Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 23 of 38
Found at i:3537454 original size:13 final size:13
Alignment explanation
Indices: 3537436--3537461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3537426 CAATTTTTTG
3537436 TGTATCGATACAT
1 TGTATCGATACAT
3537449 TGTATCGATACAT
1 TGTATCGATACAT
3537462 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3540028 original size:13 final size:13
Alignment explanation
Indices: 3540010--3540074 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
3540000 ATAATCACCC
*
3540010 TGTATCGATACAG
1 TGTATCGATACAA
3540023 TGTATCGATACAA
1 TGTATCGATACAA
*
3540036 TGTATCGATACAG
1 TGTATCGATACAA
3540049 TGTATCGATACAA
1 TGTATCGATACAA
3540062 TGTATCGATACAA
1 TGTATCGATACAA
3540075 AGAAAAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3540046 original size:26 final size:26
Alignment explanation
Indices: 3540010--3540073 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
3540000 ATAATCACCC
3540010 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
3540036 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
3540062 TGTATCGATACA
1 TGTATCGATACA
3540074 AAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:3540085 original size:20 final size:20
Alignment explanation
Indices: 3540060--3540138 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
3540050 GTATCGATAC
3540060 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
3540080 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
3540105 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
3540125 CATGTATCGATACA
1 AATGTATCGATACA
3540139 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:3542173 original size:15 final size:15
Alignment explanation
Indices: 3542153--3542183 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3542143 ATTTCGTTTG
*
3542153 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3542168 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3542183 G
1 G
3542184 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3543991 original size:21 final size:21
Alignment explanation
Indices: 3543962--3544006 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3543952 AAGTTTTCAT
*
3543962 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3543982 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3544004 TTT
1 TTT
3544007 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3546242 original size:13 final size:13
Alignment explanation
Indices: 3546224--3546249 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3546214 CAATTTTTTG
3546224 TGTATCGATACAT
1 TGTATCGATACAT
3546237 TGTATCGATACAT
1 TGTATCGATACAT
3546250 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3549104 original size:13 final size:13
Alignment explanation
Indices: 3549086--3549110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3549076 TTATTCAATG
3549086 TATCGATACATTA
1 TATCGATACATTA
3549099 TATCGATACATT
1 TATCGATACATT
3549111 GATCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:3553340 original size:13 final size:13
Alignment explanation
Indices: 3553322--3553348 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3553312 AAATTATGCC
3553322 TTGTATCGATACA
1 TTGTATCGATACA
3553335 TTGTATCGATACA
1 TTGTATCGATACA
3553348 T
1 T
3553349 GAAACTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3557469 original size:21 final size:22
Alignment explanation
Indices: 3557437--3557488 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
3557427 CGTAAACAGT
*
3557437 ATGAACAGTGATGTATTGATAC
1 ATGAACAGTGATGTATCGATAC
3557459 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
3557480 ATGAACAGT
1 ATGAACAGT
3557489 AATGAATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:3557602 original size:53 final size:53
Alignment explanation
Indices: 3557534--3557670 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
3557524 CTACTACCAA
3557534 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * * *
3557587 TGTATCGATAAATATTGTGTGTATCGATACAAATTTGGCTACTGCTAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
3557640 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
3557671 TATGCAATCT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 64 0.83
54 13 0.17
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:3557703 original size:20 final size:20
Alignment explanation
Indices: 3557640--3557710 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
3557630 GCTAATGTCC
**
3557640 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
3557660 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
3557680 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
3557700 TGTATCGATAC
1 TGTATCGATAC
3557711 TTTTCAGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:3557776 original size:21 final size:21
Alignment explanation
Indices: 3557750--3557790 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3557740 GTCAACCTTG
3557750 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
3557771 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
3557791 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:3559951 original size:20 final size:20
Alignment explanation
Indices: 3559897--3559951 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
3559887 AAAAAAACGG
* *
3559897 AATGCATTGATACATTGAAA
1 AATGTATTGATACATTCAAA
* * *
3559917 AATGTATAGACACATTCATA
1 AATGTATTGATACATTCAAA
*
3559937 CATGTATTGATACAT
1 AATGTATTGATACAT
3559952 CTGGCTAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATTGATACATTCAAA
Found at i:3568661 original size:79 final size:79
Alignment explanation
Indices: 3568412--3568652 Score: 387
Period size: 79 Copynumber: 3.1 Consensus size: 79
3568402 AGTATCCTCT
* * * * * * *
3568412 GATTATGGAAAATCGGTGTTCTAGAAAA-AAAATCAGGGTTGGAGTATCCCCTCGGAA-ATAACA
1 GATTATAGAAAATCAGCGTT-TTGAAAATAAAATCGGGGTTGGAGTATCCCCTC-AAAGATAACG
3568475 GGGTTGGAGCATCTCC
64 GGGTTGGAGCATCTCC
3568491 GATTATAGAAAATCAGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAGATAACGGG
1 GATTATAGAAAATCAGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAGATAACGGG
3568556 GTTGGAGCATCTCC
66 GTTGGAGCATCTCC
3568570 GATTATAGAAAATCAGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAGATAACGGG
1 GATTATAGAAAATCAGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAGATAACGGG
3568635 GTTGGAGCATCTCC
66 GTTGGAGCATCTCC
3568649 GATT
1 GATT
3568653 GTGAAAAATT
Statistics
Matches: 153, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
78 8 0.05
79 145 0.95
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (79 bp):
GATTATAGAAAATCAGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAGATAACGGG
GTTGGAGCATCTCC
Found at i:3568677 original size:79 final size:79
Alignment explanation
Indices: 3568412--3568699 Score: 379
Period size: 79 Copynumber: 3.6 Consensus size: 79
3568402 AGTATCCTCT
* * * * * *
3568412 GATTATGGAAAATCGGTGTTCTAGAAAA-AAAATCAGGGTTGGAGTATCCCCTCGGAA-ATAACA
1 GATTATAGAAAATCAGCGTT-TAGAAAATAAAATCGGGGTTGGAGTATCCCCTC-AAAGATAACG
3568475 GGGTTGGAGCATCTCC
64 GGGTTGGAGCATCTCC
*
3568491 GATTATAGAAAATCAGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAGATAACGGG
1 GATTATAGAAAATCAGCGTTTAGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAGATAACGGG
3568556 GTTGGAGCATCTCC
66 GTTGGAGCATCTCC
*
3568570 GATTATAGAAAATCAGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAGATAACGGG
1 GATTATAGAAAATCAGCGTTTAGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAGATAACGGG
3568635 GTTGGAGCATCTCC
66 GTTGGAGCATCTCC
* * ***
3568649 GATTGT-GAAAAATTAATGC-TTTAG-AAATAAGGCCGGGGTTGGAGTATCCCC
1 GATTATAG-AAAA-TCA-GCGTTTAGAAAATAAAATCGGGGTTGGAGTATCCCC
3568700 AATTGTGAGA
Statistics
Matches: 191, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
78 9 0.05
79 174 0.91
80 6 0.03
81 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (79 bp):
GATTATAGAAAATCAGCGTTTAGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAGATAACGGG
GTTGGAGCATCTCC
Found at i:3568728 original size:51 final size:51
Alignment explanation
Indices: 3568631--3568729 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
3568621 TCAAAGATAA
* * * *
3568631 CGGGGTTGGAGCATCTCCGATTGTGAAAAATTAATGCTTTAGAAATAAGGC
1 CGGGGTTGGAGCATCCCCAATTGTGAAAAATCAATGCTTTAAAAATAAGGC
* * *
3568682 CGGGGTTGGAGTATCCCCAATTGTGAGAAATCAAT-ATCTTAAAAATAA
1 CGGGGTTGGAGCATCCCCAATTGTGAAAAATCAATGCT-TTAAAAATAA
3568730 AACTGGGCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.03
51 39 0.98
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGCATCCCCAATTGTGAAAAATCAATGCTTTAAAAATAAGGC
Found at i:3568856 original size:50 final size:50
Alignment explanation
Indices: 3568783--3568942 Score: 187
Period size: 50 Copynumber: 3.2 Consensus size: 50
3568773 ATCCCCAATT
** * *
3568783 ATGAAAAATTGATACTTTGGAAATAAAACTGAGGTTGGAGTATCCTCGAG
1 ATGAAAAATCAATATTTTAGAAATAAAACTGAGGTTGGAGTATCCTCGAG
* * *
3568833 ATGAAAAATCAATATTTTAGAAAT-AAAGTCAGGGTTGGAGTATCCCCGAG
1 ATGAAAAATCAATATTTTAGAAATAAAACTGA-GGTTGGAGTATCCTCGAG
* * * * * *
3568883 ATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTAGAGTGTCCTCAAG
1 ATGAAAAATCAATATTTTAGAAATAAAACTGAGGTTGGAGTATCCTCGAG
3568933 ATGAAAAATC
1 ATGAAAAATC
3568943 TAGAAATTTA
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 5 0.05
50 85 0.92
51 2 0.02
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGAAAAATCAATATTTTAGAAATAAAACTGAGGTTGGAGTATCCTCGAG
Found at i:3572386 original size:20 final size:20
Alignment explanation
Indices: 3572361--3572415 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
3572351 TTTTACCCAG
*
3572361 ATGTATTGATACATTTTTCA
1 ATGTATTGATACATTTATCA
* * * *
3572381 ATGTATCGATATATATATGA
1 ATGTATTGATACATTTATCA
3572401 ATGTATTGATACATT
1 ATGTATTGATACATT
3572416 CTGTTTTGTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (20 bp):
ATGTATTGATACATTTATCA
Found at i:3572437 original size:71 final size:70
Alignment explanation
Indices: 3572332--3572485 Score: 220
Period size: 71 Copynumber: 2.2 Consensus size: 70
3572322 GAACAATACT
* * * *
3572332 TGTATCGATACATTCTGTTTTTTACCCAGATGTATTGATACATTTTTCAATGTATCGATATA-TA
1 TGTATCGATACATTCTGTTTTTTACCCAGATGTATCGACACATTATTCAATGTATCGATACATTA
*
3572396 TATGAA
66 T-TCAA
* *
3572402 TGTATTGATACATTCTGTTTTGTTATCCAGATGTATCGACACATTATTCAATGTATCGATACATT
1 TGTATCGATACATTCTGTTTT-TTACCCAGATGTATCGACACATTATTCAATGTATCGATACATT
3572467 ATTCAA
65 ATTCAA
3572473 TGTATCGATACAT
1 TGTATCGATACAT
3572486 CTAGTTAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
70 20 0.27
71 51 0.69
72 3 0.04
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (70 bp):
TGTATCGATACATTCTGTTTTTTACCCAGATGTATCGACACATTATTCAATGTATCGATACATTA
TTCAA
Found at i:3572457 original size:20 final size:20
Alignment explanation
Indices: 3572432--3572485 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
3572422 TGTTATCCAG
*
3572432 ATGTATCGACACATTATTCA
1 ATGTATCGATACATTATTCA
3572452 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
3572472 ATGTATCGATACAT
1 ATGTATCGATACAT
3572486 CTAGTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:3576362 original size:27 final size:29
Alignment explanation
Indices: 3576292--3576376 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 29
3576282 TTATATGGTA
3576292 CATGAGTCGAAGCCCATATAAGCTGGCAT
1 CATGAGTCGAAGCCCATATAAGCTGGCAT
* * *
3576321 CCAT--GTCAAAACCCATA-CAGCTGGCAT
1 -CATGAGTCGAAGCCCATATAAGCTGGCAT
* * *
3576348 -ATGAGTCGAAGCCCACATTAGCTAGCAT
1 CATGAGTCGAAGCCCATATAAGCTGGCAT
3576376 C
1 C
3576377 CATATCAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
25 2 0.05
27 19 0.44
28 19 0.44
30 3 0.07
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (29 bp):
CATGAGTCGAAGCCCATATAAGCTGGCAT
Found at i:3576422 original size:56 final size:56
Alignment explanation
Indices: 3576296--3576480 Score: 185
Period size: 56 Copynumber: 3.3 Consensus size: 56
3576286 ATGGTACATG
* * * * * * * **
3576296 AGTCGAAGCCCATATAAGCTGGCATCCATGTCAAAACCCATAC-AGCTGGCATATG
1 AGTCAAAGCCCACATTAGCTAGCATCCATATCAAAACCCATACTAGTTGGCACAAA
* *
3576351 AGTCGAAGCCCACATTAGCTAGCATCCATATCAAAACCTATACTAGTTGGCACAAA
1 AGTCAAAGCCCACATTAGCTAGCATCCATATCAAAACCCATACTAGTTGGCACAAA
** * * * *
3576407 AGTCAAAGCCCACATTAGCTAGCATTTATATTAAAGCCCATATTAGTTGGCACATGA
1 AGTCAAAGCCCACATTAGCTAGCATCCATATCAAAACCCATACTAGTTGGCACA-AA
*
3576464 A-TCAAAGCCTACATTAG
1 AGTCAAAGCCCACATTAG
3576481 TTGACCTCTA
Statistics
Matches: 110, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
55 38 0.35
56 70 0.64
57 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (56 bp):
AGTCAAAGCCCACATTAGCTAGCATCCATATCAAAACCCATACTAGTTGGCACAAA
Found at i:3576470 original size:28 final size:28
Alignment explanation
Indices: 3576076--3576472 Score: 98
Period size: 28 Copynumber: 14.2 Consensus size: 28
3576066 TCATCAAAAG
* * * *
3576076 AAAGCCCACATTAGTTTGCATATGAATC
1 AAAGCCCATATTAGCTGGCACATGAATC
** * * *
3576104 CTAGCCTATATTAGTTGGCATC-TGAATTG
1 AAAGCCCATATTAGCTGGCA-CATGAA-TC
* * * * *
3576133 AAA-CCCACATTAGGTGGCACTTGAGTT
1 AAAGCCCATATTAGCTGGCACATGAATC
* * * *
3576160 AAAACCCAAATTAGCTGGTACATGAGTC
1 AAAGCCCATATTAGCTGGCACATGAATC
* * * *
3576188 TAAGCCCATATTAGTTGGCATC-CGTATC
1 AAAGCCCATATTAGCTGGCA-CATGAATC
* * * ** *
3576216 AAGGCCCATACTAGCTAGCACACAAATT
1 AAAGCCCATATTAGCTGGCACATGAATC
* * * *
3576244 AAAGCCTATATTAGCTAGCATGCGTG--TT
1 AAAGCCCATATTAGCTGGCA--CATGAATC
* ** * *
3576272 AAAGACCATATTATATGGTACATGAGTC
1 AAAGCCCATATTAGCTGGCACATGAATC
* *
3576300 GAAGCCCATATAAGCTGGCATCCATG--TC
1 AAAGCCCATATTAGCTGGCA--CATGAATC
* * * *
3576328 AAAACCCATA-CAGCTGGCATATGAGTC
1 AAAGCCCATATTAGCTGGCACATGAATC
* * *
3576355 GAAGCCCACATTAGCTAGCATCCAT--ATC
1 AAAGCCCATATTAGCTGGCA--CATGAATC
* * * * *
3576383 AAAACCTATACTAGTTGGCACA-AAAGTC
1 AAAGCCCATATTAGCTGGCACATGAA-TC
* * * * *
3576411 AAAGCCCACATTAGCTAGCA-TTTATATT
1 AAAGCCCATATTAGCTGGCACATGA-ATC
*
3576439 AAAGCCCATATTAGTTGGCACATGAATC
1 AAAGCCCATATTAGCTGGCACATGAATC
3576467 AAAGCC
1 AAAGCC
3576473 TACATTAGTT
Statistics
Matches: 258, Mismatches: 88, Indels: 46
0.66 0.22 0.12
Matches are distributed among these distances:
25 3 0.01
26 5 0.02
27 24 0.09
28 213 0.83
29 6 0.02
30 7 0.03
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (28 bp):
AAAGCCCATATTAGCTGGCACATGAATC
Found at i:3577273 original size:20 final size:20
Alignment explanation
Indices: 3577228--3577275 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3577218 AATTTGTATT
*
3577228 GATACAATAAGTGAATGTATC
1 GATAC-ATAAGTGAATGTACC
* *
3577249 AATACATAAGTTAATGTACC
1 GATACATAAGTGAATGTACC
3577269 GATACAT
1 GATACAT
3577276 GTCTAAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (20 bp):
GATACATAAGTGAATGTACC
Found at i:3577363 original size:19 final size:20
Alignment explanation
Indices: 3577335--3577387 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
3577325 GAAAATAAAA
*
3577335 TGTATCGATATATT-TTCAT
1 TGTATCGATACATTATTCAT
* *
3577354 TGTATTGATACATTATTTAT
1 TGTATCGATACATTATTCAT
3577374 TGTATCGATACATT
1 TGTATCGATACATT
3577388 CTGGGTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.51
Consensus pattern (20 bp):
TGTATCGATACATTATTCAT
Found at i:3580014 original size:158 final size:158
Alignment explanation
Indices: 3579756--3580063 Score: 415
Period size: 158 Copynumber: 1.9 Consensus size: 158
3579746 TTTCACCATT
* * ** * **
3579756 AGGGATACTCCAACCCCATCATTTTTGAGGGGATACTCCAACCCTATTTTTACTTTTAAAATATC
1 AGGGATACACCAACCCCACCATCATTGAGGAGATACTCCAACCCTATTTTTACTTCCAAAATATC
* * * * * *
3579821 AATTTTTCATCATGAGGGATACTCCAACCCTATCATTTTCGAA-AGGATACTCCAACCCCATTTT
66 AACTTTTCACCATCAAGGATACTACAACCCCATCA-TTTCGAAGAGGATACTCCAACCCCATTTT
3579885 TA-TTCCCAAAATATTAAATTTTTCATCTC
130 TACTT-CCAAAATATTAAATTTTTCATCTC
* *
3579914 AGGGATACACTAACCCCACCATCATTGAGGAGATACTCCAACTCC-ATTTTTACTTCCAAGATAT
1 AGGGATACACCAACCCCACCATCATTGAGGAGATACTCCAAC-CCTATTTTTACTTCCAAAATAT
* *
3579978 CGACTTTTCACCATCAAGGATACTACAACCCCATCATTTCTAAGAGGATACTCCAACCCCATTTT
65 CAACTTTTCACCATCAAGGATACTACAACCCCATCATTTCGAAGAGGATACTCCAACCCCATTTT
3580043 TACTTCCAAAATATTAAATTT
130 TACTTCCAAAATATTAAATTT
3580064 ATAATCATCG
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
157 6 0.05
158 120 0.92
159 4 0.03
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (158 bp):
AGGGATACACCAACCCCACCATCATTGAGGAGATACTCCAACCCTATTTTTACTTCCAAAATATC
AACTTTTCACCATCAAGGATACTACAACCCCATCATTTCGAAGAGGATACTCCAACCCCATTTTT
ACTTCCAAAATATTAAATTTTTCATCTC
Found at i:3580113 original size:80 final size:80
Alignment explanation
Indices: 3579745--3580123 Score: 373
Period size: 79 Copynumber: 4.8 Consensus size: 80
3579735 AAAATATCGA
* * * * *
3579745 TTTTCACCATTAGGGATACTCCAACCCCATCATTTTTGAGGGGATACTCCAACCCTATTTTTACT
1 TTTTCATCATCAGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCCCATTTTTACT
** *
3579810 TTTAAAATA-TCAAT
66 TCCAAAATATTAAAT
* * *
3579824 TTTTCATCATGAGGGATACTCCAACCCTATCATTT-TCGAAAGGATACTCCAACCCCATTTTTA-
1 TTTTCATCATCAGGGATACTCCAACCCCATCATTTCT-GAAGGGATACTCCAACCCCATTTTTAC
3579887 TTCCCAAAATATTAAAT
65 TT-CCAAAATATTAAAT
* * * * *
3579904 TTTTCATC-TCAGGGATACACTAACCCCACCATCAT-TG-AGGAGATACTCCAACTCCATTTTTA
1 TTTTCATCATCAGGGATACTCCAACCCCATCAT-TTCTGAAGG-GATACTCCAACCCCATTTTTA
* ** *
3579966 CTTCCAAGATA-TCGAC
64 CTTCCAAAATATTAAAT
* * *
3579982 TTTTCACCATCAAGGATACTACAACCCCATCATTTCT-AAGAGGATACTCCAACCCCATTTTTAC
1 TTTTCATCATCAGGGATACTCCAACCCCATCATTTCTGAAG-GGATACTCCAACCCCATTTTTAC
3580046 TTCCAAAATATTAAAT
65 TTCCAAAATATTAAAT
* * * *
3580062 TTATAATCATC-GGCGGTACTCCAACCCCA-CAATGTCTGAAGGGATACTCCAACCCCGATTTT
1 TTTTCATCATCAGG-GATACTCCAACCCCATC-ATTTCTGAAGGGATACTCCAACCCC-ATTTT
3580124 CACCAAAAAT
Statistics
Matches: 245, Mismatches: 40, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
78 15 0.06
79 162 0.66
80 60 0.24
81 8 0.03
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (80 bp):
TTTTCATCATCAGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCCCATTTTTACT
TCCAAAATATTAAAT
Found at i:3581696 original size:21 final size:21
Alignment explanation
Indices: 3581667--3581706 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3581657 TTTGCCTTAA
* *
3581667 TATTTTTAAAAATTTTAATTT
1 TATTATTAAAAATATTAATTT
3581688 TATTATTAAAAATATTAAT
1 TATTATTAAAAATATTAAT
3581707 AAAATACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTAAAAATATTAATTT
Found at i:3582325 original size:156 final size:156
Alignment explanation
Indices: 3581870--3582349 Score: 599
Period size: 155 Copynumber: 3.1 Consensus size: 156
3581860 TTGGTAGCCT
* * * ***
3581870 TAATGGATACTAAAA-AGATTATAAATTGGACGAACCTATCCTAAATGCACACCTTCAACATAAA
1 TAATGGACACTAAAATA-ATCATAAATGGGACGAACCTATCCTAAATGCACACCTTTGGCATAAA
* * * * *
3581934 AGCATCTCGGTGACAACTTAGGACTCAATTTTAGAAAAATTACTAAAATGCCCTTTGGATATACC
65 AGCATCTCGGTGACAACCTAGGACTCAGTTTTAGAAAAATTACGAAAATGCCCTTAGGGTATACC
* * *
3581999 TTAGACATTAAACTAT-CCAGTAACCC
130 TTCGACATTAAAGTATCCCAATAACCC
* * * * *
3582025 TAATGGAGACTAAAATGATCATAAATGGGATGAACTTATCCTAAATGCACAGCTTTGGCAT-AAA
1 TAATGGACACTAAAATAATCATAAATGGGACGAACCTATCCTAAATGCACACCTTTGGCATAAAA
* * **
3582089 GCATC-CTGGTGACAACCTAAGACTCAGTTTTAGAAAAATTATGAAAATGCCCTCGGGGTATACC
66 GCATCTC-GGTGACAACCTAGGACTCAGTTTTAGAAAAATTACGAAAATGCCCTTAGGGTATACC
*
3582153 TTCTACATTAAAGTATCCCAATAACCC
130 TTCGACATTAAAGTATCCCAATAACCC
* *
3582180 TAATGGACACTAAAATAATCATAAATGGGACGAACGTATCCTAAGTGCACACCTTTGGCATAAAA
1 TAATGGACACTAAAATAATCATAAATGGGACGAACCTATCCTAAATGCACACCTTTGGCATAAAA
* * * *
3582245 GTATCTCGATGACAACCTAGGACTCAGTTTTAGAAAAATTACGAAAATGCTCTTAGGGTATACTT
66 GCATCTCGGTGACAACCTAGGACTCAGTTTTAGAAAAATTACGAAAATGCCCTTAGGGTATACCT
*** *
3582310 TCGACATTAAAGTATCTTGATAACCA
131 TCGACATTAAAGTATCCCAATAACCC
*
3582336 TAATGGACCCTAAA
1 TAATGGACACTAAA
3582350 TGTACATCTT
Statistics
Matches: 278, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
153 1 0.00
154 70 0.25
155 114 0.41
156 92 0.33
157 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (156 bp):
TAATGGACACTAAAATAATCATAAATGGGACGAACCTATCCTAAATGCACACCTTTGGCATAAAA
GCATCTCGGTGACAACCTAGGACTCAGTTTTAGAAAAATTACGAAAATGCCCTTAGGGTATACCT
TCGACATTAAAGTATCCCAATAACCC
Found at i:3583628 original size:157 final size:156
Alignment explanation
Indices: 3583195--3583628 Score: 503
Period size: 156 Copynumber: 2.8 Consensus size: 156
3583185 CTACAAAAAA
* * * *
3583195 AGTCTTTACATAATTAAAACACAAAATTAACCATCAAAGAAATCAAAACCAGCATATAAAACACA
1 AGTCCTTACATAATAAAAACACAAAATTAA-CATCCAAGAAATCAAAATCAGCATATAAAACACA
* * * * **
3583260 TCCAAAAGTAACAAGGAAGATTTGCCCAA-TCACCTTTGGCCTTGGAATAAAATTTTTGAATAAA
65 TCCAAAAGTTACAAGGAAGATTTGACCAAGT-ACTTTTGGCCTTGGAACAAAATTTTCAAATAAA
* *
3583324 CCCCCTAAACTTTTTAATTTTGCAAATT
129 ACCCCTAAACTTTCTAATTTTGCAAATT
* * * * * *
3583352 AATCCTTACCTAATAAAAATAGAAAATTAACATCCAAGAAATCAAAATTAGCATGTAAAACACAT
1 AGTCCTTACATAATAAAAACACAAAATTAACATCCAAGAAATCAAAATCAGCATATAAAACACAT
* * * * *
3583417 CCAAAAGTTATAA-GAATGATTTGGCCAAGTACTTTTGGCCTGGGAACTAGATTTTCAAATAAAA
66 CCAAAAGTTACAAGGAA-GATTTGACCAAGTACTTTTGGCCTTGGAACAAAATTTTCAAATAAAA
* *
3583481 CCCCTACACTTTCTAATTTTGCAAGTT
130 CCCCTAAACTTTCTAATTTTGCAAATT
* * * *
3583508 AGTCCTTACTTAATAAAAACACAAAATTACACATCCAAGAAATCGAAATCAGCACACAAAACACA
1 AGTCCTTACATAATAAAAACACAAAATTA-ACATCCAAGAAATCAAAATCAGCATATAAAACACA
* ** * * *
3583573 TCCAATAGTTACAAGGAAGATTCAACCAAGTATTTTTGGCCTTAGAACGAAATTTT
65 TCCAAAAGTTACAAGGAAGATTTGACCAAGTACTTTTGGCCTTGGAACAAAATTTT
3583629 TGATATTTAC
Statistics
Matches: 230, Mismatches: 43, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
155 3 0.01
156 127 0.55
157 97 0.42
158 3 0.01
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.27
Consensus pattern (156 bp):
AGTCCTTACATAATAAAAACACAAAATTAACATCCAAGAAATCAAAATCAGCATATAAAACACAT
CCAAAAGTTACAAGGAAGATTTGACCAAGTACTTTTGGCCTTGGAACAAAATTTTCAAATAAAAC
CCCTAAACTTTCTAATTTTGCAAATT
Found at i:3584840 original size:154 final size:152
Alignment explanation
Indices: 3584655--3585091 Score: 463
Period size: 154 Copynumber: 2.8 Consensus size: 152
3584645 AAAAATGCAT
* * * * *
3584655 AACTCATAAAATAAATCCAA-TTTTCACAAACTGATCTAATATGAATTTAATAAAAATATTTAAT
1 AACTCATAAAATAAAT-TAATTTTTTAAAAACTGATTTAATATGAATTAAATAAAAATATTTAA-
* * **
3584719 AAATTTTAAAAATTATAAACTGAGAAAAATTCGA-TCAAAGAAATTTACGAAGTAGAAAACTCTG
64 AAATTTTAAAAATTATAAACTTAGAAAAATTCTACT-AAAGAAATTTACGAAGTAGAAAACTCCA
3584783 TACCTTGGTATCA-A-AAAAATTATAA
128 TACCTT-G-ATCATAGAAAAATTATAA
** * *
3584808 AACTCATACATTTAAATTAAATTTTTT-AAAACTGATTTACTATGAATTAAATAATAATATTTGA
1 AACTCATA-AAATAAATT-AATTTTTTAAAAACTGATTTAATATGAATTAAATAAAAATATTT-A
* * * * *
3584872 AAATTTTTTAAAAA-TATAAACTTAGAAAAATCCTACTGAAGAAATTTATGATGTAGAAAACTCC
63 AAA-ATTTTAAAAATTATAAACTTAGAAAAATTCTACTAAAGAAATTTACGAAGTAGAAAACTCC
* *
3584936 ATATCTTGATCATAGGAAAAATTCTAA
127 ATACCTTGATCATA-GAAAAATTATAA
* * ** *
3584963 AACTCATAAAATATATTAATTTTTTAAAAAAAATAGATTTTGTATGAATTAAAAAAATAATATTT
1 AACTCATAAAATAAATTAATTTTTT--AAAAACT-GATTTAATATGAATTAAATAAA-AATATTT
*
3585028 AAACAATTTTAAAAATTATAAACTTAGAAAAATTCTACTAAAAAAATTTACGAAGTAGAAAACT
62 AAA-AATTTTAAAAATTATAAACTTAGAAAAATTCTACTAAAGAAATTTACGAAGTAGAAAACT
3585092 TCGTATCTTA
Statistics
Matches: 234, Mismatches: 34, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
152 4 0.02
153 18 0.08
154 92 0.39
155 34 0.15
156 5 0.02
157 30 0.13
158 51 0.22
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (152 bp):
AACTCATAAAATAAATTAATTTTTTAAAAACTGATTTAATATGAATTAAATAAAAATATTTAAAA
ATTTTAAAAATTATAAACTTAGAAAAATTCTACTAAAGAAATTTACGAAGTAGAAAACTCCATAC
CTTGATCATAGAAAAATTATAA
Found at i:3585854 original size:43 final size:43
Alignment explanation
Indices: 3585766--3585867 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
3585756 GTGGCTACTT
* * * * *
3585766 AACCATATGAACCAACAAATTAGAAAGGTGTTGGCTAGGAGGA
1 AACCATACGAACCAACAAATTAGAAAGATGTTGGCGAGAAAGA
3585809 AACCATACGAACCAA-AGAATTAGAAAGATGTTGGTCGA-AAAGA
1 AACCATACGAACCAACA-AATTAGAAAGATGTTGG-CGAGAAAGA
3585852 AACCATAC-ATACCAAC
1 AACCATACGA-ACCAAC
3585868 GAGATAAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
42 2 0.04
43 46 0.92
44 2 0.04
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.17
Consensus pattern (43 bp):
AACCATACGAACCAACAAATTAGAAAGATGTTGGCGAGAAAGA
Found at i:3585890 original size:24 final size:24
Alignment explanation
Indices: 3585862--3585909 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
3585852 AACCATACAT
3585862 ACCAACGAGATA-AAAGGATGTTGG
1 ACCAACGAGATAGAAAGG-TGTTGG
*
3585886 ACCAACGAGTTAGAAAGGTGTTGG
1 ACCAACGAGATAGAAAGGTGTTGG
3585910 CTAGGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (24 bp):
ACCAACGAGATAGAAAGGTGTTGG
Found at i:3585951 original size:43 final size:42
Alignment explanation
Indices: 3585886--3585987 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
3585876 AGGATGTTGG
* * * * *
3585886 ACCAACGAGTTAGAAAGGTGTTG-GCTAGGACAAAACCATATGA
1 ACCAACAAATTAGAAAGATGTTGATC-AGGAC-AAACCATACGA
*
3585929 TCCAACAAATTAGAAAGATGTTGATCAGGACAAACCATACGA
1 ACCAACAAATTAGAAAGATGTTGATCAGGACAAACCATACGA
*
3585971 ACCAACAAGTTAGAAAG
1 ACCAACAAATTAGAAAG
3585988 GTGTCAGCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 25 0.50
43 24 0.48
44 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (42 bp):
ACCAACAAATTAGAAAGATGTTGATCAGGACAAACCATACGA
Found at i:3585988 original size:110 final size:110
Alignment explanation
Indices: 3585776--3585988 Score: 270
Period size: 110 Copynumber: 1.9 Consensus size: 110
3585766 AACCATATGA
**
3585776 ACCAACAAATTAGAAAGGTGTTGGCTAGGAGGAAACCATACGAACCAAAGAATTAGAAAGATGTT
1 ACCAACAAATTAGAAAGGTGTTGGCTAGGACAAAACCATACGAACCAAAGAATTAGAAAGATGTT
* * *
3585841 GGTCGAAAAGAAACCATACATACCAACGAGATAAAAGGATGTTGG
66 GATCGAAAACAAACCATACATACCAACAAGATAAAAGGATGTTGG
* * * *
3585886 ACCAACGAGTTAGAAAGGTGTTGGCTAGGACAAAACCATATGATCCAACA-AATTAGAAAGATGT
1 ACCAACAAATTAGAAAGGTGTTGGCTAGGACAAAACCATACGAACCAA-AGAATTAGAAAGATGT
** *
3585950 TGATC-AGGACAAACCATACGA-ACCAACAAGTTAGAAAGG
65 TGATCGAAAACAAACCATAC-ATACCAACAAGATA-AAAGG
3585989 TGTCAGCCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
109 21 0.24
110 66 0.75
111 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (110 bp):
ACCAACAAATTAGAAAGGTGTTGGCTAGGACAAAACCATACGAACCAAAGAATTAGAAAGATGTT
GATCGAAAACAAACCATACATACCAACAAGATAAAAGGATGTTGG
Found at i:3586382 original size:86 final size:84
Alignment explanation
Indices: 3585886--3586407 Score: 300
Period size: 86 Copynumber: 6.1 Consensus size: 84
3585876 AGGATGTTGG
* * ** * * * *
3585886 ACCAACGAGTTAGAAAGGTGTTGGCTAGGACAAAACCATATGATCCAACAAATTAGAAAG-ATGT
1 ACCAATGAGTTAGAAAGGTGTTGGC-CGGATGAAACCATATGAACCAACGAGTTAGAAGGTAT-T
* * *
3585950 TGATCAGGAC-AAACCATACGA
64 GGTTGA-GACGAAACCATACGA
** ** * * ** ** *
3585971 ACCAACAAGTTAGAAAGGTGTCAGCCAAGACGAAACCATACAAACCAATAAGTTAGAAGGGTGTT
1 ACCAATGAGTTAGAAAGGTGTTGGCC-GGATGAAACCATATGAACCAACGAGTTAGAA-GGTATT
* ** *
3586036 AGCCGAGAC-AAACCATACGT
64 GGTTGAGACGAAACCATACGA
* * * * ** * * * * *
3586056 ACCAACGGGTTA-AAAGGATGTTAGCCAAGACAAAACCATACGTATCAAAGAGTTAAAAGGATAT
1 ACCAATGAGTTAGAAAGG-TGTTGGCC-GGATGAAACCATATGAACCAACGAGTTAGAAGG-TAT
* * *
3586120 TGGCT-AGGATGAAACCATACGT
63 TGGTTGA-GACGAAACCATACGA
* * *
3586142 ACCAATGAGTTTGAAAGGTGTTGGCCGAGATGAAACCATATGAACGAACGAGTTAAAAAGGTATT
1 ACCAATGAGTTAGAAAGGTGTTGGCCG-GATGAAACCATATGAACCAACGAGTT-AGAAGGTATT
* * *
3586207 GGTCGAAATGAAACCATACGA
64 GGTTGAGACGAAACCATACGA
** * * *
3586228 ACCAATGAGTTAGAAAGGTGTTGGTCAAGATGAAAACATATGTACCAACGAGTTAGGAAGGTGTT
1 ACCAATGAGTTAGAAAGGTGTTGG-CCGGATGAAACCATATGAACCAACGAGTTA-GAAGGTATT
* * *
3586293 GGTTGGGGCGAAACCATACAA
64 GGTTGAGACGAAACCATACGA
** * * * *
3586314 ACCAACAAGTTAGAAAGGTGCTGGCCGGTACGAAACCAAATGAACCAACAAGTTAGAAGGGTATT
1 ACCAATGAGTTAGAAAGGTGTTGGCCGG-ATGAAACCATATGAACCAACGAGTTAGAA-GGTATT
*
3586379 GGTT-ATGACGAAACCATACGT
64 GGTTGA-GACGAAACCATACGA
*
3586400 ATCAATGA
1 ACCAATGA
3586408 ACCAATGAGT
Statistics
Matches: 341, Mismatches: 80, Indels: 31
0.75 0.18 0.07
Matches are distributed among these distances:
84 8 0.02
85 114 0.33
86 205 0.60
87 14 0.04
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (84 bp):
ACCAATGAGTTAGAAAGGTGTTGGCCGGATGAAACCATATGAACCAACGAGTTAGAAGGTATTGG
TTGAGACGAAACCATACGA
Found at i:3586448 original size:51 final size:51
Alignment explanation
Indices: 3586352--3586449 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
3586342 TACGAAACCA
* ** * *
3586352 AATGAACCAACAAGTTAGAAGGGTATTGGTTATGACGAAACCATACGTATC
1 AATGAACCAACAAGTTAGAAAGGTATTGACTAGGACAAAACCATACGTATC
** * *
3586403 AATGAACCAATGAGTTAGAAAGGTATTGACTGGGACAAAAGCATACG
1 AATGAACCAACAAGTTAGAAAGGTATTGACTAGGACAAAACCATACG
3586450 AACCAACAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (51 bp):
AATGAACCAACAAGTTAGAAAGGTATTGACTAGGACAAAACCATACGTATC
Found at i:3586498 original size:43 final size:43
Alignment explanation
Indices: 3585886--3586490 Score: 257
Period size: 43 Copynumber: 13.9 Consensus size: 43
3585876 AGGATGTTGG
* * * * *
3585886 ACCAACGAGTTAGAAAGGTGTT-GGCTAGGACAAAACCATATGA
1 ACCAACAAGTTAGAAAGGTGTTAGCCGA-GACTAAACCATACGA
* * * * *
3585929 TCCAACAAATTAGAAAGATGTTGATCAG-GAC-AAACCATACGA
1 ACCAACAAGTTAGAAAGGTGTT-AGCCGAGACTAAACCATACGA
* * * *
3585971 ACCAACAAGTTAGAAAGGTGTCAGCCAAGACGAAACCATACAA
1 ACCAACAAGTTAGAAAGGTGTTAGCCGAGACTAAACCATACGA
* * *
3586014 ACCAATAAGTTAGAAGGGTGTTAGCCGAGAC-AAACCATACGT
1 ACCAACAAGTTAGAAAGGTGTTAGCCGAGACTAAACCATACGA
** * * *
3586056 ACCAACGGGTTA-AAAGGATGTTAGCCAAGACAAAACCATACGT
1 ACCAACAAGTTAGAAAGG-TGTTAGCCGAGACTAAACCATACGA
* * * * *
3586099 ATCAA-AGAGTTA-AAAGGATATT-GGCTAGGA-TGAAACCATACGT
1 ACCAACA-AGTTAGAAAGG-TGTTAGCCGA-GACT-AAACCATACGA
** * * *
3586142 ACCAATGAGTTTGAAAGGTGTTGGCCGAGA-TGAAACCATATGA
1 ACCAACAAGTTAGAAAGGTGTTAGCCGAGACT-AAACCATACGA
* * * * * * *
3586185 ACGAACGAGTTAAAAAGGTATTGGTCGA-AATGAAACCATACGA
1 ACCAACAAGTTAGAAAGGTGTTAGCCGAGACT-AAACCATACGA
** * * * * * *
3586228 ACCAATGAGTTAGAAAGGTGTTGGTCAAGA-TGAAAACATATGT
1 ACCAACAAGTTAGAAAGGTGTTAGCCGAGACT-AAACCATACGA
* * * ** * * * *
3586271 ACCAACGAGTTAGGAAGGTGTTGGTTGGGGCGAAACCATACAA
1 ACCAACAAGTTAGAAAGGTGTTAGCCGAGACTAAACCATACGA
* * * * *
3586314 ACCAACAAGTTAGAAAGGTGCTGGCCG-GTACGAAACCAAATGA
1 ACCAACAAGTTAGAAAGGTGTTAGCCGAG-ACTAAACCATACGA
* * * * * * *
3586357 ACCAACAAGTTAGAAGGGTATTGGTTATGACGAAACCATACGTATCAATGA
1 ACCAACAAGTTAGAAAGG---T-GTTA-GCCGAGACTAAAC-CAT--ACGA
** * * * * *
3586408 ACCAATGAGTTAGAAAGGTATT-GACTGGGACAAAAGCATACGA
1 ACCAACAAGTTAGAAAGGTGTTAG-CCGAGACTAAACCATACGA
3586451 ACCAACAAGTTAGAAAGGTGTTAGCCGAGACTAAACCATA
1 ACCAACAAGTTAGAAAGGTGTTAGCCGAGACTAAACCATA
3586491 AGTACCAATA
Statistics
Matches: 428, Mismatches: 107, Indels: 54
0.73 0.18 0.09
Matches are distributed among these distances:
41 6 0.01
42 66 0.15
43 304 0.71
44 10 0.02
45 3 0.01
46 6 0.01
47 4 0.01
48 9 0.02
49 1 0.00
51 19 0.04
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (43 bp):
ACCAACAAGTTAGAAAGGTGTTAGCCGAGACTAAACCATACGA
Found at i:3586603 original size:38 final size:41
Alignment explanation
Indices: 3586561--3586692 Score: 110
Period size: 44 Copynumber: 3.2 Consensus size: 41
3586551 TGGTCGGGGC
3586561 GAAACCATATGAACCAACAAA-AG-AGAGT-TGACTAGGAT
1 GAAACCATATGAACCAACAAATAGAAGAGTCTGACTAGGAT
* ** * * *
3586599 GAAACCATACGAGTCAACAAATTAGAAAGGGTGCTGGCTGGGAT
1 GAAACCATATGAACCAACAAA-TAG-AAGAGT-CTGACTAGGAT
* * *
3586643 GAAACCATATGAACCAACAAAT-GAAGGGTGTTGACCAGGAT
1 GAAACCATATGAACCAACAAATAGAAGAGT-CTGACTAGGAT
*
3586684 AAAACCATA
1 GAAACCATA
3586693 CATATCAACA
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
38 18 0.24
40 2 0.03
41 22 0.30
42 5 0.07
43 1 0.01
44 26 0.35
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (41 bp):
GAAACCATATGAACCAACAAATAGAAGAGTCTGACTAGGAT
Found at i:3586863 original size:41 final size:41
Alignment explanation
Indices: 3586818--3587009 Score: 159
Period size: 41 Copynumber: 4.9 Consensus size: 41
3586808 CATAAGAGTT
3586818 AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATA-GAAACC
1 AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATATG-AACC
* *
3586859 AACGAA-GAAAGGGTGTTGGTCGAGATGAAACCATATGTACC
1 AACGAAGGAAA-GGTGTTGGCCGAGATGAAACCATATGAACC
** ** * * **
3586900 AATAAAGGAAA---GTTGATCGGGATGAAATCATATGAGTC
1 AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATATGAACC
* * * * *
3586938 AACGAAGAAAAGGTATTGGCCGGGAT-AAACCATACGAACT
1 AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATATGAACC
*
3586978 AACGAAGGAAA---GTTGACCGAGATGAAACCATA
1 AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATA
3587010 CGAGTCAATG
Statistics
Matches: 119, Mismatches: 25, Indels: 17
0.74 0.16 0.11
Matches are distributed among these distances:
37 9 0.08
38 37 0.31
40 23 0.19
41 45 0.38
42 5 0.04
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.17
Consensus pattern (41 bp):
AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATATGAACC
Found at i:3586915 original size:120 final size:121
Alignment explanation
Indices: 3586719--3586989 Score: 278
Period size: 120 Copynumber: 2.2 Consensus size: 121
3586709 ACTTAGCCAG
* ** * *
3586719 GATGAAACCATACAAGTCAACAAAGAGAAGGTGTGTTGGCCAAGACAAAACCATATGAACTAACA
1 GATGAAACCATAGAAACCAACGAAGA-AAGGTGTGTTGGCCAAGACAAAACCATATGAACCAACA
* * * *
3586784 AAATAAAGTTGACCAGGACAAAACCATAAGAGTTAACGAAGGAAAGGTGTTGGCCGA
65 AAAGAAAGTTGACCAGGACAAAACCATAAGAGTCAACGAAGAAAAGGTATTGGCCGA
* * ** * *
3586841 GATGAAACCATAGAAACCAACGAAGAAAGG-GTGTTGGTCGAGATGAAACCATATGTACCAATAA
1 GATGAAACCATAGAAACCAACGAAGAAAGGTGTGTTGGCCAAGACAAAACCATATGAACCAACAA
* * * ** * * *
3586905 AGGAAAGTTGATCGGGATGAAATCATATGAGTCAACGAAGAAAAGGTATTGGCCGG
66 AAGAAAGTTGACCAGGACAAAACCATAAGAGTCAACGAAGAAAAGGTATTGGCCGA
*
3586961 GAT-AAACCATACG-AACTAACGAAGGAAAG
1 GATGAAACCATA-GAAACCAACGAA-GAAAG
3586990 TTGACCGAGA
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
119 17 0.14
120 80 0.65
121 4 0.03
122 22 0.18
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.16
Consensus pattern (121 bp):
GATGAAACCATAGAAACCAACGAAGAAAGGTGTGTTGGCCAAGACAAAACCATATGAACCAACAA
AAGAAAGTTGACCAGGACAAAACCATAAGAGTCAACGAAGAAAAGGTATTGGCCGA
Found at i:3586991 original size:78 final size:79
Alignment explanation
Indices: 3586832--3587017 Score: 205
Period size: 78 Copynumber: 2.4 Consensus size: 79
3586822 AAGGAAAGGT
* ** * * * *
3586832 GTTGGCCGAGATGAAACCATA-GAAACCAACGAAGAAAGGGTGTTGGTCGAGATGAAACCATATG
1 GTTGACCGAGATGAAACCATACG-AGTCAACGAAGAAAAGGTATTGGCCGAGATGAAACCATACG
* *
3586896 TACCAATAAAGGAAA
65 AACCAACAAAGGAAA
* * * * *
3586911 GTTGATCGGGATGAAATCATATGAGTCAACGAAGAAAAGGTATTGGCCGGGAT-AAACCATACGA
1 GTTGACCGAGATGAAACCATACGAGTCAACGAAGAAAAGGTATTGGCCGAGATGAAACCATACGA
* *
3586975 ACTAACGAAGGAAA
66 ACCAACAAAGGAAA
3586989 GTTGACCGAGATGAAACCATACGAGTCAA
1 GTTGACCGAGATGAAACCATACGAGTCAA
3587018 TGAATTAGTA
Statistics
Matches: 87, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
78 45 0.52
79 41 0.47
80 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.17
Consensus pattern (79 bp):
GTTGACCGAGATGAAACCATACGAGTCAACGAAGAAAAGGTATTGGCCGAGATGAAACCATACGA
ACCAACAAAGGAAA
Found at i:3587012 original size:38 final size:39
Alignment explanation
Indices: 3586766--3587009 Score: 126
Period size: 41 Copynumber: 6.2 Consensus size: 39
3586756 GGCCAAGACA
* ** **
3586766 AAACCATATGAACTAACAAAATAAA-GTTGACC-AGGACA
1 AAACCATATGAACTAACGAAGGAAAGGTTGACCGA-GATG
* ** *
3586804 AAACCATAAGAGTTAACGAAGGAAAGGTGTTGGCCGAGATG
1 AAACCATATGAACTAACGAAGGAAA-G-GTTGACCGAGATG
* **
3586845 AAACCATA-GAAACCAACGAA-GAAAGGGTGTTGGTCGAGATG
1 AAACCATATG-AACTAACGAAGGAAA--G-GTTGACCGAGATG
* * ** * *
3586886 AAACCATATGTACCAATAAAGGAAA-GTTGATCGGGATG
1 AAACCATATGAACTAACGAAGGAAAGGTTGACCGAGATG
* * * * *
3586924 AAATCATATG-AGTCAACGAAGAAAAGGTATTGGCCGGGAT-
1 AAACCATATGAACT-AACGAAGGAAAGG--TTGACCGAGATG
*
3586964 AAACCATACGAACTAACGAAGGAAA-GTTGACCGAGATG
1 AAACCATATGAACTAACGAAGGAAAGGTTGACCGAGATG
3587002 AAACCATA
1 AAACCATA
3587010 CGAGTCAATG
Statistics
Matches: 160, Mismatches: 32, Indels: 28
0.73 0.15 0.13
Matches are distributed among these distances:
37 10 0.06
38 55 0.34
39 2 0.01
40 23 0.14
41 64 0.40
42 6 0.04
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.17
Consensus pattern (39 bp):
AAACCATATGAACTAACGAAGGAAAGGTTGACCGAGATG
Found at i:3590702 original size:20 final size:20
Alignment explanation
Indices: 3590657--3590708 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
3590647 GTAGCCAAAC
**
3590657 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
3590677 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
3590696 TTGTATCGATACA
1 TTGTATCGATACA
3590709 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:3592724 original size:18 final size:19
Alignment explanation
Indices: 3592687--3592728 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
3592677 TTAAAGCATA
3592687 AAAAGAAAATCAAAAAATT
1 AAAAGAAAATCAAAAAATT
* *
3592706 AAAAGAAGAT-AATAAATT
1 AAAAGAAAATCAAAAAATT
3592724 AAAAG
1 AAAAG
3592729 TTGTTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (19 bp):
AAAAGAAAATCAAAAAATT
Found at i:3593724 original size:20 final size:20
Alignment explanation
Indices: 3593679--3593730 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
3593669 GTAGCCATAC
**
3593679 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
3593699 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
3593718 TTGTATCGATACA
1 TTGTATCGATACA
3593731 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:3597015 original size:29 final size:31
Alignment explanation
Indices: 3596963--3597030 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 31
3596953 TGTTCCTTTT
*
3596963 AGTCGCACAATTAATTGAGCATCT-TGTCTCAA
1 AGTC-CACAATCAATTGAGCATCTCTGTC-CAA
*
3596995 AGTCCACAATCAA-TG-GCATCTCTTTCCAA
1 AGTCCACAATCAATTGAGCATCTCTGTCCAA
3597024 AGTCCAC
1 AGTCCAC
3597031 GACTTAGTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 16 0.48
30 5 0.15
31 8 0.24
32 4 0.12
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (31 bp):
AGTCCACAATCAATTGAGCATCTCTGTCCAA
Found at i:3597248 original size:33 final size:32
Alignment explanation
Indices: 3597207--3597271 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
3597197 ACCTCTTTTC
3597207 AAAGCCACAACTCT-GTAGCACTCTTTTCCTTT
1 AAAGCCACAACTCTCGTAGCAC-CTTTTCCTTT
*
3597239 AAAGTCCACAACTTTCGTAGCACCTTTTCCTTT
1 AAAG-CCACAACTCTCGTAGCACCTTTTCCTTT
3597272 TAGGTCTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.13
33 19 0.63
34 7 0.23
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.35
Consensus pattern (32 bp):
AAAGCCACAACTCTCGTAGCACCTTTTCCTTT
Found at i:3597407 original size:32 final size:32
Alignment explanation
Indices: 3597296--3597520 Score: 166
Period size: 32 Copynumber: 7.2 Consensus size: 32
3597286 GTGTATCTTT
*
3597296 CAACCTTTTTCTAAAGCCCACACAAGTCGGTGG
1 CAACCTTCTTC-AAAGCCCACACAAGTCGGTGG
* * *
3597329 CAACCTTC-TC-TAGCCTA-ACAAGTTGGTGG
1 CAACCTTCTTCAAAGCCCACACAAGTCGGTGG
** *
3597358 CAA--TTCCCCCTAAGCCCACAC-AGTC-GTGG
1 CAACCTT-CTTCAAAGCCCACACAAGTCGGTGG
* * *
3597387 CAACCTTTTTTCAAAAGCCCA-ATAAGTCGGGGG
1 CAACC-TTCTTC-AAAGCCCACACAAGTCGGTGG
*
3597420 CAACCTTCTTCTAAAGCCAACACAAGTCGGTGG
1 CAACCTTCTTC-AAAGCCCACACAAGTCGGTGG
* *
3597453 CAAAC-TCTGCAAAGCCCACACAAGTC-GTGG
1 CAACCTTCTTCAAAGCCCACACAAGTCGGTGG
* * *
3597483 CAACCCTC-TCTAAAGGCCCGCACAAGTTGGTGG
1 CAACCTTCTTC-AAA-GCCCACACAAGTCGGTGG
3597516 CAACC
1 CAACC
3597521 AGTCTCTAAA
Statistics
Matches: 151, Mismatches: 26, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
27 2 0.01
28 1 0.01
29 22 0.15
30 22 0.15
31 24 0.16
32 42 0.28
33 38 0.25
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (32 bp):
CAACCTTCTTCAAAGCCCACACAAGTCGGTGG
Found at i:3597507 original size:63 final size:63
Alignment explanation
Indices: 3597400--3597518 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
3597390 CCTTTTTTCA
* *
3597400 AAAGCCCAATAAGTCGGGGGCAACCTTCTTCTAAAGCCAACACAAGTCGGTGGCAAACTCTGC
1 AAAGCCCAACAAGTCGGGGGCAACCCTCTTCTAAAGCCAACACAAGTCGGTGGCAAACTCTGC
* ** *
3597463 AAAGCCCACACAAGTC-GTGGCAACCCTC-TCTAAAGGCCCGCACAAGTTGGTGGCAA
1 AAAGCCCA-ACAAGTCGGGGGCAACCCTCTTCTAAA-GCCAACACAAGTCGGTGGCAA
3597519 CCAGTCTCTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
62 6 0.12
63 36 0.75
64 6 0.12
ACGTcount: A:0.31, C:0.30, G:0.23, T:0.16
Consensus pattern (63 bp):
AAAGCCCAACAAGTCGGGGGCAACCCTCTTCTAAAGCCAACACAAGTCGGTGGCAAACTCTGC
Found at i:3597529 original size:34 final size:32
Alignment explanation
Indices: 3597305--3597531 Score: 115
Period size: 33 Copynumber: 7.2 Consensus size: 32
3597295 TCAACCTTTT
*
3597305 TCTAAA-GCCCACACAAGTCGGTGGCAACCTTC
1 TCTAAAGGCCCACACAAGTC-GTGGCAACCCTC
* *
3597337 TCT--A-GCCTA-ACAAGTTGGTGGCAATTCCC-C
1 TCTAAAGGCCCACACAAG-TCGTGGCAA--CCCTC
* *
3597367 -CT-AA-GCCCACAC-AGTCGTGGCAACCTTT
1 TCTAAAGGCCCACACAAGTCGTGGCAACCCTC
* * * * *
3597395 TTTCAAAAGCCCA-ATAAGTCGGGGGCAACCTTC
1 TCT-AAAGGCCCACACAAGTC-GTGGCAACCCTC
* *
3597428 TTCTAAA-GCCAACACAAGTCGGTGGCAA-ACTC
1 -TCTAAAGGCCCACACAAGTC-GTGGCAACCCTC
3597460 TGC-AAA-GCCCACACAAGTCGTGGCAACCCTC
1 T-CTAAAGGCCCACACAAGTCGTGGCAACCCTC
* * *
3597491 TCTAAAGGCCCGCACAAGTTGGTGGCAACCAGTC
1 TCTAAAGGCCCACACAAG-TCGTGGCAACC-CTC
3597525 TCTAAAG
1 TCTAAAG
3597532 CCAACATAGT
Statistics
Matches: 153, Mismatches: 22, Indels: 38
0.72 0.10 0.18
Matches are distributed among these distances:
27 2 0.01
29 23 0.15
30 22 0.14
31 30 0.20
32 29 0.19
33 36 0.24
34 11 0.07
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (32 bp):
TCTAAAGGCCCACACAAGTCGTGGCAACCCTC
Found at i:3597953 original size:44 final size:42
Alignment explanation
Indices: 3597889--3597973 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
3597879 GCACCTTCTT
3597889 CTTTAAGTCCAATGCAGCTGGCCCTTTGAATCAGCACATTGGCA
1 CTTTAAGTCCAATGCAGCTGG-CC-TTGAATCAGCACATTGGCA
* *
3597933 CTTTAAGTCC-ATAG-AGGCTGGCCTTGAATCGGCATATTGGC
1 CTTTAAGTCCAAT-GCA-GCTGGCCTTGAATCAGCACATTGGC
3597974 CACCTTTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 16 0.43
43 5 0.14
44 16 0.43
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (42 bp):
CTTTAAGTCCAATGCAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:3598005 original size:97 final size:89
Alignment explanation
Indices: 3597845--3598016 Score: 227
Period size: 97 Copynumber: 1.8 Consensus size: 89
3597835 TTCTTATCTG
* *
3597845 TAAGTCCATATAGGCTGCCTTGAATCACATATTGGCACCTTCTTCTTTAAGTCCAATGCAGCTGG
1 TAAGTCCATAGAGGCTGCCTTGAATCACATATTGGCACCTTCTTCTTTAAGTCCAATGAAGCTGG
3597910 CCCTTTGAATCAGCACATTGGCACTT
66 -CC-TTGAATCAGCACATTGGCACTT
* * *
3597936 TAAGTCCATAGAGGCTGGCCTTGAATCGGCATATTGGCCACCTTTTTCCATTTTAAGTTCAATGA
1 TAAGTCCATAGAGGCT-GCCTTGAATC-ACATATTGG-CACCTTCTT-C--TTTAAGTCCAATGA
3598001 AGCTGGCCTTGAATCA
60 AGCTGGCCTTGAATCA
3598017 CACTTGACAT
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
91 15 0.21
92 10 0.14
93 8 0.11
94 8 0.11
95 9 0.13
96 2 0.03
97 18 0.26
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (89 bp):
TAAGTCCATAGAGGCTGCCTTGAATCACATATTGGCACCTTCTTCTTTAAGTCCAATGAAGCTGG
CCTTGAATCAGCACATTGGCACTT
Found at i:3654047 original size:158 final size:158
Alignment explanation
Indices: 3653789--3654096 Score: 415
Period size: 158 Copynumber: 1.9 Consensus size: 158
3653779 TTTCACCATT
* * ** * **
3653789 AGGGATACTCCAACCCCATCATTTTTGAGGGGATACTCCAACCCTATTTTTACTTTTAAAATATC
1 AGGGATACACCAACCCCACCATCATTGAGGAGATACTCCAACCCTATTTTTACTTCCAAAATATC
* * * * * *
3653854 AATTTTTCATCATGAGGGATACTCCAACCCTATCATTTTCGAA-AGGATACTCCAACCCCATTTT
66 AACTTTTCACCATCAAGGATACTACAACCCCATCA-TTTCGAAGAGGATACTCCAACCCCATTTT
3653918 TA-TTCCCAAAATATTAAATTTTTCATCTC
130 TACTT-CCAAAATATTAAATTTTTCATCTC
* *
3653947 AGGGATACACTAACCCCACCATCATTGAGGAGATACTCCAACTCC-ATTTTTACTTCCAAGATAT
1 AGGGATACACCAACCCCACCATCATTGAGGAGATACTCCAAC-CCTATTTTTACTTCCAAAATAT
* *
3654011 CGACTTTTCACCATCAAGGATACTACAACCCCATCATTTCTAAGAGGATACTCCAACCCCATTTT
65 CAACTTTTCACCATCAAGGATACTACAACCCCATCATTTCGAAGAGGATACTCCAACCCCATTTT
3654076 TACTTCCAAAATATTAAATTT
130 TACTTCCAAAATATTAAATTT
3654097 ATAATCATCG
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
157 6 0.05
158 120 0.92
159 4 0.03
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (158 bp):
AGGGATACACCAACCCCACCATCATTGAGGAGATACTCCAACCCTATTTTTACTTCCAAAATATC
AACTTTTCACCATCAAGGATACTACAACCCCATCATTTCGAAGAGGATACTCCAACCCCATTTTT
ACTTCCAAAATATTAAATTTTTCATCTC
Found at i:3654146 original size:80 final size:80
Alignment explanation
Indices: 3653778--3654156 Score: 373
Period size: 79 Copynumber: 4.8 Consensus size: 80
3653768 AAAATATCGA
* * * * *
3653778 TTTTCACCATTAGGGATACTCCAACCCCATCATTTTTGAGGGGATACTCCAACCCTATTTTTACT
1 TTTTCATCATCAGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCCCATTTTTACT
** *
3653843 TTTAAAATA-TCAAT
66 TCCAAAATATTAAAT
* * *
3653857 TTTTCATCATGAGGGATACTCCAACCCTATCATTT-TCGAAAGGATACTCCAACCCCATTTTTA-
1 TTTTCATCATCAGGGATACTCCAACCCCATCATTTCT-GAAGGGATACTCCAACCCCATTTTTAC
3653920 TTCCCAAAATATTAAAT
65 TT-CCAAAATATTAAAT
* * * * *
3653937 TTTTCATC-TCAGGGATACACTAACCCCACCATCAT-TG-AGGAGATACTCCAACTCCATTTTTA
1 TTTTCATCATCAGGGATACTCCAACCCCATCAT-TTCTGAAGG-GATACTCCAACCCCATTTTTA
* ** *
3653999 CTTCCAAGATA-TCGAC
64 CTTCCAAAATATTAAAT
* * *
3654015 TTTTCACCATCAAGGATACTACAACCCCATCATTTCT-AAGAGGATACTCCAACCCCATTTTTAC
1 TTTTCATCATCAGGGATACTCCAACCCCATCATTTCTGAAG-GGATACTCCAACCCCATTTTTAC
3654079 TTCCAAAATATTAAAT
65 TTCCAAAATATTAAAT
* * * *
3654095 TTATAATCATC-GGCGGTACTCCAACCCCA-CAATGTCTGAAGGGATACTCCAACCCCGATTTT
1 TTTTCATCATCAGG-GATACTCCAACCCCATC-ATTTCTGAAGGGATACTCCAACCCC-ATTTT
3654157 CACCAAAAAT
Statistics
Matches: 245, Mismatches: 40, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
78 15 0.06
79 162 0.66
80 60 0.24
81 8 0.03
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (80 bp):
TTTTCATCATCAGGGATACTCCAACCCCATCATTTCTGAAGGGATACTCCAACCCCATTTTTACT
TCCAAAATATTAAAT
Found at i:3655729 original size:21 final size:21
Alignment explanation
Indices: 3655700--3655739 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3655690 TTTGCCTTAA
* *
3655700 TATTTTTAAAAATTTTAATTT
1 TATTATTAAAAATATTAATTT
3655721 TATTATTAAAAATATTAAT
1 TATTATTAAAAATATTAAT
3655740 AAAATACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTAAAAATATTAATTT
Found at i:3656358 original size:156 final size:156
Alignment explanation
Indices: 3655903--3656382 Score: 599
Period size: 155 Copynumber: 3.1 Consensus size: 156
3655893 TTGGTAGCCT
* * * ***
3655903 TAATGGATACTAAAA-AGATTATAAATTGGACGAACCTATCCTAAATGCACACCTTCAACATAAA
1 TAATGGACACTAAAATA-ATCATAAATGGGACGAACCTATCCTAAATGCACACCTTTGGCATAAA
* * * * *
3655967 AGCATCTCGGTGACAACTTAGGACTCAATTTTAGAAAAATTACTAAAATGCCCTTTGGATATACC
65 AGCATCTCGGTGACAACCTAGGACTCAGTTTTAGAAAAATTACGAAAATGCCCTTAGGGTATACC
* * *
3656032 TTAGACATTAAACTAT-CCAGTAACCC
130 TTCGACATTAAAGTATCCCAATAACCC
* * * * *
3656058 TAATGGAGACTAAAATGATCATAAATGGGATGAACTTATCCTAAATGCACAGCTTTGGCAT-AAA
1 TAATGGACACTAAAATAATCATAAATGGGACGAACCTATCCTAAATGCACACCTTTGGCATAAAA
* * **
3656122 GCATC-CTGGTGACAACCTAAGACTCAGTTTTAGAAAAATTATGAAAATGCCCTCGGGGTATACC
66 GCATCTC-GGTGACAACCTAGGACTCAGTTTTAGAAAAATTACGAAAATGCCCTTAGGGTATACC
*
3656186 TTCTACATTAAAGTATCCCAATAACCC
130 TTCGACATTAAAGTATCCCAATAACCC
* *
3656213 TAATGGACACTAAAATAATCATAAATGGGACGAACGTATCCTAAGTGCACACCTTTGGCATAAAA
1 TAATGGACACTAAAATAATCATAAATGGGACGAACCTATCCTAAATGCACACCTTTGGCATAAAA
* * * *
3656278 GTATCTCGATGACAACCTAGGACTCAGTTTTAGAAAAATTACGAAAATGCTCTTAGGGTATACTT
66 GCATCTCGGTGACAACCTAGGACTCAGTTTTAGAAAAATTACGAAAATGCCCTTAGGGTATACCT
*** *
3656343 TCGACATTAAAGTATCTTGATAACCA
131 TCGACATTAAAGTATCCCAATAACCC
*
3656369 TAATGGACCCTAAA
1 TAATGGACACTAAA
3656383 TGTACATCTT
Statistics
Matches: 278, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
153 1 0.00
154 70 0.25
155 114 0.41
156 92 0.33
157 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (156 bp):
TAATGGACACTAAAATAATCATAAATGGGACGAACCTATCCTAAATGCACACCTTTGGCATAAAA
GCATCTCGGTGACAACCTAGGACTCAGTTTTAGAAAAATTACGAAAATGCCCTTAGGGTATACCT
TCGACATTAAAGTATCCCAATAACCC
Found at i:3657663 original size:157 final size:156
Alignment explanation
Indices: 3657230--3657663 Score: 503
Period size: 156 Copynumber: 2.8 Consensus size: 156
3657220 CTACAAAAAA
* * * *
3657230 AGTCTTTACATAATTAAAACACAAAATTAACCATCAAAGAAATCAAAACCAGCATATAAAACACA
1 AGTCCTTACATAATAAAAACACAAAATTAA-CATCCAAGAAATCAAAATCAGCATATAAAACACA
* * * * **
3657295 TCCAAAAGTAACAAGGAAGATTTGCCCAA-TCACCTTTGGCCTTGGAATAAAATTTTTGAATAAA
65 TCCAAAAGTTACAAGGAAGATTTGACCAAGT-ACTTTTGGCCTTGGAACAAAATTTTCAAATAAA
* *
3657359 CCCCCTAAACTTTTTAATTTTGCAAATT
129 ACCCCTAAACTTTCTAATTTTGCAAATT
* * * * * *
3657387 AATCCTTACCTAATAAAAATAGAAAATTAACATCCAAGAAATCAAAATTAGCATGTAAAACACAT
1 AGTCCTTACATAATAAAAACACAAAATTAACATCCAAGAAATCAAAATCAGCATATAAAACACAT
* * * * *
3657452 CCAAAAGTTATAA-GAATGATTTGGCCAAGTACTTTTGGCCTGGGAACTAGATTTTCAAATAAAA
66 CCAAAAGTTACAAGGAA-GATTTGACCAAGTACTTTTGGCCTTGGAACAAAATTTTCAAATAAAA
* *
3657516 CCCCTACACTTTCTAATTTTGCAAGTT
130 CCCCTAAACTTTCTAATTTTGCAAATT
* * * *
3657543 AGTCCTTACTTAATAAAAACACAAAATTACACATCCAAGAAATCGAAATCAGCACACAAAACACA
1 AGTCCTTACATAATAAAAACACAAAATTA-ACATCCAAGAAATCAAAATCAGCATATAAAACACA
* ** * * *
3657608 TCCAATAGTTACAAGGAAGATTCAACCAAGTATTTTTGGCCTTAGAACGAAATTTT
65 TCCAAAAGTTACAAGGAAGATTTGACCAAGTACTTTTGGCCTTGGAACAAAATTTT
3657664 TGATATTTAC
Statistics
Matches: 230, Mismatches: 43, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
155 3 0.01
156 127 0.55
157 97 0.42
158 3 0.01
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.27
Consensus pattern (156 bp):
AGTCCTTACATAATAAAAACACAAAATTAACATCCAAGAAATCAAAATCAGCATATAAAACACAT
CCAAAAGTTACAAGGAAGATTTGACCAAGTACTTTTGGCCTTGGAACAAAATTTTCAAATAAAAC
CCCTAAACTTTCTAATTTTGCAAATT
Found at i:3658875 original size:154 final size:152
Alignment explanation
Indices: 3658690--3659126 Score: 463
Period size: 154 Copynumber: 2.8 Consensus size: 152
3658680 AAAAATGCAT
* * * * *
3658690 AACTCATAAAATAAATCCAA-TTTTCACAAACTGATCTAATATGAATTTAATAAAAATATTTAAT
1 AACTCATAAAATAAAT-TAATTTTTTAAAAACTGATTTAATATGAATTAAATAAAAATATTTAA-
* * **
3658754 AAATTTTAAAAATTATAAACTGAGAAAAATTCGA-TCAAAGAAATTTACGAAGTAGAAAACTCTG
64 AAATTTTAAAAATTATAAACTTAGAAAAATTCTACT-AAAGAAATTTACGAAGTAGAAAACTCCA
3658818 TACCTTGGTATCA-A-AAAAATTATAA
128 TACCTT-G-ATCATAGAAAAATTATAA
** * *
3658843 AACTCATACATTTAAATTAAATTTTTT-AAAACTGATTTACTATGAATTAAATAATAATATTTGA
1 AACTCATA-AAATAAATT-AATTTTTTAAAAACTGATTTAATATGAATTAAATAAAAATATTT-A
* * * * *
3658907 AAATTTTTTAAAAA-TATAAACTTAGAAAAATCCTACTGAAGAAATTTATGATGTAGAAAACTCC
63 AAA-ATTTTAAAAATTATAAACTTAGAAAAATTCTACTAAAGAAATTTACGAAGTAGAAAACTCC
* *
3658971 ATATCTTGATCATAGGAAAAATTCTAA
127 ATACCTTGATCATA-GAAAAATTATAA
* * ** *
3658998 AACTCATAAAATATATTAATTTTTTAAAAAAAATAGATTTTGTATGAATTAAAAAAATAATATTT
1 AACTCATAAAATAAATTAATTTTTT--AAAAACT-GATTTAATATGAATTAAATAAA-AATATTT
*
3659063 AAACAATTTTAAAAATTATAAACTTAGAAAAATTCTACTAAAAAAATTTACGAAGTAGAAAACT
62 AAA-AATTTTAAAAATTATAAACTTAGAAAAATTCTACTAAAGAAATTTACGAAGTAGAAAACT
3659127 TCGTATCTTA
Statistics
Matches: 234, Mismatches: 34, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
152 4 0.02
153 18 0.08
154 92 0.39
155 34 0.15
156 5 0.02
157 30 0.13
158 51 0.22
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (152 bp):
AACTCATAAAATAAATTAATTTTTTAAAAACTGATTTAATATGAATTAAATAAAAATATTTAAAA
ATTTTAAAAATTATAAACTTAGAAAAATTCTACTAAAGAAATTTACGAAGTAGAAAACTCCATAC
CTTGATCATAGAAAAATTATAA
Found at i:3659888 original size:43 final size:43
Alignment explanation
Indices: 3659800--3659901 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
3659790 GTGGCTACTT
* * * * *
3659800 AACCATATGAACCAACAAATTAGAAAGGTGTTGGCTAGGAGGA
1 AACCATACGAACCAACAAATTAGAAAGATGTTGGCGAGAAAGA
3659843 AACCATACGAACCAA-AGAATTAGAAAGATGTTGGTCGA-AAAGA
1 AACCATACGAACCAACA-AATTAGAAAGATGTTGG-CGAGAAAGA
3659886 AACCATAC-ATACCAAC
1 AACCATACGA-ACCAAC
3659902 GAGATAAAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
42 2 0.04
43 46 0.92
44 2 0.04
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.17
Consensus pattern (43 bp):
AACCATACGAACCAACAAATTAGAAAGATGTTGGCGAGAAAGA
Found at i:3659924 original size:24 final size:24
Alignment explanation
Indices: 3659896--3659943 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
3659886 AACCATACAT
3659896 ACCAACGAGATA-AAAGGATGTTGG
1 ACCAACGAGATAGAAAGG-TGTTGG
*
3659920 ACCAACGAGTTAGAAAGGTGTTGG
1 ACCAACGAGATAGAAAGGTGTTGG
3659944 CTAGGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (24 bp):
ACCAACGAGATAGAAAGGTGTTGG
Found at i:3659985 original size:43 final size:42
Alignment explanation
Indices: 3659920--3660021 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
3659910 AGGATGTTGG
* * * * *
3659920 ACCAACGAGTTAGAAAGGTGTTG-GCTAGGACAAAACCATATGA
1 ACCAACAAATTAGAAAGATGTTGATC-AGGAC-AAACCATACGA
*
3659963 TCCAACAAATTAGAAAGATGTTGATCAGGACAAACCATACGA
1 ACCAACAAATTAGAAAGATGTTGATCAGGACAAACCATACGA
*
3660005 ACCAACAAGTTAGAAAG
1 ACCAACAAATTAGAAAG
3660022 GTGTCAGCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 25 0.50
43 24 0.48
44 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (42 bp):
ACCAACAAATTAGAAAGATGTTGATCAGGACAAACCATACGA
Found at i:3660022 original size:110 final size:110
Alignment explanation
Indices: 3659810--3660022 Score: 270
Period size: 110 Copynumber: 1.9 Consensus size: 110
3659800 AACCATATGA
**
3659810 ACCAACAAATTAGAAAGGTGTTGGCTAGGAGGAAACCATACGAACCAAAGAATTAGAAAGATGTT
1 ACCAACAAATTAGAAAGGTGTTGGCTAGGACAAAACCATACGAACCAAAGAATTAGAAAGATGTT
* * *
3659875 GGTCGAAAAGAAACCATACATACCAACGAGATAAAAGGATGTTGG
66 GATCGAAAACAAACCATACATACCAACAAGATAAAAGGATGTTGG
* * * *
3659920 ACCAACGAGTTAGAAAGGTGTTGGCTAGGACAAAACCATATGATCCAACA-AATTAGAAAGATGT
1 ACCAACAAATTAGAAAGGTGTTGGCTAGGACAAAACCATACGAACCAA-AGAATTAGAAAGATGT
** *
3659984 TGATC-AGGACAAACCATACGA-ACCAACAAGTTAGAAAGG
65 TGATCGAAAACAAACCATAC-ATACCAACAAGATA-AAAGG
3660023 TGTCAGCCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
109 21 0.24
110 66 0.75
111 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (110 bp):
ACCAACAAATTAGAAAGGTGTTGGCTAGGACAAAACCATACGAACCAAAGAATTAGAAAGATGTT
GATCGAAAACAAACCATACATACCAACAAGATAAAAGGATGTTGG
Found at i:3660052 original size:43 final size:43
Alignment explanation
Indices: 3659920--3660525 Score: 258
Period size: 43 Copynumber: 13.9 Consensus size: 43
3659910 AGGATGTTGG
* * * * *
3659920 ACCAACGAGTTAGAAAGGTGTTGGCTAGGACAAAACCATATGA
1 ACCAACAAGTTAGAAAGGTGTTAGCCAAGACAAAACCATACGA
* * * * *
3659963 TCCAACAAATTAGAAAGATGTT-GATCAGGAC-AAACCATACGA
1 ACCAACAAGTTAGAAAGGTGTTAG-CCAAGACAAAACCATACGA
* * *
3660005 ACCAACAAGTTAGAAAGGTGTCAGCCAAGACGAAACCATACAA
1 ACCAACAAGTTAGAAAGGTGTTAGCCAAGACAAAACCATACGA
* * * *
3660048 ACCAATAAGTTAGAAGGGTGTTAGCCGAGACAAAACCATACGT
1 ACCAACAAGTTAGAAAGGTGTTAGCCAAGACAAAACCATACGA
** *
3660091 ACCAACGGGTTA-AAAGGATGTTAGCCAAGACAAAACCATACGT
1 ACCAACAAGTTAGAAAGG-TGTTAGCCAAGACAAAACCATACGA
* * * * * ** *
3660134 ATCAA-AGAGTTA-AAAGGATATTGGCTAGGATGAAACCATACGT
1 ACCAACA-AGTTAGAAAGG-TGTTAGCCAAGACAAAACCATACGA
** * * * ** *
3660177 ACCAATGAGTTTGAAAGGTGTTGGCCGAGATGAAACCATATGA
1 ACCAACAAGTTAGAAAGGTGTTAGCCAAGACAAAACCATACGA
* * * * * * **
3660220 ACGAACGAGTTAAAAAGGTATTGGTCGAA-ATGAAACCATACGA
1 ACCAACAAGTTAGAAAGGTGTTAG-CCAAGACAAAACCATACGA
** * * * * *
3660263 ACCAATGAGTTAGAAAGGTGTTGGTCAAGATGAAAA-CATATGT
1 ACCAACAAGTTAGAAAGGTGTTAGCCAAGA-CAAAACCATACGA
* * * **** * * *
3660306 ACCAACGAGTTAGGAAGGTGTTGGTTGGGGCGAAACCATACAA
1 ACCAACAAGTTAGAAAGGTGTTAGCCAAGACAAAACCATACGA
* * * * * *
3660349 ACCAACAAGTTAGAAAGGTGCTGGCC-GGTACGAAACCAAATGA
1 ACCAACAAGTTAGAAAGGTGTTAGCCAAG-ACAAAACCATACGA
* * * ** * *
3660392 ACCAACAAGTTAGAAGGGTATTGGTTATGACGAAACCATACGTATCAATGA
1 ACCAACAAGTTAGAAAGGTGTTAGCCAAGACAAAACC--A--TA-C---GA
** * *** *
3660443 ACCAATGAGTTAGAAAGGTATT-GACTGGGACAAAAGCATACGA
1 ACCAACAAGTTAGAAAGGTGTTAG-CCAAGACAAAACCATACGA
* *
3660486 ACCAACAAGTTAGAAAGGTGTTAGCCGAGACTAAACCATA
1 ACCAACAAGTTAGAAAGGTGTTAGCCAAGACAAAACCATA
3660526 AGTACCAATA
Statistics
Matches: 435, Mismatches: 105, Indels: 46
0.74 0.18 0.08
Matches are distributed among these distances:
42 45 0.10
43 342 0.79
44 12 0.03
45 1 0.00
46 1 0.00
47 3 0.01
49 1 0.00
50 1 0.00
51 29 0.07
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.19
Consensus pattern (43 bp):
ACCAACAAGTTAGAAAGGTGTTAGCCAAGACAAAACCATACGA
Found at i:3660417 original size:86 final size:84
Alignment explanation
Indices: 3659920--3660442 Score: 300
Period size: 86 Copynumber: 6.1 Consensus size: 84
3659910 AGGATGTTGG
* * ** * * * *
3659920 ACCAACGAGTTAGAAAGGTGTTGGCTAGGACAAAACCATATGATCCAACAAATTAGAAAG-ATGT
1 ACCAATGAGTTAGAAAGGTGTTGGC-CGGATGAAACCATATGAACCAACGAGTTAGAAGGTAT-T
* * *
3659984 TGATCAGGAC-AAACCATACGA
64 GGTTGA-GACGAAACCATACGA
** ** * * ** ** *
3660005 ACCAACAAGTTAGAAAGGTGTCAGCCAAGACGAAACCATACAAACCAATAAGTTAGAAGGGTGTT
1 ACCAATGAGTTAGAAAGGTGTTGGCC-GGATGAAACCATATGAACCAACGAGTTAGAA-GGTATT
* ** * *
3660070 AGCCGAGACAAAACCATACGT
64 GGTTGAGACGAAACCATACGA
* * * * ** * * * * *
3660091 ACCAACGGGTTA-AAAGGATGTTAGCCAAGACAAAACCATACGTATCAAAGAGTTAAAAGGATAT
1 ACCAATGAGTTAGAAAGG-TGTTGGCC-GGATGAAACCATATGAACCAACGAGTTAGAAGG-TAT
* * *
3660155 TGGCT-AGGATGAAACCATACGT
63 TGGTTGA-GACGAAACCATACGA
* * *
3660177 ACCAATGAGTTTGAAAGGTGTTGGCCGAGATGAAACCATATGAACGAACGAGTTAAAAAGGTATT
1 ACCAATGAGTTAGAAAGGTGTTGGCCG-GATGAAACCATATGAACCAACGAGTT-AGAAGGTATT
* * *
3660242 GGTCGAAATGAAACCATACGA
64 GGTTGAGACGAAACCATACGA
** * * *
3660263 ACCAATGAGTTAGAAAGGTGTTGGTCAAGATGAAAACATATGTACCAACGAGTTAGGAAGGTGTT
1 ACCAATGAGTTAGAAAGGTGTTGG-CCGGATGAAACCATATGAACCAACGAGTTA-GAAGGTATT
* * *
3660328 GGTTGGGGCGAAACCATACAA
64 GGTTGAGACGAAACCATACGA
** * * * *
3660349 ACCAACAAGTTAGAAAGGTGCTGGCCGGTACGAAACCAAATGAACCAACAAGTTAGAAGGGTATT
1 ACCAATGAGTTAGAAAGGTGTTGGCCGG-ATGAAACCATATGAACCAACGAGTTAGAA-GGTATT
*
3660414 GGTT-ATGACGAAACCATACGT
64 GGTTGA-GACGAAACCATACGA
*
3660435 ATCAATGA
1 ACCAATGA
3660443 ACCAATGAGT
Statistics
Matches: 341, Mismatches: 81, Indels: 31
0.75 0.18 0.07
Matches are distributed among these distances:
85 63 0.18
86 264 0.77
87 14 0.04
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (84 bp):
ACCAATGAGTTAGAAAGGTGTTGGCCGGATGAAACCATATGAACCAACGAGTTAGAAGGTATTGG
TTGAGACGAAACCATACGA
Found at i:3660483 original size:51 final size:51
Alignment explanation
Indices: 3660387--3660484 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
3660377 TACGAAACCA
* ** * *
3660387 AATGAACCAACAAGTTAGAAGGGTATTGGTTATGACGAAACCATACGTATC
1 AATGAACCAACAAGTTAGAAAGGTATTGACTAGGACAAAACCATACGTATC
** * *
3660438 AATGAACCAATGAGTTAGAAAGGTATTGACTGGGACAAAAGCATACG
1 AATGAACCAACAAGTTAGAAAGGTATTGACTAGGACAAAACCATACG
3660485 AACCAACAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (51 bp):
AATGAACCAACAAGTTAGAAAGGTATTGACTAGGACAAAACCATACGTATC
Found at i:3660638 original size:38 final size:41
Alignment explanation
Indices: 3660596--3660727 Score: 110
Period size: 44 Copynumber: 3.2 Consensus size: 41
3660586 TGGTCGGGGC
3660596 GAAACCATATGAACCAACAAA-AG-AGAGT-TGACTAGGAT
1 GAAACCATATGAACCAACAAATAGAAGAGTCTGACTAGGAT
* ** * * *
3660634 GAAACCATACGAGTCAACAAATTAGAAAGGGTGCTGGCTGGGAT
1 GAAACCATATGAACCAACAAA-TAG-AAGAGT-CTGACTAGGAT
* * *
3660678 GAAACCATATGAACCAACAAAT-GAAGGGTGTTGACCAGGAT
1 GAAACCATATGAACCAACAAATAGAAGAGT-CTGACTAGGAT
*
3660719 AAAACCATA
1 GAAACCATA
3660728 CATATCAACA
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
38 18 0.24
40 2 0.03
41 22 0.30
42 5 0.07
43 1 0.01
44 26 0.35
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (41 bp):
GAAACCATATGAACCAACAAATAGAAGAGTCTGACTAGGAT
Found at i:3660898 original size:41 final size:41
Alignment explanation
Indices: 3660853--3661045 Score: 159
Period size: 41 Copynumber: 4.9 Consensus size: 41
3660843 CATAAGAGTT
3660853 AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATA-GAAACC
1 AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATATG-AACC
* *
3660894 AACGAA-GAAAGGGTGTTGGTCGAGATGAAACCATATGTACC
1 AACGAAGGAAA-GGTGTTGGCCGAGATGAAACCATATGAACC
** ** * * **
3660935 AATAAAGGAAA---GTTGATCGGGATGAAATCATATGAGTC
1 AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATATGAACC
* * * * * *
3660973 AACGAAGAAAAGGTATTGGCCGGGATAAAACCATACGAACT
1 AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATATGAACC
*
3661014 AACGAAGGAAA---GTTGACCGAGATGAAACCATA
1 AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATA
3661046 CGAGTCAATG
Statistics
Matches: 119, Mismatches: 27, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
38 46 0.39
40 4 0.03
41 64 0.54
42 5 0.04
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.17
Consensus pattern (41 bp):
AACGAAGGAAAGGTGTTGGCCGAGATGAAACCATATGAACC
Found at i:3660950 original size:120 final size:121
Alignment explanation
Indices: 3660754--3661025 Score: 278
Period size: 120 Copynumber: 2.2 Consensus size: 121
3660744 ACTTAGCCAG
* ** * *
3660754 GATGAAACCATACAAGTCAACAAAGAGAAGGTGTGTTGGCCAAGACAAAACCATATGAACTAACA
1 GATGAAACCATAGAAACCAACGAAGA-AAGGTGTGTTGGCCAAGACAAAACCATATGAACCAACA
* * * *
3660819 AAATAAAGTTGACCAGGACAAAACCATAAGAGTTAACGAAGGAAAGGTGTTGGCCGA
65 AAAGAAAGTTGACCAGGACAAAACCATAAGAGTCAACGAAGAAAAGGTATTGGCCGA
* * ** * *
3660876 GATGAAACCATAGAAACCAACGAAGAAAGG-GTGTTGGTCGAGATGAAACCATATGTACCAATAA
1 GATGAAACCATAGAAACCAACGAAGAAAGGTGTGTTGGCCAAGACAAAACCATATGAACCAACAA
* * * ** * * *
3660940 AGGAAAGTTGATCGGGATGAAATCATATGAGTCAACGAAGAAAAGGTATTGGCCGG
66 AAGAAAGTTGACCAGGACAAAACCATAAGAGTCAACGAAGAAAAGGTATTGGCCGA
* *
3660996 GATAAAACCATACG-AACTAACGAAGGAAAG
1 GATGAAACCATA-GAAACCAACGAA-GAAAG
3661026 TTGACCGAGA
Statistics
Matches: 123, Mismatches: 25, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
120 91 0.74
121 10 0.08
122 22 0.18
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.16
Consensus pattern (121 bp):
GATGAAACCATAGAAACCAACGAAGAAAGGTGTGTTGGCCAAGACAAAACCATATGAACCAACAA
AAGAAAGTTGACCAGGACAAAACCATAAGAGTCAACGAAGAAAAGGTATTGGCCGA
Found at i:3660980 original size:79 final size:79
Alignment explanation
Indices: 3660867--3661053 Score: 205
Period size: 79 Copynumber: 2.4 Consensus size: 79
3660857 AAGGAAAGGT
* ** * * * * *
3660867 GTTGGCCGAGATGAAACCATA-GAAACCAACGAAGAAAGGGTGTTGGTCGAGATGAAACCATATG
1 GTTGACCGAGATGAAACCATACG-AGTCAACGAAGAAAAGGTATTGGCCGAGATAAAACCATACG
* *
3660931 TACCAATAAAGGAAA
65 AACCAACAAAGGAAA
* * * * *
3660946 GTTGATCGGGATGAAATCATATGAGTCAACGAAGAAAAGGTATTGGCCGGGATAAAACCATACGA
1 GTTGACCGAGATGAAACCATACGAGTCAACGAAGAAAAGGTATTGGCCGAGATAAAACCATACGA
* *
3661011 ACTAACGAAGGAAA
66 ACCAACAAAGGAAA
3661025 GTTGACCGAGATGAAACCATACGAGTCAA
1 GTTGACCGAGATGAAACCATACGAGTCAA
3661054 TGAATTAGTA
Statistics
Matches: 87, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
79 86 0.99
80 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.17
Consensus pattern (79 bp):
GTTGACCGAGATGAAACCATACGAGTCAACGAAGAAAAGGTATTGGCCGAGATAAAACCATACGA
ACCAACAAAGGAAA
Found at i:3661127 original size:201 final size:197
Alignment explanation
Indices: 3660914--3661375 Score: 464
Period size: 201 Copynumber: 2.3 Consensus size: 197
3660904 GGGTGTTGGT
* * * *
3660914 CGAGATGAAACCATATGTACCAATAAAGGAAAGTTGATCGGGATGAAATCATATGAGTCAACGAA
1 CGAGACGAAACCATATGTACCAATAAGGGAAAGTTGACCGGGATGAAAACATATGAGTCAACGAA
* * * **
3660979 GAAAAGGTATTGGCCGGGATAAAACCATACG-AACTAACGAAGGAAAGTTGACCGAGATGAAACC
66 GAAAAGGTATTGGCCGGGATAAAACCATACGAAAC-AACGAAGGAAAATTAACAG-GACAAAACC
* * * * * * *
3661043 ATACGAGTCAATGAATTAGTAAGGGTGTTGGCTAAGGTGAAAC-CATACGAACCAATAAA-AAAA
129 ACACAAGTCAACGAATTAGAAAGAGTGTTAGCT--GG-G--ACGCATACAAACCAATAAAGAAAA
* *
3661106 CGTGTTGGC
189 CGTATTAGC
* * ** ** * * **
3661115 TGGGACGAAACCATACATACCAATAAGGGAAAGTTGACCAAGA-CAAAACTATATGAGTCCATAA
1 CGAGACGAAACCATATGTACCAATAAGGGAAAGTTGACCGGGATGAAAAC-ATATGAGTCAACGA
* * * * * *
3661179 AGAAAGGGTGTTGGTCGGGATGAAGCCATGCGAAACAACGAAGGAAAATTAACAGGACAAAACCA
65 AGAAAAGGTATTGGCCGGGATAAAACCATACGAAACAACGAAGGAAAATTAACAGGACAAAACCA
* *
3661244 CACAAGTCAACGAATTAGAAAGAGTGTTAGCTGGGACGCATACAAACCAATAAAGGAAAGGTATT
130 CACAAGTCAACGAATTAGAAAGAGTGTTAGCTGGGACGCATACAAACCAATAAAGAAAACGTATT
3661309 AGC
195 AGC
* * * *
3661312 CGAGATGAAACCATATGTATCAACAAGGGAAAGTTGACCGGGATGAAACCATATGAGTCAACGA
1 CGAGACGAAACCATATGTACCAATAAGGGAAAGTTGACCGGGATGAAAACATATGAGTCAACGA
3661376 GAGTGTTGGC
Statistics
Matches: 206, Mismatches: 50, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
195 2 0.01
196 15 0.07
197 55 0.27
198 6 0.03
200 38 0.18
201 87 0.42
202 3 0.01
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.17
Consensus pattern (197 bp):
CGAGACGAAACCATATGTACCAATAAGGGAAAGTTGACCGGGATGAAAACATATGAGTCAACGAA
GAAAAGGTATTGGCCGGGATAAAACCATACGAAACAACGAAGGAAAATTAACAGGACAAAACCAC
ACAAGTCAACGAATTAGAAAGAGTGTTAGCTGGGACGCATACAAACCAATAAAGAAAACGTATTA
GC
Found at i:3665284 original size:78 final size:78
Alignment explanation
Indices: 3665155--3665322 Score: 327
Period size: 78 Copynumber: 2.2 Consensus size: 78
3665145 AAGGCCATTT
3665155 ATCACTTTAAACATGATTATATAACCTGAAAGGTTGTTCTTCAAGAAAAAATTCTTTGAAGACAT
1 ATCACTTTAAACATGATTATATAACCTGAAAGGTTGTTCTTCAAGAAAAAATTCTTTGAAGACAT
3665220 CTTGAGGATCTTA
66 CTTGAGGATCTTA
3665233 ATCACTTTAAACATGATTATATAACCTGAAAGGTTGTTCTTCAAGAAAAAATTCTTTGAAGACAT
1 ATCACTTTAAACATGATTATATAACCTGAAAGGTTGTTCTTCAAGAAAAAATTCTTTGAAGACAT
3665298 CTTGAGGATCTTA
66 CTTGAGGATCTTA
*
3665311 ATCACTTAAAAC
1 ATCACTTTAAAC
3665323 GTATCTGATT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 89 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (78 bp):
ATCACTTTAAACATGATTATATAACCTGAAAGGTTGTTCTTCAAGAAAAAATTCTTTGAAGACAT
CTTGAGGATCTTA
Found at i:3666660 original size:13 final size:13
Alignment explanation
Indices: 3666642--3666667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3666632 ATAAACGTGT
3666642 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
3666655 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
3666668 AAAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TTGAAAAAAAAAA
Found at i:3666705 original size:21 final size:21
Alignment explanation
Indices: 3666681--3666737 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
3666671 AAAAAATTTA
3666681 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
3666702 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
3666723 AATGTATCGATACAT
1 AATGTATCGATACAT
3666738 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:3666817 original size:19 final size:19
Alignment explanation
Indices: 3666793--3666860 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3666783 AATTCAACAA
3666793 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3666812 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3666827 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3666844 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3666861 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3666832 original size:13 final size:13
Alignment explanation
Indices: 3666814--3666838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3666804 ACATAAGTTT
3666814 TGTATCGATACAA
1 TGTATCGATACAA
3666827 TGTATCGATACA
1 TGTATCGATACA
3666839 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3666836 original size:32 final size:32
Alignment explanation
Indices: 3666795--3666857 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3666785 TTCAACAATT
*
3666795 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3666827 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3666858 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3666918 original size:13 final size:13
Alignment explanation
Indices: 3666900--3666925 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3666890 CATTTTTCTG
3666900 TGTATCGATACAT
1 TGTATCGATACAT
3666913 TGTATCGATACAT
1 TGTATCGATACAT
3666926 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3666922 original size:33 final size:33
Alignment explanation
Indices: 3666880--3666946 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3666870 GCCAAGGAAA
***
3666880 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3666913 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3666946 T
1 T
3666947 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3669515 original size:51 final size:51
Alignment explanation
Indices: 3669453--3669623 Score: 207
Period size: 51 Copynumber: 3.3 Consensus size: 51
3669443 TTATTTCTGA
* * *
3669453 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
3669504 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** *
3669557 GGGGATACTCCAATTCCGATTTTATTTTCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
3669609 GAGGATACTCCAACC
1 GGGGATACTCCAACC
3669624 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.18
53 33 0.34
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:3669642 original size:28 final size:28
Alignment explanation
Indices: 3669606--3669687 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
3669596 ATTTTTCACA
*
3669606 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
3669634 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
3669662 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
3669688 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:3675924 original size:20 final size:20
Alignment explanation
Indices: 3675879--3675930 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
3675869 GTAGCCAAAC
**
3675879 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
3675899 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
3675918 TTGTATCGATACA
1 TTGTATCGATACA
3675931 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:3678949 original size:20 final size:20
Alignment explanation
Indices: 3678904--3678955 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
3678894 GTAGCCATAC
**
3678904 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
3678924 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
3678943 TTGTATCGATACA
1 TTGTATCGATACA
3678956 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:3682216 original size:30 final size:29
Alignment explanation
Indices: 3682180--3682263 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 29
3682170 TGTTCCTTTT
3682180 AAGTCCACAATTAAGTGGCATCTTGTCTCA
1 AAGTCCACAATTAAGTGGCATCTTGTC-CA
*
3682210 AAGTCCACAATTCAA-TGGCATCTCTTTCCA
1 AAGTCCACAATT-AAGTGGCATCT-TGTCCA
*
3682240 AAGTCCACGACTT-AGTGGCATCTT
1 AAGTCCAC-AATTAAGTGGCATCTT
3682264 TCCTTATTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
29 2 0.04
30 38 0.79
31 8 0.17
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (29 bp):
AAGTCCACAATTAAGTGGCATCTTGTCCA
Found at i:3682279 original size:33 final size:32
Alignment explanation
Indices: 3682207--3682325 Score: 147
Period size: 31 Copynumber: 3.8 Consensus size: 32
3682197 GCATCTTGTC
* * *
3682207 TCAAAGTCCACAATTCAATGGCATC--TCTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTCTTT
* *
3682237 CCAAAGTCCACGACTTAGTGGCATCTTTCCTTAT
1 TCAAAGTCCACGACTCAGTGGCATCTTT-CTT-T
3682271 T-AAAGTCCACGACTCAGTGGCAT-TTTCTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTCTTT
3682301 TCAAAGTCCACGACTCAGTGGCATC
1 TCAAAGTCCACGACTCAGTGGCATC
3682326 AAAGTGCACA
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
30 22 0.29
31 25 0.33
32 4 0.05
33 24 0.32
34 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (32 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTCTTT
Found at i:3682472 original size:37 final size:34
Alignment explanation
Indices: 3682356--3682512 Score: 132
Period size: 33 Copynumber: 4.7 Consensus size: 34
3682346 ATTCTTTTCC
** * *
3682356 CCTTTTAAAGTCCACAACCCCGTGGCACCTTGTT
1 CCTTTTAAAGTCCACAACTTCGTAGCACCTTATT
*
3682390 CCTTTT-AAGTCCACGAA-TTCGTGGCACC---TT
1 CCTTTTAAAGTCCAC-AACTTCGTAGCACCTTATT
* *
3682420 -CTTTTCAAAGCCCACAAC-TCTGTAGCACTCTTTTTT
1 CCTTTT-AAAGTCCACAACTTC-GTAGCAC-C-TTATT
3682456 CCCTTTTAAAGTCCACAACTTCGTAGCACCTTATT
1 -CCTTTTAAAGTCCACAACTTCGTAGCACCTTATT
*
3682491 CCTTTT-AAGTCTACAACTTCGT
1 CCTTTTAAAGTCCACAACTTCGT
3682513 GGTATCTTTC
Statistics
Matches: 103, Mismatches: 7, Indels: 27
0.75 0.05 0.20
Matches are distributed among these distances:
29 5 0.05
30 6 0.06
31 13 0.13
32 1 0.01
33 32 0.31
34 14 0.14
35 4 0.04
36 3 0.03
37 18 0.17
38 7 0.07
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.35
Consensus pattern (34 bp):
CCTTTTAAAGTCCACAACTTCGTAGCACCTTATT
Found at i:3682498 original size:101 final size:100
Alignment explanation
Indices: 3682332--3682514 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 100
3682322 CATCAAAGTG
* * * *
3682332 CACAACCCTGTGGCATTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTA
1 CACAACCCTGTAGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTAGCACCTTATTCCTTTTA
3682397 AGTCCACGAA-TTCGTGGCACCTTCTTTTCAAAGCC
66 AGTCCAC-AACTTCGTGGCACCTTCTTTTCAAAGCC
* * **
3682432 CACAACTCTGTAGCACTCTTTTTTCCCTTTTAAAGTCCACAACTTCGTAGCACCTTATTCCTTTT
1 CACAACCCTGTAGCACTC-TTTTCCCCTTTTAAAGTCCACAACCCCGTAGCACCTTATTCCTTTT
*
3682497 AAGTCTACAACTTCGTGG
65 AAGTCCACAACTTCGTGG
3682515 TATCTTTCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 17 0.24
101 55 0.76
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (100 bp):
CACAACCCTGTAGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTAGCACCTTATTCCTTTTA
AGTCCACAACTTCGTGGCACCTTCTTTTCAAAGCC
Found at i:3682560 original size:33 final size:33
Alignment explanation
Indices: 3682522--3682800 Score: 392
Period size: 33 Copynumber: 8.6 Consensus size: 33
3682512 TGGTATCTTT
*
3682522 CAACCTTTTTCTAAAGCCCACACAAGTCGGTGG
1 CAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
* *
3682555 CAACCTTCTTCTAAAGCCTACACAAGTTGGTGG
1 CAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
*
3682588 CAATCC--CCTCTAAAGCCCACACAAGTCGGTGG
1 CAA-CCTTCTTCTAAAGCCCACACAAGTCGGTGG
* *
3682620 CAACCTTTTTCAAAAGCCCACACAAGTCGGTGG
1 CAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
*
3682653 CAACCTTCTTCTAAAGCCAACACAAGTCGGTGG
1 CAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
3682686 CAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
1 CAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
* * *
3682719 CAACCCTC-TCTAAAGCCCGCACAAGTTGGTGG
1 CAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
*
3682751 CAACCATTC-TCTAAAGCCCACATAAGTCGGTGG
1 CAACC-TTCTTCTAAAGCCCACACAAGTCGGTGG
3682784 CAACC--CTTCT-AAGCCCA
1 CAACCTTCTTCTAAAGCCCA
3682801 ATATCGCTGG
Statistics
Matches: 221, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
30 8 0.04
31 5 0.02
32 53 0.24
33 153 0.69
34 2 0.01
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (33 bp):
CAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
Found at i:3682636 original size:65 final size:64
Alignment explanation
Indices: 3682531--3682800 Score: 391
Period size: 65 Copynumber: 4.2 Consensus size: 64
3682521 TCAACCTTTT
* *
3682531 TCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCTACACAAGTTGGTGGCAATCCCC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA-CCCC
* *
3682596 TCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCAAAAGCCCACACAAGTCGGTGGCAACCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC--C
*
3682661 T
64 C
*
3682662 TCTAAAGCCAACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCC-C
* * * *
3682727 TCTAAAGCCCGCACAAGTTGGTGGCAACCATTC-TCTAAAGCCCACATAAGTCGGTGGCAACCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCC
3682791 TCT-AAGCCCA
1 TCTAAAGCCCA
3682801 ATATCGCTGG
Statistics
Matches: 186, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
63 6 0.03
64 6 0.03
65 111 0.60
66 63 0.34
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.20
Consensus pattern (64 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCC
Found at i:3682767 original size:131 final size:131
Alignment explanation
Indices: 3682522--3682793 Score: 429
Period size: 131 Copynumber: 2.1 Consensus size: 131
3682512 TGGTATCTTT
* * * *
3682522 CAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCTACACAAGTTGGTG
1 CAACCTTCTTCTAAAGCCAACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTG
* *
3682587 GCAATCCCCTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCAAAAGCCCACACAAGTCGGTG
66 GCAATCCCCTCTAAAGCCCACACAAGTCGGTGGCAACCATTCTCAAAAGCCCACACAAGTCGGTG
3682652 G
131 G
3682653 CAACCTTCTTCTAAAGCCAACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTG
1 CAACCTTCTTCTAAAGCCAACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTG
* * * *
3682718 GCAA-CCCTCTCTAAAGCCCGCACAAGTTGGTGGCAACCATTCTCTAAAGCCCACATAAGTCGGT
66 GCAATCCC-CTCTAAAGCCCACACAAGTCGGTGGCAACCATTCTCAAAAGCCCACACAAGTCGGT
3682782 GG
130 GG
3682784 CAACCCTTCT
1 CAA-CCTTCT
3682794 AAGCCCAATA
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
130 3 0.02
131 120 0.93
132 6 0.05
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (131 bp):
CAACCTTCTTCTAAAGCCAACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTG
GCAATCCCCTCTAAAGCCCACACAAGTCGGTGGCAACCATTCTCAAAAGCCCACACAAGTCGGTG
G
Found at i:3682851 original size:49 final size:49
Alignment explanation
Indices: 3682793--3683260 Score: 479
Period size: 49 Copynumber: 9.7 Consensus size: 49
3682783 GCAACCCTTC
* * *
3682793 TAAGCCCAATATCGCTGGCCTTGAATCATCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3682842 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
3682885 TAAGTCCAATATCA-CTAGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3682934 TATGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
3682977 TAAGTCCAATATCGCTGGCCTTGAATCAACATGTTGGCACTTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
3683026 TAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGACATCCTTTTTCTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TTC--ATCTT
* *
3683081 TAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
** *
3683130 TAAGTCCAATGCAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
3683173 TAAGTCCAATATAGCTGGCCTTGAATCGGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * *
3683225 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
3683261 ACATCTTTTT
Statistics
Matches: 346, Mismatches: 44, Indels: 55
0.78 0.10 0.12
Matches are distributed among these distances:
43 111 0.32
44 1 0.00
45 3 0.01
47 2 0.01
48 1 0.00
49 144 0.42
50 2 0.01
51 3 0.01
52 35 0.10
53 3 0.01
54 2 0.01
55 39 0.11
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:3682955 original size:92 final size:92
Alignment explanation
Indices: 3682788--3683260 Score: 626
Period size: 92 Copynumber: 5.0 Consensus size: 92
3682778 CGGTGGCAAC
* * *
3682788 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCATCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAATG
3682853 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * *
3682881 CCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTATGTCCAATGT
1 CCTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAATGT
3682946 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
3682973 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATGTTGGCACTTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAATGT
* *
3683038 AGCTGGCCTTGAATTAGCACATTGACA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
3683065 TCCTTTTTCTTATCTTTAAGTCCAATAT-AGCTGGCCTTGAATCAACATATTGGCACCTTCTTCT
1 --------C----CTTTAAGTCCAATATCA-CTGGCCTTGAATCAACATATTGGCACCTTCATCT
*
3683129 TTAAGTCCAATGCAGCTGGCCTTGAATCAGCACATTGGCA
53 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
** *
3683169 CCTTTAAGTCCAATAT-AGCTGGCCTTGAATCGGCATATTGGCACCTTTTCCATCTTTAAGTTCA
1 CCTTTAAGTCCAATATCA-CTGGCCTTGAATCAACATATTGGCACC--TT-CATCTTTAAGTCCA
3683233 ATGTAGCTGGCCTTGAATCAGCACATTG
62 ATGTAGCTGGCCTTGAATCAGCACATTG
3683261 ACATCTTTTT
Statistics
Matches: 339, Mismatches: 25, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
92 209 0.62
93 4 0.01
94 2 0.01
95 39 0.12
96 1 0.00
100 1 0.00
104 83 0.24
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:3683154 original size:104 final size:102
Alignment explanation
Indices: 3682974--3683316 Score: 395
Period size: 104 Copynumber: 3.4 Consensus size: 102
3682964 ACATTGGCAC
* * *
3682974 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACATGTTGGCACTTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
3683039 GCTGGCCTTGAATTAGCACATTGACATCCTTTTTCTTAT
66 GCTGGCCTTGAATCAGCACATTGACAT-CTTTTTC-TAT
* *
3683078 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCTTCTTTAAGTCCAATGCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
3683143 GCTGGCCTTGAATCAGCACATTGGCA-------C---
66 GCTGGCCTTGAATCAGCACATTGACATCTTTTTCTAT
** *
3683170 CTTTAAGTCCAATATAGCTGGCCTTGAATCGGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACC--TT-CATCTTTAAGTCCAAT
3683235 GTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
63 GTAGCTGGCCTTGAATCAGCACATTGACATC-TTTTTCT-AT
* * * *
3683277 CTTTGAA-CCCAATATCG-TCGGCCGTGAATCAACGTATTGG
1 CTTT-AAGTCCAATATAGCT-GGCCTTGAATCAACATATTGG
3683317 TCCTTTTATC
Statistics
Matches: 203, Mismatches: 19, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
92 42 0.21
94 2 0.01
95 41 0.20
96 1 0.00
103 1 0.00
104 84 0.41
106 1 0.00
107 29 0.14
108 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (102 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGACATCTTTTTCTAT
Found at i:3683248 original size:52 final size:52
Alignment explanation
Indices: 3683170--3683269 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
3683160 ACATTGGCAC
* * *
3683170 CTTTAAGTCCAATATAGCTGGCCTTGAATCGGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
* * *
3683222 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTT
3683270 TTCTCATCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
Found at i:3683938 original size:33 final size:32
Alignment explanation
Indices: 3683896--3683957 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
3683886 TTCAATGATT
3683896 TGTATCGATACATAAAGTATTGTATCGATATAA
1 TGTATCGATACAT-AAGTATTGTATCGATATAA
* *
3683929 TGTATCGATACATAAGTGTTGTGTCGATA
1 TGTATCGATACATAAGTATTGTATCGATA
3683958 CAAAGTAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATATAA
Found at i:3684020 original size:13 final size:13
Alignment explanation
Indices: 3684002--3684026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3683992 ATTACTCAAA
3684002 TGTATCGATACAT
1 TGTATCGATACAT
3684015 TGTATCGATACA
1 TGTATCGATACA
3684027 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3684078 original size:52 final size:52
Alignment explanation
Indices: 3684015--3684163 Score: 221
Period size: 52 Copynumber: 2.9 Consensus size: 52
3684005 ATCGATACAT
** *
3684015 TGTATCGATACACTGAT-CTTTGTATCGATACATGCAAGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATAAATTGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
3684067 TGTATCGATACACTATAAAATGTATCGATACATGCAGGTAAATTTGCCCAGA
1 TGTATCGATACACTATAAATTGTATCGATACATGCAGGCAAATTTGCCCAGA
3684119 TGTATCGATACACTATGAAATT-TATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTAT-AAATTGTATCGATACATGCAGGCAAATTT
3684164 TCATATTTCG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.93
53 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACACTATAAATTGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:3691678 original size:16 final size:16
Alignment explanation
Indices: 3691654--3691690 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
3691644 GAAAAAAAAC
*
3691654 AAAAA-AAAACACATA
1 AAAAATAAAACACAGA
3691669 AAAAATAAAACACAGA
1 AAAAATAAAACACAGA
3691685 AAAAAT
1 AAAAAT
3691691 GTGTAATGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.78, C:0.11, G:0.03, T:0.08
Consensus pattern (16 bp):
AAAAATAAAACACAGA
Found at i:3693073 original size:27 final size:28
Alignment explanation
Indices: 3693042--3693175 Score: 101
Period size: 27 Copynumber: 4.5 Consensus size: 28
3693032 TAAAGTCCAT
3693042 AACTCCGTGGCACCCGTT-TAAGCCCAC
1 AACTCCGTGGCACCCGTTCTAAGCCCAC
*
3693069 AACTCCGTGGCACTCTTTCCTTTCTAAGCCCAC
1 AACTCCGTGGCA--C---CCGTTCTAAGCCCAC
* *
3693102 AACTCCGTGGCACTCCTTTTCCTTCTAAGTCCAC
1 AACTCCGTGGCA--CC----CGTTCTAAGCCCAC
* * *
3693136 AACTTCGCGGCACCCGTT-TAAGCCCAT
1 AACTCCGTGGCACCCGTTCTAAGCCCAC
3693163 AACTCCGTGGCAC
1 AACTCCGTGGCAC
3693176 TCTTTTTCCT
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
27 30 0.34
28 3 0.03
29 1 0.01
30 1 0.01
32 6 0.07
33 24 0.28
34 22 0.25
ACGTcount: A:0.20, C:0.39, G:0.16, T:0.25
Consensus pattern (28 bp):
AACTCCGTGGCACCCGTTCTAAGCCCAC
Found at i:3693073 original size:61 final size:60
Alignment explanation
Indices: 3693000--3693114 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
3692990 TCTCTTTTTA
* * *
3693000 AAGCCCACAACTCCATGGCATTCTTTTTCCTTT-AAAGTCCATAACTCCGTGGCACCCGTTT
1 AAGCCCACAACTCCATGGCA--CTCTTTCCTTTCAAAGCCCACAACTCCGTGGCACCCGTTT
* *
3693061 AAGCCCACAACTCCGTGGCACTCTTTCCTTTCTAAGCCCACAACTCCGTGGCAC
1 AAGCCCACAACTCCATGGCACTCTTTCCTTTCAAAGCCCACAACTCCGTGGCAC
3693115 TCCTTTTCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 10 0.21
60 19 0.40
61 19 0.40
ACGTcount: A:0.23, C:0.37, G:0.14, T:0.27
Consensus pattern (60 bp):
AAGCCCACAACTCCATGGCACTCTTTCCTTTCAAAGCCCACAACTCCGTGGCACCCGTTT
Found at i:3693102 original size:33 final size:32
Alignment explanation
Indices: 3692995--3693344 Score: 230
Period size: 34 Copynumber: 10.9 Consensus size: 32
3692985 GGCAATCTCT
* *
3692995 TTTTAAAGCCCACAACTCCATGGCATTCTTTTTCC
1 TTTT-AAGCCCACAACTCCGTGGCA--CTCTTTCC
* * *
3693030 TTTAAAGTCCATAACTCCGTGGCA--C---CC
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTCC
*
3693057 GTTTAAGCCCACAACTCCGTGGCACTCTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTCC
3693089 TTTCTAAGCCCACAACTCCGTGGCACTCCTTTTCC
1 TTT-TAAGCCCACAACTCCGTGGCACT-C-TTTCC
* * * *
3693124 TTCTAAGTCCACAACTTCGCGGCA--C---CC
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTCC
* *
3693151 GTTTAAGCCCATAACTCCGTGGCACTCTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACTC--TTTCC
* *
3693185 TTTTAAGTCCACGACTCCGTGGCAC-C-TT-C
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTCC
*
3693214 TTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 TTTT--AAGCCCACAACTCCGTGGCACTC--TTT-CC
* * *
3693251 TTTTAAAGTCCACAACCCCGTGCCAC-CTTGTACC
1 TTTT-AAGCCCACAACTCCGTGGCACTCTT-T-CC
* * *
3693285 TTTTAAGTCCACGACTCCGTGGCAC-C-TTCT
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTCC
*
3693315 TTTTAAAGCCCACAACTCTGT-GCACTCTTT
1 TTTT-AAGCCCACAACTCCGTGGCACTCTTT
3693345 TTCCCTTCTA
Statistics
Matches: 249, Mismatches: 39, Indels: 57
0.72 0.11 0.17
Matches are distributed among these distances:
27 42 0.17
29 7 0.03
30 11 0.04
31 34 0.14
32 8 0.03
33 45 0.18
34 66 0.27
35 13 0.05
36 18 0.07
37 5 0.02
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.31
Consensus pattern (32 bp):
TTTTAAGCCCACAACTCCGTGGCACTCTTTCC
Found at i:3693122 original size:94 final size:94
Alignment explanation
Indices: 3692995--3693218 Score: 299
Period size: 94 Copynumber: 2.4 Consensus size: 94
3692985 GGCAATCTCT
* * * * *
3692995 TTTTAAAGCCCACAACTCCATGGCATTCTTTTTCCTT-TAAAGTCCATAACTCCGTGGCACCCGT
1 TTTT-AAGCCCACAACTCCGTGGCACTCCTTTTCCTTCT-AAGTCCACAACTCCGCGGCACCCGT
3693059 TTAAGCCCACAACTCCGTGGCACTC-TTTCC
64 TTAAGCCCACAACTCCGTGGCACTCTTTTCC
*
3693089 TTTCTAAGCCCACAACTCCGTGGCACTCCTTTTCCTTCTAAGTCCACAACTTCGCGGCACCCGTT
1 TTT-TAAGCCCACAACTCCGTGGCACTCCTTTTCCTTCTAAGTCCACAACTCCGCGGCACCCGTT
*
3693154 TAAGCCCATAACTCCGTGGCACTCTTTTTCC
65 TAAGCCCACAACTCCGTGGCACTC-TTTTCC
* * *
3693185 TTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
1 TTTTAAGCCCACAACTCCGTGGCA-CTCCTTTTC
3693219 AAAGCCCACA
Statistics
Matches: 115, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
94 78 0.68
95 21 0.18
96 16 0.14
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (94 bp):
TTTTAAGCCCACAACTCCGTGGCACTCCTTTTCCTTCTAAGTCCACAACTCCGCGGCACCCGTTT
AAGCCCACAACTCCGTGGCACTCTTTTCC
Found at i:3693167 original size:61 final size:62
Alignment explanation
Indices: 3693093--3693266 Score: 224
Period size: 61 Copynumber: 2.7 Consensus size: 62
3693083 CTTTCCTTTC
* * *
3693093 TAAGCCCACAACTCCGTGGCACTCCTTTTCCTTCTAAGTCCACAACTTCGCGGCACC-CGTT
1 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGCGGCACCTCGTT
* * * *
3693154 TAAGCCCATAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTT
1 TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGCGGCACC-TCGTT
*
3693217 TCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGTCCACAAC
1 T--AAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAGTCCACAAC
3693267 CCCGTGCCAC
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
61 51 0.53
63 4 0.04
65 26 0.27
66 6 0.06
67 10 0.10
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.30
Consensus pattern (62 bp):
TAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGCGGCACCTCGTT
Found at i:3693293 original size:100 final size:99
Alignment explanation
Indices: 3693155--3693363 Score: 328
Period size: 100 Copynumber: 2.1 Consensus size: 99
3693145 GCACCCGTTT
* * * * *
3693155 AAGCCCATAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCA
1 AAGCCCACAACCCCGTGCCAC-CTTGTACCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCA
*
3693220 AAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTA
65 AAGCCCACAACTCTGT-GCACTCTTTTTCCCTTCTA
* *
3693256 AAGTCCACAACCCCGTGCCACCTTGTACCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTTAA
1 AAGCCCACAACCCCGTGCCACCTTGTACCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAA
3693321 AGCCCACAACTCTGTGCACTCTTTTTCCCTTCTA
66 AGCCCACAACTCTGTGCACTCTTTTTCCCTTCTA
3693355 AAGCCCACA
1 AAGCCCACA
3693364 TAAGTCGGTG
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 26 0.26
100 56 0.57
101 17 0.17
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (99 bp):
AAGCCCACAACCCCGTGCCACCTTGTACCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAA
AGCCCACAACTCTGTGCACTCTTTTTCCCTTCTA
Found at i:3693395 original size:32 final size:32
Alignment explanation
Indices: 3693354--3693702 Score: 522
Period size: 32 Copynumber: 10.9 Consensus size: 32
3693344 TTTCCCTTCT
*
3693354 AAAGCCCACATAAGTCGGTGGCAACCCTTCCC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
* *
3693386 AAAGCCCACACAAGTTGGTGGCAACCC-CCTCC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTC-CC
*
3693418 AAAGCCCACACAAGTCGGTGGCAACCCTTTCC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
*
3693450 AAAGCCCACACAAGTCGGTGGCAACCCTTTCC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
* * *
3693482 AAAGCACACACAAGTCAGTGGCAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
**
3693514 AAAGCCCACACAAGTCGGTGGCAACCCTTTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
*
3693546 AAAGCCCACACAAGTCGGTGACAACCCTTCCC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
**
3693578 AAAGCCCACACAAGTCGGTGGCAACCCTTTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
* * *
3693610 GAAGCCCACACAGGTCGGTGGCAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
*
3693642 AAAGCCCACACAAGTCGGTGGCAACCCTT-TC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
3693673 AAAGCCCACACAAGTCGGTGGCAACCCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTC
3693703 TAAGCCCAAT
Statistics
Matches: 290, Mismatches: 24, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
31 32 0.11
32 258 0.89
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
Found at i:3693865 original size:92 final size:92
Alignment explanation
Indices: 3693691--3694901 Score: 862
Period size: 92 Copynumber: 12.7 Consensus size: 92
3693681 CACAAGTCGG
*
3693691 TGGCAACCCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAG
1 TGGC-ACCCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAG
3693756 TCCAATGTAGCTGGCCTTGAATCAGCACAT
64 TCCAATGTA-CTGGCCTTGAATCAGCACAT
3693786 TGGCA-CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTC
1 TGGCACCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTC
*
3693850 CAATGTCACTGGCCTTAAATCAGCACAT
66 CAATGT-ACTGGCCTTGAATCAGCACAT
* *
3693878 TGGCACCTTCACCTTTAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
1 TGGCA----C-CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
*
3693943 AAGTCCAATGTAGCTAGCCTT-AATTCAGCACAT
61 AAGTCCAATGTA-CTGGCCTTGAA-TCAGCACAT
* * * * * *
3693976 CGGCA-TCTTTAAGTCCAGTATTGCTGGCCTTGAATTAGCATA-TGGACGCCTTTGTCATCTTTA
1 TGGCACCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG-CACC-TT-T-ATCTTTA
3694039 AGTCCAATGTAGCTGGCCTTGAATCAGCACAT
62 AGTCCAATGTA-CTGGCCTTGAATCAGCACAT
** * * * * *
3694071 CAGCA-CATTTAAGTCCAATATCGCTGGCCTTGAATCAACATAATAGCGCCTTTGTCATCTTTAA
1 TGGCACCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAA
*
3694135 GTCCAATGTCGCTGGCCTTGAATCAGCACAT
63 GTCCAATGT-ACTGGCCTTGAATCAGCACAT
* * * * *
3694166 TGGCACCTTTATCTTTAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCACC----TC--C
1 TGGCACC-----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
*** *
3694225 AAGTCCAATACCGCTGGCCTTGAATCAGCATAT
61 AAGTCCAAT-GTACTGGCCTTGAATCAGCACAT
* * * * *
3694258 TGGCACCTTCATCCTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACA-T--CAAC---ACCTTT
1 TGGCACC--C-T--TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * *
3694317 AAGTCCAATATCGCTAGCCTTGAATCAGCATAT
61 AAGTCCAATGT-ACTGGCCTTGAATCAGCACAT
* * * **
3694350 TGGCACCTTCGTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCGTC
1 TGGCA----C--C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
3694415 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
58 TTTAAGTCCAATGTA-CTGGCCTTGAATCAGCACAT
** *
3694451 TGGCA-CCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
1 TGGCACCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTC
3694515 CAATGTAGCTGGCCTTGAATCAGCACAT
66 CAATGTA-CTGGCCTTGAATCAGCACAT
* * * *
3694543 TGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----TC--C
1 TGGCA-C--C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * * *
3694602 AAGTCTAATATCGCTGGCCTTGAATTAGCATAT
61 AAGTCCAATGT-ACTGGCCTTGAATCAGCACAT
* * * * * * **
3694635 TGGCACCCTCATCTTTTAAGCCCCATGTCGCTGACCTTGAATCAGTACATTGGCACCTTTAAGTT
1 TGGCA--C-C--C-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
3694700 GAA-T---AT-TGCTGGCCTTGAATCAGCATAT
60 TAAGTCCAATGTACTGGCCTTGAATCAGCACAT
* * *
3694728 TGGTGC-CTTTGTCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGTATATTGGCGCCTTTGT
1 T-G-GCAC-----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T
* * *
3694792 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
55 -ATCTTTAAGTCCAATGT-ACTGGCCTTGAATCAGCACAT
* * * *
3694832 TGGCGTTTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TGGC------A-C-CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
3694897 TTTAA
58 TTTAA
3694902 CATTCCTAAG
Statistics
Matches: 935, Mismatches: 100, Indels: 156
0.79 0.08 0.13
Matches are distributed among these distances:
89 5 0.01
90 2 0.00
91 4 0.00
92 344 0.37
93 68 0.07
94 9 0.01
95 196 0.21
96 15 0.02
97 5 0.01
98 134 0.14
99 3 0.00
101 80 0.09
102 4 0.00
103 4 0.00
104 61 0.07
110 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
TGGCACCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTC
CAATGTACTGGCCTTGAATCAGCACAT
Found at i:3694057 original size:52 final size:49
Alignment explanation
Indices: 3693703--3694901 Score: 1130
Period size: 49 Copynumber: 25.1 Consensus size: 49
3693693 GCAACCCTTC
* * *
3693703 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3693752 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3693795 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
3693844 TAAGTCCAATGTCACTGGCCTTAAATCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
3693893 TAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
3693942 TAAGTCCAATGTAGCTAGCCTT-AATTCAGCACATCGG------CATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAA-TCAGCATATTGGCACCTTCATCTT
* * * * *
3693985 TAAGTCCAGTATTGCTGGCCTTGAATTAGCATA-TGGACGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGG-CACC--T-TCATCTT
* * * *
3694037 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACA-T--CAGC-ACA--TT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
3694080 TAAGTCCAATATCGCTGGCCTTGAATCAACATAATAGCGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTT
* *
3694132 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3694181 TAAGTCCAGTGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC--C--
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
** *
3694225 -AAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
3694273 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACA-T--CA---ACACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3694316 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTT
* * *
3694368 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCGTCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3694417 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC--C--
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
3694461 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3694509 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3694558 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC--C--
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
3694602 -AAGTCTAATATCGCTGGCCTTGAATTAGCATATTGGCACCCTCATCTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TT
* * * * *
3694651 TAAGCCCCATGTCGCTGACCTTGAATCAGTACATTGGCA----C--CTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
** * * **
3694694 TAAGTTGAATATTGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTT
* * * *
3694746 TAAGTCCAATATCACTGGCCTTGAATCAGTATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTT
* ***
3694798 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTTTTTATCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGC--ACCT-TCATCTT
*
3694850 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
3694899 TAA
1 TAA
3694902 CATTCCTAAG
Statistics
Matches: 951, Mismatches: 133, Indels: 132
0.78 0.11 0.11
Matches are distributed among these distances:
42 2 0.00
43 269 0.28
44 11 0.01
45 2 0.00
46 13 0.01
48 8 0.01
49 365 0.38
50 35 0.04
51 1 0.00
52 245 0.26
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:3694133 original size:190 final size:187
Alignment explanation
Indices: 3693703--3694901 Score: 850
Period size: 190 Copynumber: 6.3 Consensus size: 187
3693693 GCAACCCTTC
*
3693703 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
3693768 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* *
3693833 ACCTTTATCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATTGGCACCTTCACCTT
131 ACCTTTATCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATT-GCA-C-GCACATT
* *
3693893 TAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * * * * *
3693958 AGCCTT-AATTCAGCACATCGGCATCTTTAAGTCCAGTATTGCTGGCCTTGAATTAGCATA-TGG
66 GGCCTTGAA-TCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
* *
3694021 ACGCCTTTGTCATCTTTAAGTCCAATGT-AGCTGGCCTTGAATCAGCACA-T-CA-GCACATT
130 -CACC-TT-T-ATCTTTAAGTCCAATGTCA-CTGGCCTTAAATCAGCACATTGCACGCACATT
* * * * *
3694080 TAAGTCCAATATCGCTGGCCTTGAATCAACATAATAGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTA
* * *
3694145 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAGTGTAGCTGGCCTTGAATCAG
63 GCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * ** * * * *
3694210 CACATTGGCACC----TC--CAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCAC-CTTC
122 CATATTGGCACCTTTATCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATT-GCACGC-AC
3694268 ATCCT
185 AT--T
* * * * * * *
3694273 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACA-T--CAAC---ACCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * * *
3694332 AGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAG
66 GGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* ** * *
3694397 CACATTGGCACCTTCGTCTTTAAGTCCAATGT-AGCTGGCCTTGAATCAGCACATTG---GCACC
122 CATATTGGCACCTTTATCTTTAAGTCCAATGTCA-CTGGCCTTAAATCAGCACATTGCACGCACA
*
3694458 TC
186 TT
* *
3694460 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * *
3694525 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * * * * * * * *
3694590 ATTGGCACC----TC--CAAGTCTAATATCGCTGGCCTTGAATTAGCATATTGGCACCCTCATCT
125 ATTGGCACCTTTATCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATT-GCA--CGCA-CA
3694649 TT
186 TT
* * * * * * ** *
3694651 TAAGCCCCATGTCGCTGACCTTGAATCAGTACATTGGCACCTTTAAGTTGAA-T---AT-T-GCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * *
3694710 GGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAATATCACTGGCCTTGAATCAG
66 GGCCTTGAATCAGCACA-T--TG-----G-CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * * * * * *
3694775 TATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG-GCGTT
122 CATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATTGCACG--
*
3694839 TTTATCATCTT
182 --CA-CA--TT
* * *
3694850 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAA
3694902 CATTCCTAAG
Statistics
Matches: 819, Mismatches: 113, Indels: 145
0.76 0.10 0.13
Matches are distributed among these distances:
184 68 0.08
185 20 0.02
186 4 0.00
187 141 0.17
188 44 0.05
189 10 0.01
190 216 0.26
191 52 0.06
192 5 0.01
193 135 0.16
194 2 0.00
195 2 0.00
196 36 0.04
197 38 0.05
199 46 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (187 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
ACCTTTATCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATTGCACGCACATT
Found at i:3694871 original size:104 final size:104
Alignment explanation
Indices: 3694691--3694892 Score: 296
Period size: 104 Copynumber: 1.9 Consensus size: 104
3694681 ACATTGGCAC
** * * *
3694691 CTTTAAGTTGAATATTGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTTTAAGTCCAAT
* * *
3694756 ATCACTGGCCTTGAATCAGTATATTGGCGCCTTTGTCAT
66 ATCACTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
**
3694795 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTTTTTATCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTTTAAGTCCAAT
* *
3694860 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
66 ATCACTGGCCTTGAATCAGCACATTGGCACCTT
3694893 CATCTTTAAC
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
104 86 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (104 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTTTAAGTCCAAT
ATCACTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
Found at i:3695640 original size:13 final size:13
Alignment explanation
Indices: 3695622--3695647 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3695612 ACACCAAAGT
3695622 ATGTATCGATACA
1 ATGTATCGATACA
3695635 ATGTATCGATACA
1 ATGTATCGATACA
3695648 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3695645 original size:33 final size:33
Alignment explanation
Indices: 3695603--3695667 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3695593 TAGCCAAACT
* *
3695603 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
3695636 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
3695668 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:3703960 original size:20 final size:20
Alignment explanation
Indices: 3703917--3703962 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3703907 AAATCTTTTG
3703917 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
3703938 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
3703958 CAAAA
1 CAAAA
3703963 CCAGCATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:3706296 original size:20 final size:21
Alignment explanation
Indices: 3706273--3706326 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
3706263 ACAATTCAAA
***
3706273 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGTAAAAGAT
*
3706293 GTATCGATATATGTAAAAGAT
1 GTATCGATACATGTAAAAGAT
3706314 GTATCGATACATG
1 GTATCGATACATG
3706327 CCATTAAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (21 bp):
GTATCGATACATGTAAAAGAT
Found at i:3706395 original size:13 final size:13
Alignment explanation
Indices: 3706377--3706401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3706367 CACCAAAGTA
3706377 TGTATCGATACAG
1 TGTATCGATACAG
3706390 TGTATCGATACA
1 TGTATCGATACA
3706402 CAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3706399 original size:33 final size:33
Alignment explanation
Indices: 3706357--3706421 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3706347 TAGCCAAACT
* *
3706357 TGTATCGATACAC-CAAAGTATGTATCGATACAG
1 TGTATCGATACACAAAAAAT-TGTATCGATACAG
3706390 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
3706422 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAG
Found at i:3707630 original size:20 final size:19
Alignment explanation
Indices: 3707602--3707686 Score: 92
Period size: 20 Copynumber: 4.7 Consensus size: 19
3707592 TTTCAACGAT
3707602 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
*
3707622 TTATATCGATAC--AA---
1 TTGTATCGATACATAAGTG
3707636 -TGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
*
3707655 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
3707674 TTGTATCGATACA
1 TTGTATCGATACA
3707687 ATGTAAGCTA
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
13 10 0.18
16 2 0.04
17 2 0.04
19 17 0.31
20 24 0.44
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:3707645 original size:33 final size:33
Alignment explanation
Indices: 3707603--3707667 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
3707593 TTCAACGATT
3707603 TGTATCGATACATAAAGTGTTATATCGATACAA
1 TGTATCGATACATAAAGTGTTATATCGATACAA
*
3707636 TGTATCGATACATAAAGTGTTGTATCGATACA
1 TGTATCGATACATAAAGTGTTATATCGATACA
3707668 TAAGTTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTATATCGATACAA
Found at i:3707735 original size:13 final size:13
Alignment explanation
Indices: 3707717--3707741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3707707 ATGTATCAAA
3707717 TGTATCGATACAT
1 TGTATCGATACAT
3707730 TGTATCGATACA
1 TGTATCGATACA
3707742 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3707879 original size:52 final size:52
Alignment explanation
Indices: 3707750--3707880 Score: 208
Period size: 52 Copynumber: 2.5 Consensus size: 52
3707740 CACTAATCTT
* *
3707750 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAAATGTATCGATACACTATAAAA
* ** *
3707802 TGTACCGATACATATAGGCAAATTTTCCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAAATGTATCGATACACTATAAAA
3707854 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
3707881 ATATGTCGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAAATGTATCGATACACTATAAAA
Done.