215 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
19046242 TATTCAAATA
Statistics
Matches: 513, Mismatches: 29, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 377 0.73
49 134 0.26
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:19045809 original size:94 final size:95
Alignment explanation
Indices: 19045645--19046241 Score: 841
Period size: 96 Copynumber: 6.3 Consensus size: 95
19045635 CCCTTCGGGA
* * *
19045645 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACA
19045709 CTTTCACATTCATCACATTGGCCATTCGGC
66 CTTTCACATTCATCACATTGGCCATTCGGC
* * * *
19045739 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ACATACAC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATAC
*
19045802 A-TGTTCACATTCATCACATTGGCCATTCGAC
65 ACT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
19045833 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC-ATATATGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATAC
19045896 A-TGTTCACATTCATCACATTGGCCATTCGGC
65 ACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
19045927 CTTATCACACATACACA-TGTTCACCTTCATCACATTGGCCATTCGGCCTTATCACATATATATA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATATATA
19045991 CACTTTCACATTCATCACATTGGCCATTCGGC
64 CACTTTCACATTCATCACATTGGCCATTCGGC
* *
19046023 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATATATAC
* * *
19046088 ACTTTCACATTCATCACGTCGGCCATTAGGC
65 ACTTTCACATTCATCACATTGGCCATTCGGC
* * *
19046119 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATATATAC
* *
19046184 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATTGGCCATTCGGC
19046215 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
19046242 TATTCAAATA
Statistics
Matches: 467, Mismatches: 30, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
93 2 0.00
94 220 0.47
96 243 0.52
97 2 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACA
CTTTCACATTCATCACATTGGCCATTCGGC
Found at i:19047609 original size:85 final size:85
Alignment explanation
Indices: 19047510--19047688 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
19047500 TATTTTATTG
*
19047510 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
19047575 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
19047595 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
19047660 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
19047680 CCCATGCTC
1 CCCATGCTC
19047689 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:19048905 original size:40 final size:40
Alignment explanation
Indices: 19048860--19049260 Score: 615
Period size: 40 Copynumber: 10.1 Consensus size: 40
19048850 CGAATACACG
* * * *
19048860 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
19048900 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19048940 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19048980 TCACTAGCATGAATGCTCTTCGGGACTTAGCTCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19049020 TCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19049060 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
19049100 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
**
19049140 TCACTAGCATGAATGCTCTTCGAAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19049180 TCACTAGCATGAATGCTCTTCGGGACTTAGCCTGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
19049220 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
19049259 TC
1 TC
19049261 GTCGAGACCT
Statistics
Matches: 331, Mismatches: 30, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 4 0.01
40 327 0.99
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:19049358 original size:38 final size:38
Alignment explanation
Indices: 19049316--19049388 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
19049306 ATTTTAATCT
*
19049316 GGACATAATCTCTGT-ACATAGCCATCGGGTCTTTACCC
1 GGACATAATCTCT-TCACATAGCCAGCGGGTCTTTACCC
* *
19049354 GGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 GGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
19049389 AACTCGGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.03
38 30 0.97
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (38 bp):
GGACATAATCTCTTCACATAGCCAGCGGGTCTTTACCC
Found at i:19053992 original size:40 final size:40
Alignment explanation
Indices: 19053933--19054200 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
19053923 GAGCATTGGA
* *
19053933 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
19053973 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* *
19054013 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
19054053 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
19054093 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
19054133 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
19054173 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
19054201 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:19055656 original size:47 final size:47
Alignment explanation
Indices: 19055593--19056236 Score: 918
Period size: 47 Copynumber: 13.6 Consensus size: 47
19055583 CCCTTCGGGA
* ** *
19055593 CTTATCACATTTATACACTACCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
19055640 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
19055687 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
19055734 CTTATCTCATAAATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
19055781 CTTATCACACATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
19055828 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
19055875 CTTATCACACATACACA-TGTTCACCTTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
19055922 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19055969 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19056016 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
19056065 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19056112 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
19056161 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
19056210 CTTCTCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
19056237 TATTCAAATA
Statistics
Matches: 565, Mismatches: 26, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 423 0.75
48 1 0.00
49 140 0.25
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:19057629 original size:85 final size:85
Alignment explanation
Indices: 19057500--19057678 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
19057490 TATTTTATTG
*
19057500 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
19057565 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
19057585 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
19057650 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
19057670 CCCATGCTC
1 CCCATGCTC
19057679 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:19063403 original size:13 final size:13
Alignment explanation
Indices: 19063366--19063404 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
19063356 AAGCAATCGA
**
19063366 ACACGGGCGTGGA
1 ACACGGGCGTGTC
19063379 ACACGGGCGTGTC
1 ACACGGGCGTGTC
19063392 ACACGGGCGTGTC
1 ACACGGGCGTGTC
19063405 CCTGTCGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.18, C:0.28, G:0.41, T:0.13
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:19078694 original size:28 final size:28
Alignment explanation
Indices: 19078658--19078730 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
19078648 GAACAGATAA
* *
19078658 TGTGACAGAGTCACCAGAT-ACATAGAAT
1 TGTGGCAGAGCCACCAGATCACATA-AAT
* *
19078686 TGTGGCAGAGCCACCAGATCAGATAATT
1 TGTGGCAGAGCCACCAGATCACATAAAT
19078714 TGTGGCAGAGCCACCAG
1 TGTGGCAGAGCCACCAG
19078731 GACGCTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 36 0.90
29 4 0.10
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (28 bp):
TGTGGCAGAGCCACCAGATCACATAAAT
Found at i:19085975 original size:28 final size:29
Alignment explanation
Indices: 19085908--19085980 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
19085898 CATATAATCA
19085908 TGGCAGAGCCACCAGAACAGATATATATG
1 TGGCAGAGCCACCAGAACAGATATATATG
* *
19085937 TGGCAGAGCCACCAGATCAGATA-ATTTG
1 TGGCAGAGCCACCAGAACAGATATATATG
*
19085965 TGGCATAGCCACCAGA
1 TGGCAGAGCCACCAGA
19085981 CGCTTCCTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 19 0.46
29 22 0.54
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (29 bp):
TGGCAGAGCCACCAGAACAGATATATATG
Found at i:19087432 original size:47 final size:47
Alignment explanation
Indices: 19087370--19087463 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 47
19087360 CACCTCTTGT
* * **
19087370 TCCTTGATCAGCTCCTAGATTTCC-TCCCTTATCTGCTCCTAAATCCTA
1 TCCTTGATCAACTCCTA-A-ATCCATCCCTTATCAACTCCTAAATCCTA
19087418 TCCTT-ATCAACTCCTAAATCCTATCCCTTATCAACTCCTAAATCCT
1 TCCTTGATCAACTCCTAAATCC-ATCCCTTATCAACTCCTAAATCCT
19087464 CCCTGACAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 3 0.08
46 1 0.03
47 31 0.77
48 5 0.12
ACGTcount: A:0.23, C:0.36, G:0.04, T:0.36
Consensus pattern (47 bp):
TCCTTGATCAACTCCTAAATCCATCCCTTATCAACTCCTAAATCCTA
Found at i:19087451 original size:24 final size:24
Alignment explanation
Indices: 19087394--19087463 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
19087384 CTAGATTTCC
**
19087394 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
19087418 T-CCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
19087441 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
19087464 CCCTGACAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 21 0.49
24 22 0.51
ACGTcount: A:0.26, C:0.37, G:0.01, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:19088627 original size:17 final size:17
Alignment explanation
Indices: 19088581--19088630 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
19088571 TTTTCATCAT
*
19088581 TTATCATTTGTCGGGCA
1 TTATCATTTATCGGGCA
* *
19088598 TTATAATTGATCGGGCA
1 TTATCATTTATCGGGCA
19088615 CTT-TCATTTATCGGGC
1 -TTATCATTTATCGGGC
19088631 TTTAACGAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:19093177 original size:20 final size:20
Alignment explanation
Indices: 19093152--19093213 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
19093142 TGAAAAAATC
19093152 AAATTCAA-ATTAAAATACTG
1 AAATTCAAGA-TAAAATACTG
*
19093172 AAATTCAAGATAAAATCCTG
1 AAATTCAAGATAAAATACTG
*
19093192 AAATTCAGGATAAGAATACTG
1 AAATTCAAGATAA-AATACTG
19093213 A
1 A
19093214 TGTGGCATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 29 0.78
21 8 0.22
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (20 bp):
AAATTCAAGATAAAATACTG
Found at i:19094177 original size:15 final size:15
Alignment explanation
Indices: 19094157--19094186 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19094147 CATTTTATTT
*
19094157 ATATTAGGATAATTA
1 ATATTAAGATAATTA
19094172 ATATTAAGATAATTA
1 ATATTAAGATAATTA
19094187 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:19094214 original size:27 final size:26
Alignment explanation
Indices: 19094153--19094215 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
19094143 ACTCCATTTT
19094153 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
19094180 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
19094208 ATTTTATT
1 ATTTTATT
19094216 GTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:19098417 original size:25 final size:25
Alignment explanation
Indices: 19098377--19098426 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
19098367 GTACCAGGTA
19098377 GATTAATTACTAATAATGTTCTTCT
1 GATTAATTACTAATAATGTTCTTCT
* *
19098402 GATTAATTATTGATAATGTTCTTCT
1 GATTAATTACTAATAATGTTCTTCT
19098427 TGTATATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (25 bp):
GATTAATTACTAATAATGTTCTTCT
Found at i:19101258 original size:3 final size:3
Alignment explanation
Indices: 19101250--19101282 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19101240 TGATTCACTG
19101250 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
19101283 CCACTTTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:19102843 original size:72 final size:71
Alignment explanation
Indices: 19102630--19102940 Score: 363
Period size: 72 Copynumber: 4.3 Consensus size: 71
19102620 AAAATCATAT
** *
19102630 ATAAACAACTATTGATAAAACTA-ATTTAGTATAAATAAGTAGAACATAAATTTAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGA-TTAACATAAATAAGTAGAACATAAATTCAATATCCAAAA
* *
19102694 ATCAGAC
65 ACCAAAC
* * ** * * * *
19102701 ATAAACAATTATTAATAAAACTAGCCCTAAGCATAAATAATTATACCATAGATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAG-ATTAA-CATAAATAAGTAGAACATAAATTCAATATCCAAA
*
19102766 GACCAAAC
64 AACCAAAC
* * *
19102774 ATAAGCAACTATTGATAAAACTAGATTACACATAAATAAGTAGAATATAAATTCGATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTA-ACATAAATAAGTAGAACATAAATTCAATATCCAAAA
19102839 ACCAAAC
65 ACCAAAC
* * * **
19102846 ATAAACAACCATTAATAAAACTAGATTACATATAAATAAGTAGAACATAAATTCAATATAAAAAA
1 ATAAACAACTATTGATAAAACTAGATTA-ACATAAATAAGTAGAACATAAATTCAATATCCAAAA
19102911 ACCAAAC
65 ACCAAAC
*
19102918 ATAAATAACTATTGATAAAACTA
1 ATAAACAACTATTGATAAAACTA
19102941 TTTTAGTATT
Statistics
Matches: 199, Mismatches: 37, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
71 21 0.11
72 123 0.62
73 55 0.28
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.25
Consensus pattern (71 bp):
ATAAACAACTATTGATAAAACTAGATTAACATAAATAAGTAGAACATAAATTCAATATCCAAAAA
CCAAAC
Found at i:19103392 original size:18 final size:18
Alignment explanation
Indices: 19103366--19103416 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
19103356 GTTTTCATCT
*
19103366 ATGTGAACATCATTTGAA
1 ATGTGAACATCATTTAAA
*
19103384 ATGTAAACATCATTTAAA
1 ATGTGAACATCATTTAAA
19103402 ATGTGAACATCATTT
1 ATGTGAACATCATTT
19103417 CTCACATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
ATGTGAACATCATTTAAA
Found at i:19114368 original size:18 final size:18
Alignment explanation
Indices: 19114347--19114389 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
19114337 ACTTTAAAGA
*
19114347 AAAAGTTCTTTTTATGGT
1 AAAAGCTCTTTTTATGGT
19114365 AAAAGCTCTTTTTATGGT
1 AAAAGCTCTTTTTATGGT
19114383 AAAAGCT
1 AAAAGCT
19114390 TATCTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (18 bp):
AAAAGCTCTTTTTATGGT
Found at i:19116276 original size:12 final size:12
Alignment explanation
Indices: 19116256--19116295 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
19116246 TACACAGTCA
19116256 TGTGCTAGGCTG
1 TGTGCTAGGCTG
*
19116268 TGTGGTAGGCTG
1 TGTGCTAGGCTG
*
19116280 TGTGCTAGACTG
1 TGTGCTAGGCTG
19116292 TGTG
1 TGTG
19116296 GGGCACACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.10, C:0.12, G:0.42, T:0.35
Consensus pattern (12 bp):
TGTGCTAGGCTG
Found at i:19121873 original size:81 final size:81
Alignment explanation
Indices: 19121609--19122042 Score: 420
Period size: 81 Copynumber: 5.4 Consensus size: 81
19121599 TAAAAATTAA
* ** ** * * * *
19121609 AATTGAATAAAATCTATTTCGGGCGTTATTCCCTTCGTTCAATAGATTTTTTTCCTTTTTTATTT
1 AATTGAAT-AATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTTATTT
*
19121674 TGTTTCTAAACAAGAATT
65 TGTTTC-AAACGAGAATT
* * * * * *
19121692 AATTGAATAATTTTGTTTCGGTATTTATTCCTA-CAGTTCAATAGATTTTATTCCTTTTTTA-TT
1 AATTGAATAATTCTATTTCGGGATTTATTCCCACCA-TTCAACAGATTTTATTCCATTTTTATTT
*
19121755 T-TTTCTAAATGAGAATT
65 TGTTTC-AAACGAGAATT
*
19121772 AATTGAATAATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTAATTTT
1 AATTGAATAATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTTATTTT
*
19121837 GTTTCAAATGAGAATT
66 GTTTCAAACGAGAATT
* * * **
19121853 AATTGAATAAATCTATTTCGGGATTTATTCTCGCCATTCAACAGATTTTATTTGATTTTTATTTT
1 AATTGAATAATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTTATTTT
*
19121918 GTTTCCAAACGAAAATTT
66 GTTT-CAAACGAGAA-TT
* * * **
19121936 AATT-ATATAATTCTATTTCGGGATTTATTCCC-CTCGTTTAACATA-TTTA----ATTTTGGTT
1 AATTGA-ATAATTCTATTTCGGGATTTATTCCCAC-CATTCAACAGATTTTATTCCATTTTTATT
* *
19121994 TTGTTTCCAAACAAGATTT
64 TTGTTT-CAAACGAGAATT
*
19122013 AATTAAATAATTCTATTTCGGGATTTATTC
1 AATTGAATAATTCTATTTCGGGATTTATTC
19122043 TCATCGTTTA
Statistics
Matches: 305, Mismatches: 37, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
77 30 0.10
78 22 0.07
80 65 0.21
81 83 0.27
82 59 0.19
83 46 0.15
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (81 bp):
AATTGAATAATTCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTTATTTT
GTTTCAAACGAGAATT
Found at i:19122033 original size:77 final size:76
Alignment explanation
Indices: 19121665--19122153 Score: 332
Period size: 77 Copynumber: 6.2 Consensus size: 76
19121655 TTTTTTTCCT
* * * * * * * **
19121665 TTTTTATTTTGTTTCTAAACAAGAATTAATTGAATAATTTTGTTTCGGTATTTATTCCTACAGTT
1 TTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTTATTCCCCCA-TT
* * *
19121730 CAATAGATTTTA
65 CAACATATTTAA
** * * ** * *
19121742 TTCCTTTTTTATTTTTTCTAAATGAGAATTAATTGAATAATTCTATTTCGGGATTTATTCCCACC
1 TT--TTGATT-TTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTTATTCCC-CC
*
19121807 ATTCAACAGATTTTATTCCA
62 ATTCAACATA-TTTA----A
* ** * * * *
19121827 TTTTAATTTTGTTT-CAAATGAGAATTAATTGAATAAATCTATTTCGGGATTTATTCTCGCCATT
1 TTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTTATTC-CCCCATT
*
19121891 CAACAGATTTTATTTGA
65 CAAC--A---TATTTAA
* * * *
19121908 TTTTTATTTTGTTTCCAAACGAAAATTTAATTATATAATTCTATTTCGGGATTTATTCCCCTCGT
1 TTTTGATTTTGTTTCCAAAC-AAGATTTAATTAAATAATTCTATTTCGGGATTTATTCCCC-CAT
*
19121973 TTAACATATTTAA
64 TCAACATATTTAA
* ** *
19121986 TTTTGGTTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTTATTCTCATCGTT
1 TTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTTATTC-CCCCATT
* *
19122051 TAACATATTTTA
65 CAACATATTTAA
* * * * * * * **
19122063 TTTTGGTTTTATTTCCAAATAAGATTTAATTAAATAATTTTGTTTCGGGATTCAATCCTGTCATT
1 TTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTTATTCC-CCCATT
* *
19122128 CAACATAATTGA
65 CAACATATTTAA
19122140 TTTTGATTTTGTTT
1 TTTTGATTTTGTTT
19122154 TAGAATTGTA
Statistics
Matches: 341, Mismatches: 51, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
76 1 0.00
77 128 0.38
78 25 0.07
79 5 0.01
80 52 0.15
81 69 0.20
82 12 0.04
83 42 0.12
85 6 0.02
86 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (76 bp):
TTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTTATTCCCCCATTC
AACATATTTAA
Found at i:19122063 original size:160 final size:158
Alignment explanation
Indices: 19121665--19122065 Score: 418
Period size: 161 Copynumber: 2.5 Consensus size: 158
19121655 TTTTTTTCCT
* * * * *
19121665 TTTTTATTTTGTTTCTAAACAAGAATTAATTGAATAATTTTGTTTCGGTATTTATTC-CTACAGT
1 TTTTAATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGGGATTTATTCTCT-C-GT
* * * * * *
19121729 TCAATAGATTTTATTCCTTTTTTATTTTTTCTAAATGAGAATTAATTGAATAATTCTATTTCGGG
64 TCAACAGATTTTATTTCATTTTTATTTTTTCCAAACGAAAATTAATTGAATAATTCTATTTCGGG
19121794 ATTTATTCCCACCATTCAACAGATTTTATTCCA
129 ATTTATTCCCACCATTCAACAGATTTTA---CA
** * * *
19121827 TTTTAATTTTGTTT-CAAATGAGAATTAATTGAATAAATCTATTTCGGGATTTATTCTCGCCATT
1 TTTTAATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGGGATTTATTCTC-TCGTT
*
19121891 CAACAGATTTTATTTGATTTTTATTTTGTTTCCAAACGAAAATTTAATT-ATATAATTCTATTTC
65 CAACAGATTTTATTTCATTTTTA-TTT-TTTCCAAACGAAAA-TTAATTGA-ATAATTCTATTTC
* * *
19121955 GGGATTTATTCCC-CTCGTTTAACATA-TTTA-A
126 GGGATTTATTCCCAC-CATTCAACAGATTTTACA
** * *
19121986 TTTTGGTTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTTATTCTCATCGTT
1 TTTTAATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGGGATTTATTCTC-TCGTT
* *
19122051 TAACATATTTTATTT
65 CAACAGATTTTATTT
19122066 TGGTTTTATT
Statistics
Matches: 199, Mismatches: 32, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
159 13 0.07
160 55 0.28
161 56 0.28
162 18 0.09
163 17 0.09
164 40 0.20
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (158 bp):
TTTTAATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGGGATTTATTCTCTCGTTC
AACAGATTTTATTTCATTTTTATTTTTTCCAAACGAAAATTAATTGAATAATTCTATTTCGGGAT
TTATTCCCACCATTCAACAGATTTTACA
Found at i:19122075 original size:160 final size:158
Alignment explanation
Indices: 19121665--19122076 Score: 410
Period size: 160 Copynumber: 2.6 Consensus size: 158
19121655 TTTTTTTCCT
* * * * *
19121665 TTTTTATTTTGTTTCTAAACAAGAATTAATTGAATAATTTTGTTTCGGTATTTATTC-CTACAGT
1 TTTTAATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGGGATTTATTCTCT-C-GT
* * * *
19121729 TCAATAGATTTTATTCCTT-TTTTA-TTTTTTCTAAATGAGAATTAATTGAATAATTCTATTTCG
64 TCAACAGATTTTATT--TTGTTTTATTTTTTTCCAAACGAAAATTAATTGAATAATTCTATTTCG
19121792 GGATTTATTCCCACCATTCAACAGATTTTATTCCA
127 GGATTTATTCCCACCATTCAACAGATTTTA---CA
** * * *
19121827 TTTTAATTTTGTTT-CAAATGAGAATTAATTGAATAAATCTATTTCGGGATTTATTCTCGCCATT
1 TTTTAATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGGGATTTATTCTC-TCGTT
19121891 CAACAGATTTTA-TTTGATTTTTATTTTGTTTCCAAACGAAAATTTAATT-ATATAATTCTATTT
65 CAACAGATTTTATTTTG--TTTTATTTT-TTTCCAAACGAAAA-TTAATTGA-ATAATTCTATTT
* * *
19121954 CGGGATTTATTCCC-CTCGTTTAACATA-TTTA-A
125 CGGGATTTATTCCCAC-CATTCAACAGATTTTACA
** * *
19121986 TTTTGGTTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTTATTCTCATCGTT
1 TTTTAATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGGGATTTATTCTC-TCGTT
* *
19122051 TAACATATTTTATTTTGGTTTTATTT
65 CAACAGATTTTATTTT-GTTTTATTT
19122077 CCAAATAAGA
Statistics
Matches: 208, Mismatches: 29, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
158 2 0.01
159 13 0.06
160 61 0.29
161 56 0.27
162 19 0.09
163 17 0.08
164 40 0.19
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (158 bp):
TTTTAATTTTGTTTCCAAACAAGAATTAATTGAATAATTCTATTTCGGGATTTATTCTCTCGTTC
AACAGATTTTATTTTGTTTTATTTTTTTCCAAACGAAAATTAATTGAATAATTCTATTTCGGGAT
TTATTCCCACCATTCAACAGATTTTACA
Found at i:19122150 original size:154 final size:155
Alignment explanation
Indices: 19121665--19122153 Score: 371
Period size: 160 Copynumber: 3.1 Consensus size: 155
19121655 TTTTTTTCCT
* * * * * *
19121665 TTTTTATTTTGTTTCTAAACAAGAATTAATTGAATAATTTTGTTTCGGTATTTATTC-CTA-CAG
1 TTTTGATTTTGTTTC-AAACAAGAATTAATTAAATAAATCTATTTCGGGATTTATTCTC-ACCA-
* **** * * * *
19121728 TTCAATAGATTTTATTCCTTTTTTATTTTTTCTAAATGAGAA-TTAATTGAATAATTCTATTTCG
63 TTCAACAGATTTTATTTGAGTTTTA--TTTTCCAAACGAAAATTTAATTAAATAATTCTATTTCG
* * * *
19121792 GGATTTATTCCCAC-CATTCAACAGATTTTATTCCA
126 GGATTCAATCCC-CTCATTCAAC--A--TAATT-AA
* ** * *
19121827 TTTTAATTTTGTTTCAAATGAGAATTAATTGAATAAATCTATTTCGGGATTTATTCTCGCCATTC
1 TTTTGATTTTGTTTCAAACAAGAATTAATTAAATAAATCTATTTCGGGATTTATTCTCACCATTC
* *
19121892 AACAGATTTTATTTGATTTTTATTTTGTTTCCAAACGAAAATTTAATTATATAATTCTATTTCGG
66 AACAGATTTTATTTGAGTTTTA---T-TTTCCAAACGAAAATTTAATTAAATAATTCTATTTCGG
* * * * *
19121957 GATTTATTCCCCTCGTTTAACATATTTAA
127 GATTCAATCCCCTCATTCAACATAATTAA
* * * * *
19121986 TTTTGGTTTTGTTTCCAAACAAGATTTAATTAAATAATTCTATTTCGGGATTTATTCTCATCGTT
1 TTTTGATTTTGTTT-CAAACAAGAATTAATTAAATAAATCTATTTCGGGATTTATTCTCACCATT
* * * * * *
19122051 TAACATATTTTATTTTG-GTTTTA-TTTCCAAA-TAAGATTTAATTAAATAATTTTGTTTCGGGA
65 CAACAGATTTTA-TTTGAGTTTTATTTTCCAAACGAAAATTTAATTAAATAATTCTATTTCGGGA
** *
19122113 TTCAATCCTGTCATTCAACATAATTGA
129 TTCAATCCCCTCATTCAACATAATTAA
19122140 TTTTGATTTTGTTT
1 TTTTGATTTTGTTT
19122154 TAGAATTGTA
Statistics
Matches: 270, Mismatches: 49, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
154 58 0.21
155 8 0.03
159 13 0.05
160 60 0.22
161 60 0.22
162 21 0.08
163 12 0.04
164 38 0.14
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (155 bp):
TTTTGATTTTGTTTCAAACAAGAATTAATTAAATAAATCTATTTCGGGATTTATTCTCACCATTC
AACAGATTTTATTTGAGTTTTATTTTCCAAACGAAAATTTAATTAAATAATTCTATTTCGGGATT
CAATCCCCTCATTCAACATAATTAA
Found at i:19123512 original size:21 final size:22
Alignment explanation
Indices: 19123468--19123516 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
19123458 CAGGGCTCAT
**
19123468 ACGCCCGTGTGATTCAAGGGAC
1 ACGCCCGTGTGACCCAAGGGAC
*
19123490 ACGCCCGTGTGACCCTA-GGAC
1 ACGCCCGTGTGACCCAAGGGAC
19123511 ACGCCC
1 ACGCCC
19123517 ATGTTGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.20, C:0.37, G:0.29, T:0.14
Consensus pattern (22 bp):
ACGCCCGTGTGACCCAAGGGAC
Found at i:19129018 original size:77 final size:78
Alignment explanation
Indices: 19128883--19129062 Score: 181
Period size: 77 Copynumber: 2.3 Consensus size: 78
19128873 ACAAAAAAAA
* * **
19128883 TTATTTCCAAAAATGAGTAAAATAAAATCCGTTTCGAGATTGATTCCCATTATTCAAC-GATGTT
1 TTATTTCCAAAAATGAGTAAAATAAAATCCATTTCGAGATTCATTCCCACCATTCAACGGAT-TT
19128947 ATTCCAAATTTTG-TT
65 ATT--AAATTTTGATT
* * ** *
19128962 TTATTTCCAAAAATGAGT-AAA-AAAATTCATTTCGGGATTCATTCCTGCCGTTCAACGGATTTA
1 TTATTTCCAAAAATGAGTAAAATAAAATCCATTTCGAGATTCATTCCCACCATTCAACGGATTTA
*
19129025 TTACATTTTGATT
66 TTAAATTTTGATT
* * *
19129038 TTGTTGCCAAAAATGAG-AAATTAAA
1 TTATTTCCAAAAATGAGTAAAATAAA
19129063 TGAAATAAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
75 7 0.08
76 19 0.23
77 34 0.40
78 6 0.07
79 18 0.21
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (78 bp):
TTATTTCCAAAAATGAGTAAAATAAAATCCATTTCGAGATTCATTCCCACCATTCAACGGATTTA
TTAAATTTTGATT
Found at i:19133566 original size:19 final size:18
Alignment explanation
Indices: 19133525--19133559 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19133515 TTCTTGTCGA
* *
19133525 AAAATAATTAATTTTTAT
1 AAAATAATTAAATTATAT
19133543 AAAATAATTAAATTATA
1 AAAATAATTAAATTATA
19133560 CTTAAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATAATTAAATTATAT
Found at i:19138609 original size:6 final size:6
Alignment explanation
Indices: 19138552--19138607 Score: 94
Period size: 6 Copynumber: 9.3 Consensus size: 6
19138542 AAAAAGATGA
*
19138552 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGAAAG
1 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG
*
19138600 GGAAAG GG
1 GGGAAG GG
19138608 AAGATCGGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:19142486 original size:47 final size:46
Alignment explanation
Indices: 19142398--19142525 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 46
19142388 GGTAAAGTGC
19142398 CGATGCCATGTCCC-GACATGGTCTTACACTAGCTTATATCTC-AAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC-TATATCTCGAAG
* * *
19142443 TCGATGCCATGTCCCAGACATGGTCTTATACTGGCTATCATCTCGTAG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-ATCTCGAAG
*
19142491 CTGATG-GATGTCCCAGACAT-GTCTTACACTAGCTA
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTA
19142526 ACACACAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
46 30 0.42
47 36 0.50
48 6 0.08
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATATCTCGAAG
Found at i:19143373 original size:25 final size:25
Alignment explanation
Indices: 19143345--19143394 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
19143335 ATTGATTGAG
19143345 TAAGAAGATAAAAAAGGGATGATAT
1 TAAGAAGATAAAAAAGGGATGATAT
*
19143370 TAAGAAGATGAAAAAGGGATGATAT
1 TAAGAAGATAAAAAAGGGATGATAT
19143395 CATCTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (25 bp):
TAAGAAGATAAAAAAGGGATGATAT
Found at i:19149260 original size:25 final size:25
Alignment explanation
Indices: 19149225--19149354 Score: 215
Period size: 25 Copynumber: 5.2 Consensus size: 25
19149215 TAAGCTTGTT
*
19149225 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
19149250 AATTTGCTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
*
19149275 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* *
19149300 AATTTGCTCTTAATATTTTCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
*
19149325 AATTTGCTCTTAATATTTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
19149350 AATTT
1 AATTT
19149355 TCCTTTATTA
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 99 1.00
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (25 bp):
AATTTGCTCTTAATAATTCCGGTTA
Found at i:19149329 original size:12 final size:12
Alignment explanation
Indices: 19149244--19149354 Score: 51
Period size: 12 Copynumber: 8.9 Consensus size: 12
19149234 TTAATAATTC
19149244 CGGTTAAATTTG
1 CGGTTAAATTTG
** * *
19149256 CTCTTAATAATTC
1 CGGTTAA-ATTTG
19149269 CGGTTAAATTTG
1 CGGTTAAATTTG
*** * *
19149281 TTCTTAATAATTC
1 CGGTTAA-ATTTG
19149294 CGGTTAAATTTG
1 CGGTTAAATTTG
** *
19149306 CTCTTAATATTTT
1 CGGTTAA-ATTTG
19149319 CGGTTAAATTTG
1 CGGTTAAATTTG
** *
19149331 CTCTTAATATTTC
1 CGGTTAA-ATTTG
19149344 CGGTTAAATTT
1 CGGTTAAATTT
19149355 TCCTTTATTA
Statistics
Matches: 66, Mismatches: 29, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
12 33 0.50
13 33 0.50
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.48
Consensus pattern (12 bp):
CGGTTAAATTTG
Found at i:19150262 original size:45 final size:45
Alignment explanation
Indices: 19150192--19150456 Score: 349
Period size: 45 Copynumber: 6.0 Consensus size: 45
19150182 TATCATACAG
* *
19150192 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGGGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* ** *
19150237 TACTATTTGGGCCTTTGAGGTTAGCAGGGTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
19150282 TACTATTTGGGCCTTTAAGCCTAACAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
19150327 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
19150372 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGTCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
19150417 TGA-TA-TCGGG-CTTTAAGCCTAGCAGGC-AAAATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
19150457 ATGAATTCGG
Statistics
Matches: 194, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
42 11 0.06
43 15 0.08
44 4 0.02
45 163 0.84
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:19150479 original size:41 final size:42
Alignment explanation
Indices: 19150258--19150497 Score: 125
Period size: 45 Copynumber: 5.5 Consensus size: 42
19150248 CCTTTGAGGT
* * * *
19150258 TAGCAGGGTATAATGCCGGTGAGAT-ACTATTTGGGCCTTTAAGCC
1 TAGCAGGCTAAAATGCCGGTGA-ATGA-TA-TCGGG-CTTTAAACC
* * * *
19150303 TAACAGGCTATAATGCCGGTGAGAT-ACTATTCGGGCCTTTGAGCC
1 TAGCAGGCTAAAATGCCGGTGA-ATGA-TA-TCGGG-CTTTAAACC
* * * ** *
19150348 TAGCAGGCTATAATGCCAGTGAGAT-ACTATTCAGGCCTTCGAGCC
1 TAGCAGGCTAAAATGCCGGTGA-ATGA-TA-TC-GGGCTTTAAACC
* * *
19150393 TAGCAGGCTATAATGTCGGTGAAATGATATCGGGCTTTAAGCC
1 TAGCAGGCTAAAATGCCGGTG-AATGATATCGGGCTTTAAACC
19150436 TAGCAGGC-AAAATGCCGGTGAATGA-ATTCGGG-TTTAAAACC
1 TAGCAGGCTAAAATGCCGGTGAATGATA-TCGGGCTTT-AAACC
* *
19150477 TAGTAGGCTGAAA-GCCGGTGA
1 TAGCAGGCTAAAATGCCGGTGA
19150498 TTTGATAAAA
Statistics
Matches: 171, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
40 4 0.02
41 29 0.17
42 13 0.08
43 17 0.10
44 2 0.01
45 102 0.60
46 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (42 bp):
TAGCAGGCTAAAATGCCGGTGAATGATATCGGGCTTTAAACC
Found at i:19156986 original size:25 final size:25
Alignment explanation
Indices: 19156958--19157082 Score: 169
Period size: 25 Copynumber: 5.0 Consensus size: 25
19156948 GTTAATTTGT
* *
19156958 TCTTAATAATTCCAGTTAAATTTGC
1 TCTTAATAATTCCGGTTAAATTTTC
*
19156983 TCTTAATAATTCCGGTTAAATTTTT
1 TCTTAATAATTCCGGTTAAATTTTC
*
19157008 TCTTAATAATTCCGGCTAAATTTTC
1 TCTTAATAATTCCGGTTAAATTTTC
* *
19157033 TCTTAATATTTCTGGTTAAATTTTC
1 TCTTAATAATTCCGGTTAAATTTTC
* * *
19157058 TCTGAATATTTTCGGTTAAATTTTC
1 TCTTAATAATTCCGGTTAAATTTTC
19157083 CATTATTATT
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 89 1.00
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (25 bp):
TCTTAATAATTCCGGTTAAATTTTC
Found at i:19157982 original size:45 final size:45
Alignment explanation
Indices: 19157916--19158046 Score: 153
Period size: 45 Copynumber: 3.0 Consensus size: 45
19157906 TATCATACAG
** * *
19157916 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
19157961 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
19158006 TGA-TA-TCGAG-CTTCGAGCCTAGTAGGCGA-AATGCCGGTGAA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
19158047 GGAATTCGGG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 11 0.14
43 17 0.22
44 4 0.05
45 43 0.57
46 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:19160430 original size:47 final size:47
Alignment explanation
Indices: 19160361--19160583 Score: 190
Period size: 47 Copynumber: 4.8 Consensus size: 47
19160351 GGTAAAGTGC
19160361 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTC-AAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCGAAGT
* * * *
19160408 CGATGCCATGTCCTAGACATGGTCTTACGCT-GACT-ATTATCTCGTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTCA-TATCTCGAAGT
* * * * ** *
19160456 CGAT-ACTTGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGT
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCATATCTCGAAGT
* * *
19160502 CGATG-CATGTCCCAAACAAGTCTTACACTAGCTC-TCGTCTC-AATGT
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCAT-ATCTCGAA-GT
* * *
19160548 CGTTGCCATGTCCCAAACATGTCTTACACTGGCTCA
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCA
19160584 CACACAAAGG
Statistics
Matches: 143, Mismatches: 23, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 58 0.41
47 78 0.55
48 6 0.04
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTCATATCTCGAAGT
Found at i:19163112 original size:30 final size:30
Alignment explanation
Indices: 19163046--19163115 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
19163036 ATAGGGGGAT
* *
19163046 AGAAAATGGCAGCTCCATTAAGTTTGTAAC
1 AGAAAATGGTAGCTCCATTAAGTCTGTAAC
* *
19163076 -GAAAAATGGTAGCTCTATTACGTCTGTAAC
1 AG-AAAATGGTAGCTCCATTAAGTCTGTAAC
19163106 AGAAAATGGT
1 AGAAAATGGT
19163116 TATTGGTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 32 0.94
31 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.27
Consensus pattern (30 bp):
AGAAAATGGTAGCTCCATTAAGTCTGTAAC
Found at i:19164725 original size:39 final size:39
Alignment explanation
Indices: 19164682--19164756 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
19164672 AATCAGGCAA
** *
19164682 TCACCACCT-ATCCACCATCATTGTTCACTAGTTAGGTAG
1 TCACCA-CTGATCCACCATCATCATTCAATAGTTAGGTAG
*
19164721 TCACCACTGGTCCACCATCATCATTCAATAGTTAGG
1 TCACCACTGATCCACCATCATCATTCAATAGTTAGG
19164757 GCTGATCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (39 bp):
TCACCACTGATCCACCATCATCATTCAATAGTTAGGTAG
Found at i:19172043 original size:29 final size:29
Alignment explanation
Indices: 19171941--19172055 Score: 112
Period size: 29 Copynumber: 4.0 Consensus size: 29
19171931 GTGAGCATGA
* *
19171941 ATATGAATGTGA-ATGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
19171969 ATATAAATGTGATTTAGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
19171998 ATAT-ACAGGTGATTTGGGCCTAAAGGGGCC
1 ATATGA-ATGTGATTTGGGCCT-AATGGGCC
*
19172028 ATATGAATATGA-TTGGG-CTAAATGGGCC
1 ATATGAATGTGATTTGGGCCT-AATGGGCC
19172056 CGATATAGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 22 0.30
29 35 0.48
30 15 0.21
31 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:19176458 original size:30 final size:28
Alignment explanation
Indices: 19176358--19176472 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
19176348 GTAAGCATGA
* *
19176358 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
19176386 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* * *
19176415 ATATGCAGGTGATTTGGGCCTAAATGGACC
1 ATATGAATGTGA-TTGGGCCT-AATGGGCC
* *
19176445 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
19176473 GCATACAGGT
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
28 18 0.25
29 39 0.53
30 16 0.22
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:19180832 original size:28 final size:29
Alignment explanation
Indices: 19180779--19180852 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
19180769 ATGTGACTAG
* * *
19180779 GCCTAACGGGCCATATAAATGTGATTT-T
1 GCCTAATGGGCCATATAAAGGAGATTTGT
* *
19180807 GGCTAATGGGCCATATACAGGAGATTTGT
1 GCCTAATGGGCCATATAAAGGAGATTTGT
19180836 GCCTAAATGGGCCATAT
1 GCCT-AATGGGCCATAT
19180853 GAATATGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 22 0.58
29 4 0.11
30 12 0.32
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (29 bp):
GCCTAATGGGCCATATAAAGGAGATTTGT
Found at i:19183688 original size:20 final size:21
Alignment explanation
Indices: 19183650--19183688 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19183640 TCGAGTTGGT
19183650 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
19183671 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
19183689 GTTTTAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:19185473 original size:48 final size:47
Alignment explanation
Indices: 19185399--19185582 Score: 210
Period size: 48 Copynumber: 3.8 Consensus size: 47
19185389 TAAAATACCA
* *
19185399 ATGCCATGTCCTC-GACATGGTCTTACAT-GAATCCATATATCATCGCCG
1 ATGCCATGTCC-CAGACATGGTCTTACATGGCA--CACATATCATCGCCG
* * *
19185447 ATACCATGTCCCAAACATGGTCTTACATTGGCACACATATCATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGGCACACATATCATCGCCG
* * *
19185495 ATGTCATGTCCTAGACATGGTCTTACCCTGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTA-CATGGCACACATATCATCGCCG
* *
19185543 ATGCCATGTCCCAGACATTGTCTTACACTAGCACACATAT
1 ATGCCATGTCCCAGACATGGTCTTACA-TGGCACACATAT
19185583 TGTAACACCC
Statistics
Matches: 115, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.02
48 109 0.95
49 2 0.02
50 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGCACACATATCATCGCCG
Found at i:19186585 original size:27 final size:26
Alignment explanation
Indices: 19186548--19186598 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
19186538 AATTATACAT
19186548 CACATAGGGCAAAACAGTCATTTTAC
1 CACATAGGGCAAAACAGTCATTTTAC
*
19186574 CACATAAGGGCAAAATAGTCATTTT
1 CACAT-AGGGCAAAACAGTCATTTT
19186599 TAATAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (26 bp):
CACATAGGGCAAAACAGTCATTTTAC
Found at i:19192633 original size:51 final size:49
Alignment explanation
Indices: 19192512--19192752 Score: 286
Period size: 49 Copynumber: 4.9 Consensus size: 49
19192502 TCTATTGTGA
* *
19192512 GGTCACGTGTGTAGTACTAAGTCCAGGCTACTACGTGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
19192561 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAA--TT
* * **
19192612 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
19192661 AGGTCATGTGTGTAGTACTAAGTGTAGGCTACTGCGTGTACCAGACAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
19192711 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
19192753 CATAGCCTTG
Statistics
Matches: 160, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
49 78 0.49
50 43 0.27
51 39 0.24
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:19195840 original size:27 final size:27
Alignment explanation
Indices: 19195792--19195950 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
19195782 ACGAGCCTGC
* *
19195792 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
19195819 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
19195845 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
19195872 CAGATAATTGTGGCATAGCCACTAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
19195899 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
19195926 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
19195951 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:19195953 original size:54 final size:54
Alignment explanation
Indices: 19195810--19195953 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
19195800 GTGACGAAGT
* *
19195810 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
19195864 CACCAGATCAGATAATTGTGGCATAGCCACTAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
19195918 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
19195954 GCTTCCTCTA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:19197574 original size:26 final size:25
Alignment explanation
Indices: 19197544--19197598 Score: 101
Period size: 26 Copynumber: 2.2 Consensus size: 25
19197534 TGAAATTCCC
19197544 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATT
19197570 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
19197595 ATCA
1 ATCA
19197599 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (25 bp):
ATCATGGAACATTTACCTAACCATT
Found at i:19202689 original size:27 final size:27
Alignment explanation
Indices: 19202659--19202799 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
19202649 GTGATGAAGT
*
19202659 CACCAGATACAGATATTGTAGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
19202686 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
19202713 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
19202740 CACCA-AGACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
19202767 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
19202794 CACCAG
1 CACCAG
19202800 GACGCTTCCT
Statistics
Matches: 101, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.84
28 5 0.05
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:19202731 original size:54 final size:55
Alignment explanation
Indices: 19202659--19202799 Score: 234
Period size: 54 Copynumber: 2.6 Consensus size: 55
19202649 GTGATGAAGT
* *
19202659 CACCAGATACAGAT-ATTGTAGCAGAGCCACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAGACAGATATATGTGGCAGAGC
19202713 CACCAGATCAGATAATTGTGGCATAGCCACCA-AGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAGACAGATATATGTGGCAGAGC
19202767 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
19202800 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
53 6 0.07
54 76 0.93
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (55 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAGACAGATATATGTGGCAGAGC
Found at i:19204378 original size:26 final size:26
Alignment explanation
Indices: 19204348--19204455 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
19204338 TGAAATTCCC
19204348 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19204374 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
19204400 ATCATGAAACATTTACCTAGCCCATT
1 ATCATGGAACATTTACCTAACCCATT
19204426 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19204452 ATCA
1 ATCA
19204456 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19204859 original size:48 final size:48
Alignment explanation
Indices: 19204788--19204966 Score: 277
Period size: 48 Copynumber: 3.7 Consensus size: 48
19204778 GGGGCGTTAC
19204788 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCA
* *
19204836 ATGTCATGTCCCAGACATGGTCTTACACTGGCACACATATCATTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCA
* * * *
19204884 ATGCCATATCCCAGACATGGTCTTGCACTGGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCA
* * *
19204932 ATACCATGTCCCAGACATGGTCTTATACAGGCACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACA
19204967 TTTAGCACGG
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCA
Found at i:19212716 original size:30 final size:30
Alignment explanation
Indices: 19212658--19212716 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
19212648 GCCTTTTAAA
* * *
19212658 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAATTTTT
19212688 AATATTTACAAAAAGA-ACAACCACATTTT
1 AATATTTACAAAAAGAGACAACCA-ATTTT
19212717 GAAAATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAATTTTT
Found at i:19216453 original size:27 final size:27
Alignment explanation
Indices: 19216422--19216507 Score: 163
Period size: 27 Copynumber: 3.2 Consensus size: 27
19216412 TTGGGCTATG
*
19216422 TGGGCTACACGAGCGTGTGAGCCCACA
1 TGGGCTACACGGGCGTGTGAGCCCACA
19216449 TGGGCTACACGGGCGTGTGAGCCCACA
1 TGGGCTACACGGGCGTGTGAGCCCACA
19216476 TGGGCTACACGGGCGTGTGAGCCCACA
1 TGGGCTACACGGGCGTGTGAGCCCACA
19216503 TGGGC
1 TGGGC
19216508 CCGTGATATG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.19, C:0.29, G:0.37, T:0.15
Consensus pattern (27 bp):
TGGGCTACACGGGCGTGTGAGCCCACA
Found at i:19216964 original size:34 final size:33
Alignment explanation
Indices: 19216902--19216966 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
19216892 TTGTTTGCAA
* *
19216902 ACTGTACTAAAATGGGCTAAGGCCTAGACTGCC
1 ACTGTACTAAAATGGGCCAAGGCATAGACTGCC
* *
19216935 ACTGATACTGAAATGGGCCCAGGCATAGACTG
1 ACTG-TACTAAAATGGGCCAAGGCATAGACTG
19216967 TTTCTGCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (33 bp):
ACTGTACTAAAATGGGCCAAGGCATAGACTGCC
Found at i:19217853 original size:29 final size:29
Alignment explanation
Indices: 19217799--19217855 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
19217789 GAAATGTTAT
* *
19217799 TACTGAGACTACTTTAGGTAGTAAAACTG
1 TACTGAAACTACTTTAGGTAGGAAAACTG
*
19217828 TACTGAAACT-CTTTAGTTAGAGAAAACT
1 TACTGAAACTACTTTAGGTAG-GAAAACT
19217856 ACGAACCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (29 bp):
TACTGAAACTACTTTAGGTAGGAAAACTG
Found at i:19234702 original size:54 final size:56
Alignment explanation
Indices: 19234518--19234715 Score: 292
Period size: 56 Copynumber: 3.6 Consensus size: 56
19234508 TGGGGCGTTA
* * * *
19234518 CACGTTTAATACGTTGGCATTGATATCTGATTCTGATATATGTGTGTGAGTAAGAC
1 CACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTGTGAGTAAGAC
* *
19234574 CATGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTGTGAGTAAGAG
1 CACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTGTGAGTAAGAC
19234630 CACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGT-T-TGAGTAAGAC
1 CACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTGTGAGTAAGAC
* * **
19234684 CACGTCTAGTACATTGGCATCGATATGTGATT
1 CACGTTTAATATGTTGGCATCGATATGTGATT
19234716 ACATGTAAGA
Statistics
Matches: 130, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
54 37 0.28
55 1 0.01
56 92 0.71
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (56 bp):
CACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTGTGAGTAAGAC
Found at i:19236394 original size:31 final size:32
Alignment explanation
Indices: 19236338--19236400 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
19236328 CACACTTGTC
*
19236338 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
19236370 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
19236401 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:19241155 original size:18 final size:18
Alignment explanation
Indices: 19241134--19241212 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 18
19241124 TATTTATTTA
* *
19241134 GTAACAGTCAGTTATTCG
1 GTAACAATCAATTATTCG
*
19241152 GTAACAATCAATTATTCA
1 GTAACAATCAATTATTCG
* * *
19241170 ATAATAAT-AAGTTATTCA
1 GTAACAATCAA-TTATTCG
* *
19241188 GTAACAATTAAATTATTCA
1 GTAACAA-TCAATTATTCG
19241207 GTAACA
1 GTAACA
19241213 GTCGATCTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
17 2 0.04
18 33 0.65
19 14 0.27
20 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (18 bp):
GTAACAATCAATTATTCG
Found at i:19241167 original size:36 final size:37
Alignment explanation
Indices: 19241127--19241215 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 37
19241117 GAACGATTAT
* * *
19241127 TTATTTAGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * * *
19241163 TTATTCAATAATAATAAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
19241200 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
19241216 GATCTTTCCA
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
36 26 0.63
37 15 0.37
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:19241205 original size:19 final size:18
Alignment explanation
Indices: 19241145--19241212 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
19241135 TAACAGTCAG
* *
19241145 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATAAA
* * *
19241163 TTATTCAATAATAATAAG
1 TTATTCAGTAACAATAAA
19241181 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TAAA
19241200 TTATTCAGTAACA
1 TTATTCAGTAACA
19241213 GTCGATCTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
18 25 0.61
19 16 0.39
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATAAA
Found at i:19241391 original size:47 final size:47
Alignment explanation
Indices: 19241340--19241452 Score: 163
Period size: 47 Copynumber: 2.4 Consensus size: 47
19241330 CAGTAACAGT
* * * *
19241340 AACAGTAGCAATATGGTACACAGAGTACCTCATCGGAATAAATCCGG
1 AACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCGA
*
19241387 AACAGTAACAATACGGTACACAGAGTACCTCATTGGAACAAATCCGA
1 AACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCGA
*
19241434 AACAGTAACAGTAACGGTA
1 AACAGTAACAAT-ACGGTA
19241453 ACAATATCCG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 53 0.90
48 6 0.10
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (47 bp):
AACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:19244373 original size:10 final size:10
Alignment explanation
Indices: 19244360--19244394 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
19244350 ATATATGTAT
19244360 ATATCATGGC
1 ATATCATGGC
19244370 ATATCATGTGC
1 ATATCATG-GC
19244381 ATATCATGGC
1 ATATCATGGC
19244391 ATAT
1 ATAT
19244395 TATGCATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:19251389 original size:38 final size:38
Alignment explanation
Indices: 19251344--19251440 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 38
19251334 GGCTTAAAGA
* *
19251344 CCCGCAGGCTTCGTGCTGGTAAAATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAAT
**
19251382 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAAT
* * *
19251420 CCCACAGGCCTAGTGCTGGTA
1 CCCGCAGGCTTCGTGCTGGTA
19251441 TTATATTCGG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.27
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAAT
Found at i:19251441 original size:38 final size:38
Alignment explanation
Indices: 19251356--19251451 Score: 120
Period size: 38 Copynumber: 2.5 Consensus size: 38
19251346 CGCAGGCTTC
** * * * * *
19251356 GTGCTGGTAAAATATCTGGGTTAAATCCCGCAGGCTTC
1 GTGCTGGTATTATATCCGGGATAAATCCCACAGGCCTA
19251394 GTGCTGGTATTATATCCGGGATAAATCCCACAGGCCTA
1 GTGCTGGTATTATATCCGGGATAAATCCCACAGGCCTA
*
19251432 GTGCTGGTATTATATTCGGG
1 GTGCTGGTATTATATCCGGG
19251452 CCTTCGTGCC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (38 bp):
GTGCTGGTATTATATCCGGGATAAATCCCACAGGCCTA
Found at i:19251568 original size:43 final size:43
Alignment explanation
Indices: 19251444--19251555 Score: 215
Period size: 43 Copynumber: 2.6 Consensus size: 43
19251434 GCTGGTATTA
19251444 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
19251487 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
19251530 TATTCGGGCCTTTGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
19251556 GTAATGCCGG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.10, C:0.26, G:0.34, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:19253182 original size:48 final size:48
Alignment explanation
Indices: 19253088--19253191 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
19253078 TGTGCTAAGC
* * *
19253088 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
**
19253136 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAGCTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAGCTAGT
*
19253184 ATAAGACC
1 GTAAGACC
19253192 ATAGTTGGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 8 0.17
48 40 0.83
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
Found at i:19256895 original size:38 final size:38
Alignment explanation
Indices: 19256782--19256900 Score: 166
Period size: 38 Copynumber: 3.1 Consensus size: 38
19256772 ATTTGATGTG
* **
19256782 TATCCGGGCTTAAAGTCCCGCAGGCTTCGTGTTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
19256822 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * *
19256860 TATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
19256898 TAT
1 TAT
19256901 TCAGGCCTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
38 60 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:19256975 original size:43 final size:43
Alignment explanation
Indices: 19256898--19256979 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
19256888 GCTGGTATTA
* * **
19256898 TATTCAGGCCTTCGTTCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
*
19256941 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
19256980 AATGATATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.13, C:0.26, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCAGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:19262077 original size:42 final size:44
Alignment explanation
Indices: 19262012--19262137 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 44
19262002 ACATTCATGT
*
19262012 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACG-A
1 AATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACACGTA
* * *
19262055 AATCATATA-CGATGCTAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACACGTA
* * *
19262098 AATCTCAA-ATCGATGCCAACGTCCTAGAC-GTGGTCTTACA
1 AATC-AAATATCGATGCCAATGTCCCAGACAG-GGTCTTACA
19262138 TGATATCACA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 29 0.42
43 14 0.20
44 26 0.38
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
AATCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACACGTA
Found at i:19266947 original size:27 final size:27
Alignment explanation
Indices: 19266917--19266971 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
19266907 TCTTCTCTTT
19266917 ACTTAATTCATCATCTTTGTGTGCTCA
1 ACTTAATTCATCATCTTTGTGTGCTCA
19266944 ACTTAATTCATCATCTTTGTGTGCTCA
1 ACTTAATTCATCATCTTTGTGTGCTCA
19266971 A
1 A
19266972 TCGGCTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.44
Consensus pattern (27 bp):
ACTTAATTCATCATCTTTGTGTGCTCA
Found at i:19271304 original size:18 final size:19
Alignment explanation
Indices: 19271281--19271327 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
19271271 AATCATTTCC
19271281 ACCTCT-AGCATGACCACG
1 ACCTCTCAGCATGACCACG
*
19271299 ACCTCTCGGC-TGACCACG
1 ACCTCTCAGCATGACCACG
19271317 ACCTCTCAGCA
1 ACCTCTCAGCA
19271328 GCTACTGACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.23, C:0.43, G:0.17, T:0.17
Consensus pattern (19 bp):
ACCTCTCAGCATGACCACG
Found at i:19272528 original size:16 final size:16
Alignment explanation
Indices: 19272507--19272548 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
19272497 TACAGGCTCG
19272507 CTATAGTTTTAGTTTC
1 CTATAGTTTTAGTTTC
19272523 CTATAGTTTTAGTTTC
1 CTATAGTTTTAGTTTC
19272539 CTATAGTTTT
1 CTATAGTTTT
19272549 TCAGTTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.57
Consensus pattern (16 bp):
CTATAGTTTTAGTTTC
Found at i:19275410 original size:21 final size:21
Alignment explanation
Indices: 19275386--19275429 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
19275376 TTGTTTGTTC
* *
19275386 TTTCTTTCTTTTTCTATTTTA
1 TTTCTTTATTTTTCTATTATA
*
19275407 TTTCTTTATTTTTTTATTATA
1 TTTCTTTATTTTTCTATTATA
19275428 TT
1 TT
19275430 ATTATATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTCTTTATTTTTCTATTATA
Found at i:19275443 original size:13 final size:13
Alignment explanation
Indices: 19275421--19275481 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
19275411 TTTATTTTTT
19275421 TATTATATTATTA
1 TATTATATTATTA
19275434 TATTATATTATTA
1 TATTATATTATTA
* *
19275447 TATTTTAGTAATTA
1 TATTATA-TTATTA
19275461 TTATTAT-TTACTTA
1 -TATTATATTA-TTA
*
19275475 TAATATA
1 TATTATA
19275482 AGTAAACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 26 0.67
14 8 0.21
15 5 0.13
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:19293932 original size:19 final size:19
Alignment explanation
Indices: 19293898--19293934 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19293888 ATTAATTAAG
*
19293898 TTTAATTAAATTAAACATA
1 TTTAATTAAATAAAACATA
*
19293917 TTTAATTAACTAAAACAT
1 TTTAATTAAATAAAACAT
19293935 CACCAACCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTAATTAAATAAAACATA
Found at i:19296744 original size:29 final size:29
Alignment explanation
Indices: 19296687--19296745 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
19296677 CTTTATCCAT
*
19296687 TTTTTTAATAAATGGCCCAATATTTTTTA
1 TTTTTTAATAAATGGCCCAATATTGTTTA
*
19296716 TTTTTTATGTAAATGGCCCAATA-TGTTTA
1 TTTTTTA-ATAAATGGCCCAATATTGTTTA
19296745 T
1 T
19296746 ACTTCTTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (29 bp):
TTTTTTAATAAATGGCCCAATATTGTTTA
Found at i:19297341 original size:20 final size:20
Alignment explanation
Indices: 19297318--19297380 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
19297308 TCTCTAAAGT
19297318 ATTAGAAACACAAAGAAAAA
1 ATTAGAAACACAAAGAAAAA
* *** *
19297338 ATTA-AAAGCTC-CCCAAAAT
1 ATTAGAAA-CACAAAGAAAAA
19297357 ATTAGAAACACAAAGAAAAA
1 ATTAGAAACACAAAGAAAAA
19297377 ATTA
1 ATTA
19297381 AAAGCTCCCC
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.62, C:0.14, G:0.08, T:0.16
Consensus pattern (20 bp):
ATTAGAAACACAAAGAAAAA
Found at i:19297360 original size:19 final size:19
Alignment explanation
Indices: 19297333--19297399 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
19297323 AAACACAAAG
19297333 AAAAAATTAAAAGCTCCCC
1 AAAAAATTAAAAGCTCCCC
* * ***
19297352 AAAATATTAGAAA-CACAAAG
1 AAAAAATTA-AAAGCTC-CCC
19297372 AAAAAATTAAAAGCTCCCC
1 AAAAAATTAAAAGCTCCCC
*
19297391 AAAATATTA
1 AAAAAATTA
19297400 GAAACAAAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
19 21 0.62
20 13 0.38
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.18
Consensus pattern (19 bp):
AAAAAATTAAAAGCTCCCC
Found at i:19297360 original size:39 final size:39
Alignment explanation
Indices: 19297303--19297418 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 39
19297293 TATCTAAGAG
* * *
19297303 AAAGCTCTCTAAAGTATTAGAAACACAAAGAAAAAATTA
1 AAAGCTCCCCAAAATATTAGAAACACAAAGAAAAAATTA
19297342 AAAGCTCCCCAAAATATTAGAAACACAAAGAAAAAATTA
1 AAAGCTCCCCAAAATATTAGAAACACAAAGAAAAAATTA
*
19297381 AAAGCTCCCCAAAATATTAGAAACAAAAAGAAAAAATT
1 AAAGCTCCCCAAAATATTAGAAACACAAAGAAAAAATT
19297419 TGAAATCAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.59, C:0.16, G:0.09, T:0.17
Consensus pattern (39 bp):
AAAGCTCCCCAAAATATTAGAAACACAAAGAAAAAATTA
Found at i:19297661 original size:3 final size:3
Alignment explanation
Indices: 19297648--19297749 Score: 104
Period size: 3 Copynumber: 35.3 Consensus size: 3
19297638 GAAAATTTTC
* * * *
19297648 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCC TCA TCC TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * *
19297696 TCT T-G TAT TCT TCT TCT TAT T-T TCT TCT TCT TCT T-T TCT TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
19297740 TCT GCT TCT T
1 TCT TCT TCT T
19297750 TTTTTTTTCT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
2 7 0.08
3 76 0.92
ACGTcount: A:0.03, C:0.30, G:0.02, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:19297712 original size:14 final size:14
Alignment explanation
Indices: 19297693--19297740 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
19297683 TTCCTCATCC
* *
19297693 TCTTCTTGTATTCT
1 TCTTCTTATTTTCT
19297707 TCTTCTTATTTTCT
1 TCTTCTTATTTTCT
*
19297721 TCTTCTTCTTTTCT
1 TCTTCTTATTTTCT
19297735 TCTTCT
1 TCTTCT
19297741 CTGCTTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.04, C:0.25, G:0.02, T:0.69
Consensus pattern (14 bp):
TCTTCTTATTTTCT
Found at i:19299263 original size:42 final size:43
Alignment explanation
Indices: 19299214--19299314 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
19299204 TAAGACAATG
* * *
19299214 TCTGGGACATTGGCATC-ATATTTAATTTCATGTAGGACC-CTC
1 TCTGGGACATTGGCATCGACATTTAATTACATGTAAGACCAC-C
* * *
19299256 TCTGGGACAGTGGCATCGACATTTGATTACATGTAAGACCACG
1 TCTGGGACATTGGCATCGACATTTAATTACATGTAAGACCACC
*
19299299 TCTGGGACGTTGGCAT
1 TCTGGGACATTGGCAT
19299315 TGTATGAGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 16 0.33
43 32 0.65
44 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (43 bp):
TCTGGGACATTGGCATCGACATTTAATTACATGTAAGACCACC
Found at i:19299303 original size:43 final size:42
Alignment explanation
Indices: 19299197--19299314 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
19299187 GATTTGAGAT
* * * * *
19299197 TTACGTGTAAGACAATGTCTGGGACATTGGCATCATATTTAA
1 TTACATGTAAGACCACGTCTGGGACAGTGGCATCACATTTAA
* * * *
19299239 TTTCATGTAGGACC-CTCTCTGGGACAGTGGCATCGACATTTGA
1 TTACATGTAAGACCAC-GTCTGGGACAGTGGCATC-ACATTTAA
19299282 TTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TTACATGTAAGACCACGTCTGGGACAG-TGGCAT
19299315 TGTATGAGCT
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
42 27 0.45
43 32 0.53
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACAGTGGCATCACATTTAA
Found at i:19301015 original size:7 final size:7
Alignment explanation
Indices: 19301003--19301041 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
19300993 TATACTTTTA
19301003 TTTATTT
1 TTTATTT
19301010 TTTATTT
1 TTTATTT
19301017 TTTATTTT
1 TTTA-TTT
19301025 TTTATTT
1 TTTATTT
19301032 TTTATTT
1 TTTATTT
19301039 TTT
1 TTT
19301042 TCAAACATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:19301027 original size:15 final size:15
Alignment explanation
Indices: 19301003--19301042 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
19300993 TATACTTTTA
19301003 TTTA-TTTTTTATTT
1 TTTATTTTTTTATTT
19301017 TTTATTTTTTTATTT
1 TTTATTTTTTTATTT
19301032 TTTATTTTTTT
1 TTTATTTTTTT
19301043 CAAACATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTATTTTTTTATTT
Found at i:19301031 original size:22 final size:23
Alignment explanation
Indices: 19300998--19301041 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
19300988 CAATTTATAC
19300998 TTTTATTTATTTTTTATTTTTTA
1 TTTTATTTATTTTTTATTTTTTA
19301021 TTTT-TTTATTTTTTATTTTTT
1 TTTTATTTATTTTTTATTTTTT
19301042 TCAAACATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (23 bp):
TTTTATTTATTTTTTATTTTTTA
Found at i:19306025 original size:28 final size:29
Alignment explanation
Indices: 19305994--19306093 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 29
19305984 TGTGGTTTTA
19305994 GCCTAGT-GGCCATATGAATGTGATTTGG
1 GCCTAGTGGGCCATATGAATGTGATTTGG
* * * *
19306022 GCCTAATGGGCCACATAAATGTGA-ATGG
1 GCCTAGTGGGCCATATGAATGTGATTTGG
* *
19306050 GCCTATTGGGCCATATGAA--AGATATTGG
1 GCCTAGTGGGCCATATGAATGTGAT-TTGG
*
19306078 GTCTAGTGGGCCATAT
1 GCCTAGTGGGCCATAT
19306094 ACATAGGTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.03
28 42 0.72
29 14 0.24
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
GCCTAGTGGGCCATATGAATGTGATTTGG
Found at i:19312230 original size:46 final size:45
Alignment explanation
Indices: 19312163--19312337 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
19312153 TGTAACCCGC
* *
19312163 CCATAAGTGAAGTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
19312209 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
19312255 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
19312302 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
19312338 GTGCTCAACC
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 66 0.61
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:19314229 original size:14 final size:13
Alignment explanation
Indices: 19314188--19314230 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 13
19314178 AGATTTTTCC
19314188 TAAATATTATCAT
1 TAAATATTATCAT
19314201 TAAATA--ATC-T
1 TAAATATTATCAT
19314211 TAAATATTATCAAT
1 TAAATATTATC-AT
19314225 TAAATA
1 TAAATA
19314231 ATTCTGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 6 0.23
14 7 0.27
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAATATTATCAT
Found at i:19314231 original size:24 final size:22
Alignment explanation
Indices: 19314188--19314260 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 22
19314178 AGATTTTTCC
19314188 TAAATATTATCATTAAATAATCT
1 TAAATATTATCATTAAATAAT-T
19314211 TAAATATTATCAATTAAATAATT
1 TAAATATTATC-ATTAAATAATT
* *
19314234 CTGAATATTATTATTAAATAATT
1 -TAAATATTATCATTAAATAATT
19314257 TAAA
1 TAAA
19314261 ATTTAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
22 3 0.07
23 23 0.51
24 19 0.42
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (22 bp):
TAAATATTATCATTAAATAATT
Found at i:19314265 original size:7 final size:7
Alignment explanation
Indices: 19314253--19314293 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
19314243 ATTATTAAAT
19314253 AATTTAA
1 AATTTAA
19314260 AATTTAA
1 AATTTAA
*
19314267 AA-ATAA
1 AATTTAA
19314273 AATTTAA
1 AATTTAA
*
19314280 AA-ATAA
1 AATTTAA
19314286 AATTTAA
1 AATTTAA
19314293 A
1 A
19314294 CTAGAGCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (7 bp):
AATTTAA
Found at i:19314275 original size:13 final size:13
Alignment explanation
Indices: 19314257--19314293 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
19314247 TTAAATAATT
19314257 TAAAATTTAAAAA
1 TAAAATTTAAAAA
19314270 TAAAATTTAAAAA
1 TAAAATTTAAAAA
19314283 TAAAATTTAAA
1 TAAAATTTAAA
19314294 CTAGAGCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAATTTAAAAA
Found at i:19321623 original size:58 final size:58
Alignment explanation
Indices: 19321554--19321669 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
19321544 AAAAATTAAG
19321554 CTCTTCTTGCTCCATTTGATAATACCACAATTGTGCCTTTCCCGTCAAGTGAAAACCA
1 CTCTTCTTGCTCCATTTGATAATACCACAATTGTGCCTTTCCCGTCAAGTGAAAACCA
19321612 CTCTTCTTGCTCCATTTGATAATACCACAATTGTGCCTTTCCCGTCAAGTGAAAACCA
1 CTCTTCTTGCTCCATTTGATAATACCACAATTGTGCCTTTCCCGTCAAGTGAAAACCA
19321670 GTTAGACTCC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (58 bp):
CTCTTCTTGCTCCATTTGATAATACCACAATTGTGCCTTTCCCGTCAAGTGAAAACCA
Found at i:19325742 original size:15 final size:16
Alignment explanation
Indices: 19325722--19325751 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19325712 TTTTGATTAT
19325722 TTTAGGG-TTTAGTGG
1 TTTAGGGTTTTAGTGG
19325737 TTTAGGGTTTTAGTG
1 TTTAGGGTTTTAGTG
19325752 TTTTCTAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (16 bp):
TTTAGGGTTTTAGTGG
Found at i:19325961 original size:143 final size:142
Alignment explanation
Indices: 19325740--19326156 Score: 446
Period size: 142 Copynumber: 2.8 Consensus size: 142
19325730 TTAGTGGTTT
* * **
19325740 AGGGTTTTAGTGTTTTCTAAGGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATT
1 AGGGTTTTAGTTTTTTTTAAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATT
* * * * ** *
19325805 AACTATGGAAATAAAAAAATTAATTAAATTAGAGTTTAGGGTTTTTTAGGGTTGGGGTTTTTGAT
66 AACTATGAAAATAAAAAAATCAATTAAATTAGAGTTTAAGGTTTTTTAGGGTTAGAATTTTTAAT
19325870 TGTTTTAGGAATA
131 TGTTTTAGG-ATA
*
19325883 A-GGTTTTAGTATTTTTTTAAGGAAAAAATTAATTTAATTAGAGTTTAGGGTTAATTAATTAAAT
1 AGGGTTTTAGT-TTTTTTTAAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAAT
* * * *
19325947 TAACTATGAAAAT-AAAAAATCAATTAAATTAGGGTTTAAGATTTTTGAAGGTTAGAATTTTTAA
65 TAACTATGAAAATAAAAAAATCAATTAAATTAGAGTTTAAGGTTTTTTAGGGTTAGAATTTTTAA
19326011 TTGTTTTAGGATA
130 TTGTTTTAGGATA
* *
19326024 AGGGTTTTAGTGGTTTAGGGTTTTAATGTTTTTTAAGAGAAATTAATTTAATTAGAGTTGATGGT
1 AGGGTTTTAGT--TTT----TTTTAA-G-----GAA-A-AAATTAATTTAATTAGAGTTGAGGGT
* * *
19326089 TAATTAATTAAATCAACTATTAAATTAAAAAAGATCAATTAAATTA-AGGTTTATA-GTTTTTTA
52 TAATTAATTAAATTAACTATGAAAATAAAAAA-ATCAATTAAATTAGA-GTTTA-AGGTTTTTTA
19326152 GGGTT
114 GGGTT
19326157 TATTAATTAA
Statistics
Matches: 228, Mismatches: 27, Indels: 24
0.82 0.10 0.09
Matches are distributed among these distances:
141 4 0.02
142 69 0.30
143 64 0.28
147 6 0.03
148 1 0.00
153 2 0.01
154 1 0.00
155 47 0.21
156 5 0.02
157 28 0.12
158 1 0.00
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (142 bp):
AGGGTTTTAGTTTTTTTTAAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATT
AACTATGAAAATAAAAAAATCAATTAAATTAGAGTTTAAGGTTTTTTAGGGTTAGAATTTTTAAT
TGTTTTAGGATA
Found at i:19326507 original size:127 final size:126
Alignment explanation
Indices: 19326219--19326611 Score: 512
Period size: 127 Copynumber: 3.1 Consensus size: 126
19326209 TATTGCCATG
* * *
19326219 GTAGTATCTGAAAAAATAAATTTGAGAAGATGTTTCTAAACAAATAATGTCAAAAAAGCTTCAAG
1 GTAGTATCTGATAAAAT-AATTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAG
*
19326284 AAGGATGCACT-TCAGCAAAATTATAGAAAAAAA-CT-TC-CATATAGACACTCTTTTGCTACA
65 AAGGATGCACTGTCAGCAAAATTACAGAAAAAAAGCTCTCAC-T-TAGACACTCTTTTGCTACA
* * *
19326344 GTAGTATCTGATAAAATAATTTTGAGAAGATATTTCTGAATAAACT-GTGTCAAAAACGCTTCAA
1 GTAGTATCTGATAAAATAA-TTTGAGAAGATGTTTCTAAACAAA-TAGTGTCAAAAACGCTTCAA
* **
19326408 GAAGGATGCACTGTCAGCAAAATTACAAAAAAAAAGCTCTCACTTAGATGCTCTTTTGCTACA
64 GAAGGATGCACTGTCAGCAAAATTACAGAAAAAAAGCTCTCACTTAGACACTCTTTTGCTACA
*
19326471 GTAGTATCTGATAAAATAATGTTGAGAAAATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAG
1 GTAGTATCTGATAAAATAAT-TTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAG
* * * * * * * *
19326536 AAGGACGCATTGTCAGTAAAATTAC-GAAAAAAAGTTCCCACGTGGACACTTTTTTGCTACA
65 AAGGATGCACTGTCAGCAAAATTACAGAAAAAAAGCTCTCACTTAGACACTCTTTTGCTACA
19326597 GTAGTATCTGA-AAAA
1 GTAGTATCTGATAAAA
19326612 GCCTTAGACT
Statistics
Matches: 235, Mismatches: 25, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
124 2 0.01
125 69 0.29
126 62 0.26
127 98 0.42
128 3 0.01
129 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (126 bp):
GTAGTATCTGATAAAATAATTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGA
AGGATGCACTGTCAGCAAAATTACAGAAAAAAAGCTCTCACTTAGACACTCTTTTGCTACA
Found at i:19330350 original size:30 final size:30
Alignment explanation
Indices: 19330311--19330371 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
19330301 TGTTGGCACA
*
19330311 GGTGGTTGTGTGGGCACTGTTGATGGGCCC
1 GGTGATTGTGTGGGCACTGTTGATGGGCCC
19330341 GGTGATTGTGTGGGCACTGTTGATGGGCCC
1 GGTGATTGTGTGGGCACTGTTGATGGGCCC
19330371 G
1 G
19330372 CGTCGTCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.08, C:0.16, G:0.46, T:0.30
Consensus pattern (30 bp):
GGTGATTGTGTGGGCACTGTTGATGGGCCC
Found at i:19330883 original size:7 final size:7
Alignment explanation
Indices: 19330868--19330899 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
19330858 TTATATAAGT
19330868 AATACTA
1 AATACTA
*
19330875 AATAATA
1 AATACTA
19330882 AATACTA
1 AATACTA
19330889 AATACTA
1 AATACTA
19330896 AATA
1 AATA
19330900 GGAAACGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:19335571 original size:30 final size:30
Alignment explanation
Indices: 19335532--19335592 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
19335522 TGTTGGCACA
* *
19335532 GGTGGTTGTGTGGGCATTGTTGATGGGCCC
1 GGTGATTGTGTGGGCACTGTTGATGGGCCC
19335562 GGTGATTGTGTGGGCACTGTTGATGGGCCC
1 GGTGATTGTGTGGGCACTGTTGATGGGCCC
19335592 G
1 G
19335593 CGTCGTCATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.08, C:0.15, G:0.46, T:0.31
Consensus pattern (30 bp):
GGTGATTGTGTGGGCACTGTTGATGGGCCC
Found at i:19336104 original size:7 final size:7
Alignment explanation
Indices: 19336089--19336127 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
19336079 TTATATAAGT
19336089 AATACTA
1 AATACTA
*
19336096 AATAATA
1 AATACTA
19336103 AATACTA
1 AATACTA
19336110 AATACTA
1 AATACTA
19336117 AATACTA
1 AATACTA
19336124 AATA
1 AATA
19336128 GGAAACGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:19340109 original size:9 final size:9
Alignment explanation
Indices: 19340079--19340109 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19340069 ATTTATATTT
19340079 TATTAAAAA
1 TATTAAAAA
*
19340088 TATAAAAAA
1 TATTAAAAA
19340097 TATTAAAAA
1 TATTAAAAA
19340106 TATT
1 TATT
19340110 TCCGTATTGA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TATTAAAAA
Found at i:19343990 original size:24 final size:23
Alignment explanation
Indices: 19343963--19344015 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
19343953 ATAATGTATT
*
19343963 ATAAAGTTAGTATATAAAGAATTG
1 ATAAAATT-GTATATAAAGAATTG
* *
19343987 ATAAAAATTTTTTATAAAGAATTG
1 AT-AAAATTGTATATAAAGAATTG
19344011 ATAAA
1 ATAAA
19344016 TTTTTAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 3 0.12
24 17 0.68
25 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (23 bp):
ATAAAATTGTATATAAAGAATTG
Found at i:19348691 original size:48 final size:48
Alignment explanation
Indices: 19348623--19348801 Score: 277
Period size: 48 Copynumber: 3.7 Consensus size: 48
19348613 TTGCGCTAAA
* *
19348623 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATG
* *
19348671 TGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATA
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATG
* * **
19348719 TGTGCCAGTGTAAGACCATGTCTGGGCCATGGCATCAACGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATG
*
19348767 TGTCCCAGTGTAAGACCATGTCTAGGACATGGCAT
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCAT
19348802 TGGTACTTTA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 120 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (48 bp):
TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATG
Found at i:19348786 original size:96 final size:96
Alignment explanation
Indices: 19348622--19348801 Score: 306
Period size: 96 Copynumber: 1.9 Consensus size: 96
19348612 ATTGCGCTAA
* ** * *
19348622 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCTGTGTAAGAC
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACGATGATATGTGTCCCAGTGTAAGAC
19348687 CATGTCTAGGACATGGCATCGGCGATGATAT
66 CATGTCTAGGACATGGCATCGGCGATGATAT
*
19348718 ATGTGCCAGTGTAAGACCATGTCTGGGCCATGGCATCAACGATGATATGTGTCCCAGTGTAAGAC
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACGATGATATGTGTCCCAGTGTAAGAC
19348783 CATGTCTAGGACATGGCAT
66 CATGTCTAGGACATGGCAT
19348802 TGGTACTTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (96 bp):
ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACGATGATATGTGTCCCAGTGTAAGAC
CATGTCTAGGACATGGCATCGGCGATGATAT
Found at i:19350074 original size:19 final size:18
Alignment explanation
Indices: 19350046--19350081 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
19350036 TACACGGCCT
19350046 AGGGACACAGGCGTGTCA
1 AGGGACACAGGCGTGTCA
19350064 AGGGCACACAGGCGTGTC
1 AGGG-ACACAGGCGTGTC
19350082 GTTGTATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.25, C:0.25, G:0.39, T:0.11
Consensus pattern (18 bp):
AGGGACACAGGCGTGTCA
Found at i:19358424 original size:48 final size:48
Alignment explanation
Indices: 19358348--19358620 Score: 361
Period size: 48 Copynumber: 5.7 Consensus size: 48
19358338 TCGCTCTAAA
* *
19358348 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * * *
19358396 TGTGCTTGTGTAAGACCATATCTAGGACATGGCATCGGCGATGATATG
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * * *
19358444 TGTGCTTCTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATG
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * *
19358492 TGTGCCTCTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATG
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* *
19358540 TGTGCCAATGGAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
**
19358588 TG-GATTCATGTAAGACCATGT-TGGAGACATGGC
1 TGTGCCT-ATGTAAGACCATGTCTGG-GACATGGC
19358621 TTGGTACTTT
Statistics
Matches: 204, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 4 0.02
48 200 0.98
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (48 bp):
TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
Found at i:19358608 original size:144 final size:144
Alignment explanation
Indices: 19358348--19358620 Score: 415
Period size: 144 Copynumber: 1.9 Consensus size: 144
19358338 TCGCTCTAAA
* *** *
19358348 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCTTGTGTAAGACC
1 TGTGCCTCTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCAATGGAAGACC
*
19358413 ATATCTAGGACATGGCATCGGCGATGATATGTGTGCTTCTGTAAGACCATGTTTGG-GACATGGC
66 ATATCTAGGACATGGCATCGGCGATGATATGTGTGATTCTGTAAGACCATG-TTGGAGACATGGC
19358477 ATCGGTGATGATATG
130 ATCGGTGATGATATG
* * *
19358492 TGTGCCTCTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATGTGTGCCAATGGAAGACC
1 TGTGCCTCTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCAATGGAAGACC
* *
19358557 ATGTCTGGGACATGGCATCGGCGATGATATGTG-GATTCATGTAAGACCATGTTGGAGACATGGC
66 ATATCTAGGACATGGCATCGGCGATGATATGTGTGATTC-TGTAAGACCATGTTGGAGACATGGC
19358621 TTGGTACTTT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
143 8 0.07
144 108 0.93
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (144 bp):
TGTGCCTCTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCAATGGAAGACC
ATATCTAGGACATGGCATCGGCGATGATATGTGTGATTCTGTAAGACCATGTTGGAGACATGGCA
TCGGTGATGATATG
Found at i:19360530 original size:36 final size:36
Alignment explanation
Indices: 19360488--19360559 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
19360478 ATATACTTGG
*
19360488 CCACAATTTATTTATAAACATCTAGTTCAATACCAT
1 CCACAATTCATTTATAAACATCTAGTTCAATACCAT
19360524 CCACAATTCATTTATAAACATCTAGTTCAATACCAT
1 CCACAATTCATTTATAAACATCTAGTTCAATACCAT
19360560 TTCCAAAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.35
Consensus pattern (36 bp):
CCACAATTCATTTATAAACATCTAGTTCAATACCAT
Found at i:19374368 original size:48 final size:48
Alignment explanation
Indices: 19374310--19374422 Score: 190
Period size: 48 Copynumber: 2.4 Consensus size: 48
19374300 ATATACACAC
*
19374310 ATCTCCTACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
* *
19374358 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
*
19374406 ATCTCATATATATTTCA
1 ATCTCATACATATTTCA
19374423 GCAATAGCTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
Found at i:19386691 original size:43 final size:43
Alignment explanation
Indices: 19386630--19386719 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
19386620 AGTTCGATGT
* * *
19386630 AATTCTAGGTATAGATTGGTTGATGCTACATAATTCTATTGTG
1 AATTCTAGGTATAGATTGGTTGATGCAACATAATGCCATTGTG
* *
19386673 AATTCTAGGTCTGGATTGGTTGATGCAACATAATGCCATTGTG
1 AATTCTAGGTATAGATTGGTTGATGCAACATAATGCCATTGTG
19386716 AATT
1 AATT
19386720 GTAGACAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (43 bp):
AATTCTAGGTATAGATTGGTTGATGCAACATAATGCCATTGTG
Found at i:19393376 original size:52 final size:52
Alignment explanation
Indices: 19393262--19393439 Score: 231
Period size: 51 Copynumber: 3.5 Consensus size: 52
19393252 ACTAGTGACT
* *
19393262 CAAGTGTGGTACTATGTGAAGGCCACTTTGTG-A-ACAGATAGC-TTGGTTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
* *
19393311 CAAGTGTGGTACTATGTTAAGGTCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
* * *
19393363 CAAGTGTGGTACTATGTGAATGCCACTTTGTGAAG-AAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-A
* *
19393414 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
19393440 GGGGTATCCG
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 30 0.27
50 3 0.03
51 42 0.37
52 38 0.34
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
Found at i:19399863 original size:48 final size:48
Alignment explanation
Indices: 19399686--19399863 Score: 214
Period size: 48 Copynumber: 3.7 Consensus size: 48
19399676 GCAGTACATA
* *
19399686 TGATCCTATGTAAGACCATTTCTGGGACATGGCATTGG-ATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* *
19399733 TGATCCCACGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * * * *
19399781 TGGTCCCATGTAAGACCATATCTGGGATAAGGCATTGGCATTGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
**** * *
19399829 TGATTTTGTGTAAGACCACGTCTAGGACATGGCAT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCAT
19399864 CGATATGAGA
Statistics
Matches: 109, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
47 34 0.31
48 75 0.69
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
Done.