Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 9 of 33
Found at i:1081842 original size:61 final size:58
Alignment explanation
Indices: 1081622--1082048 Score: 195
Period size: 52 Copynumber: 7.6 Consensus size: 58
1081612 ATTTGGCTTA
* * * * * * *
1081622 AAGATGACAAAGGAGCCAATATACTAATTCAAGGCTAGCGACATTAGACTTGAAGATGAG
1 AAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATTGGAC-T-AAGATGAG
* * * ** * * * *
1081682 AAAAATGATAAAGGTACTGATATGCTGATTCAAGGCCAGCGATATTGGGCT----T-A-
1 -AAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATTGGACTAAGATGAG
* * * *
1081735 AAGATGACAAAGGTGCCAATGTGCTGATTTAAGGCCAACAACATTGGACTTGAAGATGAG
1 AAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATTGGAC-T-AAGATGAG
* *
1081795 AAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGAC----AT-A-
1 AAG-ATGACAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATTGGACTAAGATGAG
* * * ** *
1081848 AAGATGACAAAGATGCCAGTATGCTGATTCAAGGCCAATGATATTGGACATAAAGATGCG
1 AAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATTGGAC-T-AAGATGAG
* ** * * * *
1081908 AAGGATGA-TAAGGTGCTGATATGCTAATTCAAGGCTAGCGATATTAGG--T----TTA-
1 AA-GATGACAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATT-GGACTAAGATGAG
* * * * * *
1081960 AAGATGACAAAGGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGACTTA-A-GA-
1 AAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATTGGACTAAGATGAG
* *
1082015 AAGA-G--AAAGGTGCCAATATGCTGATTTAAGGCCA
1 AAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCA
1082049 GCGACATTGG
Statistics
Matches: 282, Mismatches: 59, Indels: 59
0.70 0.15 0.15
Matches are distributed among these distances:
51 7 0.02
52 135 0.48
53 6 0.02
54 3 0.01
55 8 0.03
58 4 0.01
59 1 0.00
60 34 0.12
61 84 0.30
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (58 bp):
AAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAACAATATTGGACTAAGATGAG
Found at i:1082306 original size:33 final size:33
Alignment explanation
Indices: 1082139--1082483 Score: 302
Period size: 33 Copynumber: 10.8 Consensus size: 33
1082129 GATGCCACCA
*
1082139 ACTTGTGTGGGCTTTTGAG-AGGGTTGCCACTG
1 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTG
** * * *
1082171 ACTTGTGTAAGCTTTTGACG-GGGGTTACCA-TG
1 ACTTGTGTGGGCTTTAGA-GAAGGGTTGCCACTG
*
1082203 ACTTGTGTGGGCTTT--AGAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTG
* * ** * *
1082234 ACTTATATGGGCTTTAGAGAAGGGTAACGACCG
1 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTG
* * *
1082267 ATTTGTGTTGGCTTTAGAGAAGGGTTTCCACTG
1 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTG
* *
1082300 ACTTGTGTGGGCTTT--AGATGGGTTGCCACTA
1 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTG
* * * *
1082331 ACTTATGTGGGCTTTGGAAAAGGGTTGCCA-TCA
1 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACT-G
* * * *
1082364 ACTTGTGTTGACTTTAGA-AA-AGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTG
*
1082395 ACTTGTGTGGACTTTAGA-AA-GGTTGCCACTG
1 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTG
* *
1082426 ACTTGTGTGGGCTTTAAAAAAGGGTTGCCA-TCG
1 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACT-G
*
1082459 ACTTGTGTAGGCTTTAGAGAAGGGT
1 ACTTGTGTGGGCTTTAGAGAAGGGT
1082484 ACCATAGAGT
Statistics
Matches: 256, Mismatches: 45, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
29 1 0.00
30 9 0.04
31 92 0.36
32 37 0.14
33 117 0.46
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.32
Consensus pattern (33 bp):
ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTG
Found at i:1082465 original size:64 final size:65
Alignment explanation
Indices: 1082131--1082481 Score: 304
Period size: 64 Copynumber: 5.5 Consensus size: 65
1082121 TAGAATGAGA
* * * ** * ***
1082131 TGCCACCAACTTGTGTGGGCTTTTGAGAGGGTTGCCACTGACTTGTGTAAGCTTTTGACGGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACTGACTTGTGTGGGCTTTAGAAAAGGGT
* * * * * * *
1082196 TACCA-TGACTTGTGTGGGCTTTAGA-AGGGTTGCCACCGACTTATATGGGCTTTAGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACTGACTTGTGTGGGCTTTAGAAAAGGGT
** * * * * *
1082259 AACGACCGATTTGTGTTGGCTTTAGAGAAGGGTTTCCACTGACTTGTGTGGGCTTTAG--ATGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACTGACTTGTGTGGGCTTTAGAAAAGGG
1082322 T
65 T
** * * * * * *
1082323 TGCCACTAACTTATGTGGGCTTTGGAAAAGGGTTGCCA-TCAACTTGTGTTGACTTTAGAAAA--
1 TGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACT-GACTTGTGTGGGCTTTAGAAAAGG
1082385 GT
64 GT
* *
1082387 TGCCACCGACTTGTGTGGACTTTAGA-AAGGTTGCCACTGACTTGTGTGGGCTTTAAAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACTGACTTGTGTGGGCTTTAGAAAAGGGT
* *
1082451 TGCCATCGACTTGTGTAGGCTTTAGAGAAGG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGG
1082482 GTACCATAGA
Statistics
Matches: 225, Mismatches: 51, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
62 26 0.12
63 36 0.16
64 129 0.57
65 9 0.04
66 25 0.11
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (65 bp):
TGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACTGACTTGTGTGGGCTTTAGAAAAGGGT
Found at i:1082572 original size:59 final size:60
Alignment explanation
Indices: 1082478--1082675 Score: 177
Period size: 59 Copynumber: 3.5 Consensus size: 60
1082468 GGCTTTAGAG
* * ** ** *
1082478 AAGGGTACCATAGAGTTATGGACTT-TGAAGAAAAAGAG-GCCATATCGTTGTGGACTTAA
1 AAGGGTGCCACAGAGTTATGGACTTAAAAAGAAAAAGAGTGCCATAGAGTT-TGAACTTAA
* * * *
1082537 AAGTGTGCCACAGTGTTATGGACTTAAAAAG-AAAAGGGTGCCATAGAGTTTTAACTTAA
1 AAGGGTGCCACAGAGTTATGGACTTAAAAAGAAAAAGAGTGCCATAGAGTTTGAACTTAA
* *
1082596 AAGGGTGCCACAGAGTT-TCGACTT-AAAAG-----G-GTGCCATAGAGTTTTAACTTAA
1 AAGGGTGCCACAGAGTTATGGACTTAAAAAGAAAAAGAGTGCCATAGAGTTTGAACTTAA
*
1082648 AAGGGTGCCACAGAGTT-TCGACTTAAAA
1 AAGGGTGCCACAGAGTTATGGACTTAAAA
1082676 GGGTGCCACA
Statistics
Matches: 122, Mismatches: 14, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
52 46 0.38
53 4 0.03
57 5 0.04
58 6 0.05
59 49 0.40
60 12 0.10
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
AAGGGTGCCACAGAGTTATGGACTTAAAAAGAAAAAGAGTGCCATAGAGTTTGAACTTAA
Found at i:1082597 original size:26 final size:26
Alignment explanation
Indices: 1082568--1082690 Score: 192
Period size: 26 Copynumber: 4.7 Consensus size: 26
1082558 ACTTAAAAAG
* *
1082568 AAAAGGGTGCCATAGAGTTTTAACTT
1 AAAAGGGTGCCACAGAGTTTCAACTT
*
1082594 AAAAGGGTGCCACAGAGTTTCGACTT
1 AAAAGGGTGCCACAGAGTTTCAACTT
* *
1082620 AAAAGGGTGCCATAGAGTTTTAACTT
1 AAAAGGGTGCCACAGAGTTTCAACTT
*
1082646 AAAAGGGTGCCACAGAGTTTCGACTT
1 AAAAGGGTGCCACAGAGTTTCAACTT
1082672 AAAAGGGTGCCACAGAGTT
1 AAAAGGGTGCCACAGAGTT
1082691 ATGGACTTTA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 88 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (26 bp):
AAAAGGGTGCCACAGAGTTTCAACTT
Found at i:1082646 original size:52 final size:52
Alignment explanation
Indices: 1082568--1082690 Score: 237
Period size: 52 Copynumber: 2.4 Consensus size: 52
1082558 ACTTAAAAAG
1082568 AAAAGGGTGCCATAGAGTTTTAACTTAAAAGGGTGCCACAGAGTTTCGACTT
1 AAAAGGGTGCCATAGAGTTTTAACTTAAAAGGGTGCCACAGAGTTTCGACTT
1082620 AAAAGGGTGCCATAGAGTTTTAACTTAAAAGGGTGCCACAGAGTTTCGACTT
1 AAAAGGGTGCCATAGAGTTTTAACTTAAAAGGGTGCCACAGAGTTTCGACTT
*
1082672 AAAAGGGTGCCACAGAGTT
1 AAAAGGGTGCCATAGAGTT
1082691 ATGGACTTTA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (52 bp):
AAAAGGGTGCCATAGAGTTTTAACTTAAAAGGGTGCCACAGAGTTTCGACTT
Found at i:1082723 original size:33 final size:33
Alignment explanation
Indices: 1082672--1082965 Score: 351
Period size: 33 Copynumber: 8.9 Consensus size: 33
1082662 GTTTCGACTT
* * *
1082672 AAAAGGGTGCCACAGAGTTATGGACTTTAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
*
1082705 AAAAATGTGCCACGGAGTTGTGGACTTTAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
*
1082738 AAAAAGGTGCCATGGAGTTGTGGAC-TTAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
**
1082770 AAAAAAGGTGCCATAGAGTTGTGGACTTTAAAAG
1 -AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
* * * *
1082804 AAAAAGGTGCTATGAAGTTGTGGACTTTGAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
* * *
1082837 AGAAAA-GTGCAACAGAGTTGTGGACTATAAAAG
1 A-AAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
* * * *
1082870 AAAAAGGTGTCACAGAGTTTTGGGCTTTAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
1082903 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
* * *
1082936 AAAAAAGTG-CAGAGGAGTTATGGACTTTAA
1 AAAAAGGTGCCA-CGGAGTTGTGGACTTTAA
1082966 TAAGGGTGCC
Statistics
Matches: 227, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
32 13 0.06
33 203 0.89
34 11 0.05
ACGTcount: A:0.39, C:0.10, G:0.28, T:0.23
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAG
Found at i:1083019 original size:30 final size:30
Alignment explanation
Indices: 1082950--1083084 Score: 123
Period size: 30 Copynumber: 4.5 Consensus size: 30
1082940 AAGTGCAGAG
* * *
1082950 GAGTTATGGACTTT-AATAAG-GGTGCCACT
1 GAGTCATGGACTTTGAA-AAGAGATGCCATT
*
1082979 AAGTCATGGACTTTGAAAAGAGATGCCATT
1 GAGTCATGGACTTTGAAAAGAGATGCCATT
* *
1083009 GAGTCGTGGACTTTGAAAAGAGATGCCTTT
1 GAGTCATGGACTTTGAAAAGAGATGCCATT
** * * *
1083039 GAGTTGTGGACTTTTAGAAAG-GATACCACT
1 GAGTCATGGACTTTGA-AAAGAGATGCCATT
*
1083069 AAGTCATGGACTTTGA
1 GAGTCATGGACTTTGA
1083085 GAAGGTTACA
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
29 15 0.17
30 68 0.78
31 4 0.05
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (30 bp):
GAGTCATGGACTTTGAAAAGAGATGCCATT
Found at i:1086684 original size:19 final size:19
Alignment explanation
Indices: 1086660--1086722 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
1086650 AGCGATAAAT
1086660 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1086679 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
1086692 TGTATCGATACGACACTTA
1 TGTATCGATACAACACTTA
1086711 TGTATCGATACA
1 TGTATCGATACA
1086723 TTTACTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 20 0.54
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1086694 original size:32 final size:32
Alignment explanation
Indices: 1086647--1086724 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
1086637 CTAGTAGCTT
* *
1086647 TGTAGCGATAAATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
1086679 TGTATCGATACATTGTATCGATACGACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
1086711 TGTATCGATACATT
1 TGTATCGATACATT
1086725 TACTGTTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:1089089 original size:168 final size:166
Alignment explanation
Indices: 1088671--1089095 Score: 577
Period size: 166 Copynumber: 2.5 Consensus size: 166
1088661 GGTTTAAAAC
* *
1088671 TTTTAAAATTCATCAAATATTATTATTTACTTAATATTAATTCACTTTTT-AAAAATTCATTCAT
1 TTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCA-TTTTTCAAAAATTCATTCAT
*
1088735 TTTCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTCTTTCTGAAATACGAAATTTTCTACTCC
65 TTCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTCTTTCTGAAATACGAAATTTTCTACTCC
1088800 GTAAATTTTTTTCGGAAGGATTTTTCTTTTTTTTTAT
130 GTAAATTTTTTTCGGAAGGATTTTTCTTTTTTTTTAT
* * *
1088837 TTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAATTTCCAAAAAGTCATTCATT
1 TTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATT
* * * * * * *
1088902 TCCAAAAATTTTAAATTTTTTCCTTGAAATTTTCCTTTTTTTGAAATACGGAGTTTTCTACTCCG
66 TCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTCTTTCTGAAATACGAAATTTTCTACTCCG
* * *
1088967 T-AATTTTTTT-TGAGGGGATTTTTCTTATTTTTTATTTT
131 TAAATTTTTTTCGGA-AGGATTTTTC-T-TTTTTT-TTAT
* * * *
1089005 TTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATTTATTTTTCAAAAATTCATTAATG
1 TTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATT
* *
1089070 TCCCTGAATTTTGAATTTTTTTCCTT
66 TCCATAAATTTTGAA-TTTTTTCCTT
1089096 TCTTTCTCTT
Statistics
Matches: 226, Mismatches: 27, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
164 2 0.01
165 21 0.09
166 115 0.51
167 6 0.03
168 72 0.32
169 10 0.04
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (166 bp):
TTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATT
TCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCTCTTTCTGAAATACGAAATTTTCTACTCCG
TAAATTTTTTTCGGAAGGATTTTTCTTTTTTTTTAT
Found at i:1089615 original size:32 final size:31
Alignment explanation
Indices: 1089565--1089660 Score: 106
Period size: 32 Copynumber: 3.0 Consensus size: 31
1089555 CCTTATAACA
1089565 CTATC-TTTCAAGGCTAAGATAGAAACCTCC
1 CTATCTTTTCAAGGCTAAGATAGAAACCTCC
1089595 CTATCTTTTCAAGGGCTAAGATAGAACCACTCTCC
1 CTATCTTTTCAA-GGCTAAGATAGAA--AC-CTCC
* *
1089630 CTATCTTTTTCAAAGGTTAATATAG-AACCTC
1 CTATC-TTTTC-AAGGCTAAGATAGAAACCTC
1089661 TCAATCACTT
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
30 5 0.09
31 6 0.11
32 16 0.28
33 2 0.04
34 2 0.04
35 10 0.18
36 14 0.25
37 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (31 bp):
CTATCTTTTCAAGGCTAAGATAGAAACCTCC
Found at i:1089655 original size:36 final size:35
Alignment explanation
Indices: 1089565--1089658 Score: 117
Period size: 36 Copynumber: 2.8 Consensus size: 35
1089555 CCTTATAACA
1089565 CTATC-TTTC-AAGGCTAAGATAGAA--AC-CTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCACTCTCC
*
1089595 CTATCTTTTCAAGGGCTAAGATAGAACCACTCTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCACTCTCC
* *
1089630 CTATCTTTTTCAAAGGTTAATATAGAACC
1 CTATC-TTTTCAAAGGCTAAGATAGAACC
1089659 TCTCAATCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 14 0.26
34 2 0.04
35 9 0.17
36 20 0.37
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCACTCTCC
Found at i:1090155 original size:52 final size:52
Alignment explanation
Indices: 1090072--1090177 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
1090062 ATGCATTTGA
* *
1090072 AATTATAGCCATTGGGCTCAATGTATCGATACAATTCATAATGTATCGCTAC
1 AATTATAGCCATTGGGCTCAATGTATCGATACAATTCACAATGTATCGATAC
* * * *
1090124 AATTATAGCCATTGGGCTTAATGTATTGATACAATTTACCATGTATCGATAC
1 AATTATAGCCATTGGGCTCAATGTATCGATACAATTCACAATGTATCGATAC
1090176 AA
1 AA
1090178 ATAGTGGTAG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (52 bp):
AATTATAGCCATTGGGCTCAATGTATCGATACAATTCACAATGTATCGATAC
Found at i:1090282 original size:32 final size:32
Alignment explanation
Indices: 1090228--1090290 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
1090218 CATTTCATGG
*
1090228 TGTATCGATACAAGGAACATGTATCGATACAA
1 TGTATCGATACAAGGAACATGTATCAATACAA
* *
1090260 TGTAT-GATACAAGGCTATATGTATCAATACA
1 TGTATCGATACAAGG-AACATGTATCAATACA
1090291 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (32 bp):
TGTATCGATACAAGGAACATGTATCAATACAA
Found at i:1093167 original size:21 final size:20
Alignment explanation
Indices: 1093143--1093192 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1093133 TTTTATTAGT
*
1093143 TAACTCATCATTTTCATTTTG
1 TAACTCATCATTTTC-TTTTC
*
1093164 TAACTCACTTATTTTCTTTTC
1 TAACTCA-TCATTTTCTTTTC
*
1093185 CAACTCAT
1 TAACTCAT
1093193 TTACTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (20 bp):
TAACTCATCATTTTCTTTTC
Found at i:1093200 original size:21 final size:21
Alignment explanation
Indices: 1093165--1093205 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1093155 TTCATTTTGT
*
1093165 AACTCACTTATTTTCTTTTCC
1 AACTCACTTACTTTCTTTTCC
*
1093186 AACTCATTTACTTTCTTTTC
1 AACTCACTTACTTTCTTTTC
1093206 AAGAGTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.54
Consensus pattern (21 bp):
AACTCACTTACTTTCTTTTCC
Found at i:1097632 original size:19 final size:19
Alignment explanation
Indices: 1097608--1097661 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
1097598 CAGTAGCTAA
1097608 TTATGTATCGATACAACAC
1 TTATGTATCGATACAACAC
*
1097627 TTATGTATCGATACAATAC
1 TTATGTATCGATACAACAC
1097646 TTATGTATCGATACAA
1 TTATGTATCGATACAA
1097662 ATCGTTGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAACAC
Found at i:1098721 original size:32 final size:32
Alignment explanation
Indices: 1098685--1098749 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
1098675 ACATGCTCCT
*
1098685 ATGTAT-TGATACAATTAATAATGTATCTATAC
1 ATGTATCT-ATACAATTAATAATGTATCGATAC
*
1098717 ATGTATCTATACAATTCATAATGTATCGATAC
1 ATGTATCTATACAATTAATAATGTATCGATAC
1098749 A
1 A
1098750 ATTATAGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (32 bp):
ATGTATCTATACAATTAATAATGTATCGATAC
Found at i:1098722 original size:12 final size:12
Alignment explanation
Indices: 1098705--1098729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1098695 ACAATTAATA
1098705 ATGTATCTATAC
1 ATGTATCTATAC
1098717 ATGTATCTATAC
1 ATGTATCTATAC
1098729 A
1 A
1098730 ATTCATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTATCTATAC
Found at i:1099617 original size:10 final size:10
Alignment explanation
Indices: 1099602--1099642 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
1099592 GAAAGAAGAG
1099602 AGAGAAAAAA
1 AGAGAAAAAA
1099612 AGAGAAAAAA
1 AGAGAAAAAA
*
1099622 AGAGAGAAAA
1 AGAGAAAAAA
*
1099632 ATAGAATAAAA
1 AGAGAA-AAAA
1099643 TAGGTAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (10 bp):
AGAGAAAAAA
Found at i:1101002 original size:161 final size:160
Alignment explanation
Indices: 1100583--1101025 Score: 619
Period size: 160 Copynumber: 2.8 Consensus size: 160
1100573 CAATAATTAT
* * * * *
1100583 TTTTTCTAATATTTCATATTGCTATGGGCATTTGTAGGGGTA-AAAA-ATTTCAAAAACCTTTCG
1 TTTTTCTAATCTTTTATATTTCTATAGGCATTCGTAGGGGTATAAAAGATTTCAAAAACCTTTCG
* * *
1100646 TATT-TTTTCGGGCTTCCATTAGGGTATGAAATGGTATTTTCAAAATTAAATTAAATTAACTTAA
66 TATTCTTTT-GGGCTTCCATTAGGGTATGAAATGATATTTTCAAAAATAAATAAAATTAA-TTAA
* *
1100710 ATTGGTATTATCAGGATAAATTCTAGTATTTA
129 ATTGGTATTATCAGGATAAATTCTAATATCTA
*
1100742 TTTTTTTAATCTTTTATA-TTCT-TATGGCA-TCAGTAGGGGTATAAAAGATTTCAAAAACCTTT
1 TTTTTCTAATCTTTTATATTTCTATA-GGCATTC-GTAGGGGTATAAAAGATTTCAAAAACCTTT
* * * *
1100804 CATATTCTTTTAGGATTCCATTAGGGTACGAAATGATATTTTCAAAAATAAATAAAATTCAATTA
64 CGTATTCTTTTGGGCTTCCATTAGGGTATGAAATGATATTTTCAAAAATAAATAAAATT-AATTA
**
1100869 AATTGGTATTATTGGGATAAATTCTAATATCTA
128 AATTGGTATTATCAGGATAAATTCTAATATCTA
* *
1100902 TTTTTCTAATCTTTTATATTTCTATAGGCATTCGTAGGGGTATAAAAGATTTTAAAAACCTTTTG
1 TTTTTCTAATCTTTTATATTTCTATAGGCATTCGTAGGGGTATAAAAGATTTCAAAAACCTTTCG
*
1100967 TATTCTTTTGGGCTTCCATTAGGGTATAAAATGATATTTTCAAAAATAAATAAAATTAA
66 TATTCTTTTGGGCTTCCATTAGGGTATGAAATGATATTTTCAAAAATAAATAAAATTAA
1101026 ATTGAATTAA
Statistics
Matches: 250, Mismatches: 25, Indels: 17
0.86 0.09 0.06
Matches are distributed among these distances:
157 2 0.01
158 16 0.06
159 19 0.08
160 113 0.45
161 96 0.38
162 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.42
Consensus pattern (160 bp):
TTTTTCTAATCTTTTATATTTCTATAGGCATTCGTAGGGGTATAAAAGATTTCAAAAACCTTTCG
TATTCTTTTGGGCTTCCATTAGGGTATGAAATGATATTTTCAAAAATAAATAAAATTAATTAAAT
TGGTATTATCAGGATAAATTCTAATATCTA
Found at i:1109830 original size:40 final size:40
Alignment explanation
Indices: 1109763--1109840 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
1109753 AAAACCCAGA
* * * *
1109763 ATGTATCGATAGAATGAGAAATGTATCGATACAATTTCTT
1 ATGTATCGATACAATAAAAAATATATCGATACAATTTCTT
*
1109803 ATGTATCGATACATTAAAAAATATATCGATACAATTTC
1 ATGTATCGATACAATAAAAAATATATCGATACAATTTC
1109841 ATTCTAGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (40 bp):
ATGTATCGATACAATAAAAAATATATCGATACAATTTCTT
Found at i:1117679 original size:20 final size:20
Alignment explanation
Indices: 1117654--1117691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1117644 TTCATTTTGT
*
1117654 AACTCACTTATTTTCTTTCC
1 AACTCACTTACTTTCTTTCC
*
1117674 AACTCATTTACTTTCTTT
1 AACTCACTTACTTTCTTT
1117692 TCAAGAGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (20 bp):
AACTCACTTACTTTCTTTCC
Found at i:1122171 original size:19 final size:19
Alignment explanation
Indices: 1122147--1122200 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
1122137 CAGTAGCTAA
1122147 TTATGTATCGATACAACAC
1 TTATGTATCGATACAACAC
*
1122166 TTATGTATCGATACAATAC
1 TTATGTATCGATACAACAC
1122185 TTATGTATCGATACAA
1 TTATGTATCGATACAA
1122201 ATCGTTGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAACAC
Found at i:1123260 original size:32 final size:32
Alignment explanation
Indices: 1123224--1123288 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
1123214 ACATGCTCCT
*
1123224 ATGTAT-TGATACAATTAATAATGTATCTATAC
1 ATGTATCT-ATACAATTAATAATGTATCGATAC
*
1123256 ATGTATCTATACAATTCATAATGTATCGATAC
1 ATGTATCTATACAATTAATAATGTATCGATAC
1123288 A
1 A
1123289 ATTATAGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (32 bp):
ATGTATCTATACAATTAATAATGTATCGATAC
Found at i:1123261 original size:12 final size:12
Alignment explanation
Indices: 1123244--1123268 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1123234 ACAATTAATA
1123244 ATGTATCTATAC
1 ATGTATCTATAC
1123256 ATGTATCTATAC
1 ATGTATCTATAC
1123268 A
1 A
1123269 ATTCATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTATCTATAC
Found at i:1124156 original size:10 final size:10
Alignment explanation
Indices: 1124141--1124181 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
1124131 GAAAGAAGAG
1124141 AGAGAAAAAA
1 AGAGAAAAAA
1124151 AGAGAAAAAA
1 AGAGAAAAAA
*
1124161 AGAGAGAAAA
1 AGAGAAAAAA
*
1124171 ATAGAATAAAA
1 AGAGAA-AAAA
1124182 TAGGTAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (10 bp):
AGAGAAAAAA
Found at i:1125530 original size:162 final size:161
Alignment explanation
Indices: 1125119--1125565 Score: 629
Period size: 160 Copynumber: 2.8 Consensus size: 161
1125109 AAACAATAAT
* * * * *
1125119 TATTTTTTCTAATATTTCATATTGCTATGGGCATTTGTAGGGGTA-AAAA-ATTTCAAAAACCTT
1 TATTTTTTCTAATCTTTTATATTTCTATAGGCATTCGTAGGGGTATAAAAGATTTCAAAAACCTT
* * *
1125182 TCGTATT-TTTTCGGGCTTCCATTAGGGTATGAAATGGTATTTTCAAAATTAAATTAAATTAACT
66 TCGTATTCTTTT-GGGCTTCCATTAGGGTATGAAATGATATTTTCAAAAATAAATAAAATTAA-T
* *
1125246 TAAATTGGTATTATCAGGATAAATTCTAGTATT
129 TAAATTGGTATTATCAGGATAAATTCTAATATC
1125279 TATTTTTT-TAATCTTTTATA-TTCT-TATGGCA-TCAGTAGGGGTATAAAAGATTTCAAAAACC
1 TATTTTTTCTAATCTTTTATATTTCTATA-GGCATTC-GTAGGGGTATAAAAGATTTCAAAAACC
* * * *
1125340 TTTCATATTCTTTTAGGATTCCATTAGGGTACGAAATGATATTTTCAAAAATAAATAAAATTCAA
64 TTTCGTATTCTTTTGGGCTTCCATTAGGGTATGAAATGATATTTTCAAAAATAAATAAAATT-AA
**
1125405 TTAAATTGGTATTATTGGGATAAATTCTAATATC
128 TTAAATTGGTATTATCAGGATAAATTCTAATATC
*
1125439 TATTTTTTCTAATCTTTTATATTTCTATAGGCATTCGTAGGGGTATAAAAGATTTTAAAAACCTT
1 TATTTTTTCTAATCTTTTATATTTCTATAGGCATTCGTAGGGGTATAAAAGATTTCAAAAACCTT
* *
1125504 TTGTATTCTTTTGGGCTTCCATTAGGGTATAAAATGATATTTTCAAAAATAAATAAAATTAA
66 TCGTATTCTTTTGGGCTTCCATTAGGGTATGAAATGATATTTTCAAAAATAAATAAAATTAA
1125566 ATTGAATTAA
Statistics
Matches: 254, Mismatches: 23, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
157 2 0.01
158 16 0.06
159 14 0.06
160 108 0.43
161 20 0.08
162 90 0.35
163 4 0.02
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (161 bp):
TATTTTTTCTAATCTTTTATATTTCTATAGGCATTCGTAGGGGTATAAAAGATTTCAAAAACCTT
TCGTATTCTTTTGGGCTTCCATTAGGGTATGAAATGATATTTTCAAAAATAAATAAAATTAATTA
AATTGGTATTATCAGGATAAATTCTAATATC
Found at i:1134372 original size:40 final size:40
Alignment explanation
Indices: 1134305--1134382 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
1134295 AAAACCCAGA
* * * *
1134305 ATGTATCGATAGAATGAGAAATGTATCGATACAATTTCTT
1 ATGTATCGATACAATAAAAAATATATCGATACAATTTCTT
*
1134345 ATGTATCGATACATTAAAAAATATATCGATACAATTTC
1 ATGTATCGATACAATAAAAAATATATCGATACAATTTC
1134383 ATTCTAGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (40 bp):
ATGTATCGATACAATAAAAAATATATCGATACAATTTCTT
Found at i:1138153 original size:10 final size:11
Alignment explanation
Indices: 1138108--1138160 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
1138098 TGTTGTAGAT
1138108 TTTGATGAAAAA
1 TTTGATG-AAAA
1138120 TTT-ATG-AAA
1 TTTGATGAAAA
* *
1138129 TTTTAAGAAAA
1 TTTGATGAAAA
1138140 TTTGA-GAAAA
1 TTTGATGAAAA
1138150 TTTGATGAAAA
1 TTTGATGAAAA
1138161 ATCGTTAGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
9 6 0.17
10 12 0.33
11 15 0.42
12 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (11 bp):
TTTGATGAAAA
Found at i:1138159 original size:21 final size:20
Alignment explanation
Indices: 1138108--1138160 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
1138098 TGTTGTAGAT
1138108 TTTGATGAAAAATTTATGAAA
1 TTTGATG-AAAATTTATGAAA
* *
1138129 TTTTAAGAAAATTTGA-GAAAA
1 TTTGATGAAAATTT-ATG-AAA
1138150 TTTGATGAAAA
1 TTTGATGAAAA
1138161 ATCGTTAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (20 bp):
TTTGATGAAAATTTATGAAA
Found at i:1143709 original size:13 final size:13
Alignment explanation
Indices: 1143691--1143716 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1143681 TACACCAAGT
1143691 ATGTATCGATACA
1 ATGTATCGATACA
1143704 ATGTATCGATACA
1 ATGTATCGATACA
1143717 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:1143714 original size:32 final size:33
Alignment explanation
Indices: 1143673--1143736 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1143663 TAGCCAAACT
* **
1143673 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1143705 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1143737 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1145355 original size:12 final size:12
Alignment explanation
Indices: 1145323--1145356 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1145313 AACCATCAAA
*
1145323 GATGAAGAAGAT
1 GATGAAGATGAT
*
1145335 GATGAAGATGTT
1 GATGAAGATGAT
1145347 GATGAAGATG
1 GATGAAGATG
1145357 GTGACTCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:1149895 original size:13 final size:13
Alignment explanation
Indices: 1149877--1149902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1149867 ACATTTTTCT
1149877 TTGTATCGATACA
1 TTGTATCGATACA
1149890 TTGTATCGATACA
1 TTGTATCGATACA
1149903 GGGGATTATA
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):
TTGTATCGATACA
Found at i:1150065 original size:20 final size:20
Alignment explanation
Indices: 1150022--1150067 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1150012 AAATCTTTTG
1150022 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1150043 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1150063 CAAAA
1 CAAAA
1150068 CCAGCATCAA
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:1152481 original size:13 final size:13
Alignment explanation
Indices: 1152463--1152488 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1152453 TACACCAAGT
1152463 ATGTATCGATACA
1 ATGTATCGATACA
1152476 ATGTATCGATACA
1 ATGTATCGATACA
1152489 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:1152486 original size:32 final size:33
Alignment explanation
Indices: 1152445--1152508 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1152435 TAGCCAAACT
* **
1152445 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1152477 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1152509 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1154762 original size:20 final size:19
Alignment explanation
Indices: 1154733--1154771 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1154723 AGGTCAAAAC
1154733 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
1154752 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
1154772 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:1154799 original size:13 final size:13
Alignment explanation
Indices: 1154781--1154805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1154771 ATAATGCACA
1154781 GTATCGATACATT
1 GTATCGATACATT
1154794 GTATCGATACAT
1 GTATCGATACAT
1154806 GACCAAATGT
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):
GTATCGATACATT
Found at i:1154818 original size:20 final size:21
Alignment explanation
Indices: 1154793--1154845 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1154783 ATCGATACAT
*
1154793 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
1154813 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
1154834 TGTATCGATACA
1 TGTATCGATACA
1154846 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:1162816 original size:21 final size:21
Alignment explanation
Indices: 1162769--1162813 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1162759 AAGTTTTCAT
1162769 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
1162789 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
1162811 TTT
1 TTT
1162814 CATCTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:1165049 original size:13 final size:13
Alignment explanation
Indices: 1165031--1165056 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1165021 CAATCTTTTG
1165031 TGTATCGATACAT
1 TGTATCGATACAT
1165044 TGTATCGATACAT
1 TGTATCGATACAT
1165057 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:1171462 original size:20 final size:22
Alignment explanation
Indices: 1171437--1171481 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
1171427 GCAGCACTCA
*
1171437 CCAGGTCACGACCG-GCA-CCC
1 CCAGGTCACAACCGAGCAGCCC
1171457 CCAGGTCACAACCGAGCAGCCC
1 CCAGGTCACAACCGAGCAGCCC
1171479 CCA
1 CCA
1171482 CACTAGCAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 3 0.14
22 6 0.27
ACGTcount: A:0.24, C:0.49, G:0.22, T:0.04
Consensus pattern (22 bp):
CCAGGTCACAACCGAGCAGCCC
Found at i:1172899 original size:12 final size:12
Alignment explanation
Indices: 1172882--1172909 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1172872 TATTAAGGGG
1172882 GAGAAATTTTTT
1 GAGAAATTTTTT
1172894 GAGAAATTTTTT
1 GAGAAATTTTTT
1172906 GAGA
1 GAGA
1172910 TTAAGGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (12 bp):
GAGAAATTTTTT
Found at i:1173458 original size:20 final size:19
Alignment explanation
Indices: 1173429--1173467 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1173419 AGGTCAAAAC
*
1173429 CCTTAAATGTATTGATACA
1 CCTTAAATGTATCGATACA
1173448 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
1173468 TTGTATCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:1173473 original size:33 final size:33
Alignment explanation
Indices: 1173436--1173499 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1173426 AACCCTTAAA
* **
1173436 TGTATTGATACACCTTCAAATGTATCGATACAT
1 TGTATCGATACACCACCAAATGTATCGATACAT
**
1173469 TGTATCGATACATGACCAAATGTATCGATAC
1 TGTATCGATACACCACCAAATGTATCGATAC
1173500 TTGCAAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (33 bp):
TGTATCGATACACCACCAAATGTATCGATACAT
Found at i:1173474 original size:13 final size:13
Alignment explanation
Indices: 1173456--1173481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1173446 CACCTTCAAA
1173456 TGTATCGATACAT
1 TGTATCGATACAT
1173469 TGTATCGATACAT
1 TGTATCGATACAT
1173482 GACCAAATGT
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:1174422 original size:19 final size:19
Alignment explanation
Indices: 1174382--1174433 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
1174372 CAGTTTCATA
**
1174382 TATCGATACAATTGTGCATG
1 TATCGATACAA-TGAACATG
1174402 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
1174421 TATCGATACAATG
1 TATCGATACAATG
1174434 TATCGATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:1174436 original size:13 final size:13
Alignment explanation
Indices: 1174418--1174444 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1174408 TACAATGAAC
1174418 ATGTATCGATACA
1 ATGTATCGATACA
1174431 ATGTATCGATACA
1 ATGTATCGATACA
1174444 A
1 A
1174445 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1175586 original size:15 final size:15
Alignment explanation
Indices: 1175566--1175594 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1175556 AAGTGTAAGA
1175566 ATCAAGTTTTTACCG
1 ATCAAGTTTTTACCG
1175581 ATCAAGTTTTTACC
1 ATCAAGTTTTTACC
1175595 AATGAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (15 bp):
ATCAAGTTTTTACCG
Found at i:1175735 original size:13 final size:14
Alignment explanation
Indices: 1175717--1175753 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1175707 AAAATTGAAA
1175717 AACAAACATAAG-T
1 AACAAACATAAGAT
*
1175730 AACAAAAATAAGAT
1 AACAAACATAAGAT
1175744 AA-AAACATAA
1 AACAAACATAA
1175754 CAAAAACTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.70, C:0.11, G:0.05, T:0.14
Consensus pattern (14 bp):
AACAAACATAAGAT
Found at i:1177755 original size:21 final size:23
Alignment explanation
Indices: 1177705--1177755 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
1177695 TAAAAACCTT
1177705 TTTATTTTAATTAAATATTTTGA
1 TTTATTTTAATTAAATATTTTGA
* *
1177728 TAT-TTTTAA-TAAA-ATTTTTA
1 TTTATTTTAATTAAATATTTTGA
1177748 TTTATTTT
1 TTTATTTT
1177756 TCTTTTTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 8 0.33
21 8 0.33
22 6 0.25
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTATTTTAATTAAATATTTTGA
Found at i:1180407 original size:79 final size:79
Alignment explanation
Indices: 1180306--1180872 Score: 542
Period size: 79 Copynumber: 7.2 Consensus size: 79
1180296 TTCCACCGTT
* * * *
1180306 GGGGATACTCCGA-CCTCATTATTTTCGAGGAGATACTCGAACCCCGATTTTATTTCCAAAACAC
1 GGGGATACTCCAACCCT-GTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
1180370 TGATTTTTCATAATC
65 TGATTTTTCATAATC
* * * * *
1180385 GGAGATACTCTAACCCTGTTA-TTTCTGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAACA-
1 GGGGATACTCCAACCCTGTTATTTTC-GAGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* *
1180448 TCGATTTTCCCTAATC
65 T-GATTTTTCATAATC
* * * * * *
1180464 GGGGATACTCTAACCCTGTTATTTCCGAGGGGTTACTCCAACCCTGATTTTATTTCTAAAATAC-
1 GGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACT
* * * **
1180528 CAATTTCCACCATC
66 GATTTTTCATAATC
** ** * * *
1180542 GAAGATACTCCAACCCTGTTATTTTTTAGGGGATACTCCAATCCTGATTTTATTTCTAAAACACT
1 GGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACT
*
1180607 GA-TTTTCTACAATC
66 GATTTTTC-ATAATC
** *
1180621 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAACA-T
1 GGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACT
*
1180685 CGATTTTCCATAATC
66 -GATTTTTCATAATC
** * * * *
1180700 -GAAATACTTCAACCCTGTTATTTTCGAGGGGATACTCCAACCTCGGTTATATTTCCAAAACAC-
1 GGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACT
* *
1180763 CATTTTTCCATAATT
66 GATTTTT-CATAATC
* * * * *
1180778 GGGGATACTCCAATCCC-GTTATTTTCGAGGGGATATTTCAACCTCGGTTTTATTTTCAAAACA-
1 GGGGATACTCCAA-CCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* *
1180841 TCGATTTTTCACAATT
65 T-GATTTTTCATAATC
*
1180857 GGGGATACTCCGACCC
1 GGGGATACTCCAACCC
1180873 CAGATTTATT
Statistics
Matches: 406, Mismatches: 67, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
77 5 0.01
78 136 0.33
79 246 0.61
80 19 0.05
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACT
GATTTTTCATAATC
Found at i:1180787 original size:236 final size:235
Alignment explanation
Indices: 1180277--1180874 Score: 676
Period size: 236 Copynumber: 2.5 Consensus size: 235
1180267 TTGATGTTTT
* * * *
1180277 TATTTCTAAAATACCAATTTTCCACCGTTGGGGATACTCCGA-CCTCATTATTTTCGAGGAGATA
1 TATTTCTAAAATACC-ATTTTCCACCATTGGGGATACTCCAACCCT-GTTATTTTCGAGGGGATA
* * * * * * **
1180341 CTCGAACCCCGATTTTATTTCCAAAACACTGATTTTTCATAATCGGAGATACTCTAACCCTGTTA
64 CTCCAA-CCTGATTTTATTTCTAAAACACTGATTTTTCACAATCGGGGATACTCCAACCCCATTA
* * * **
1180406 TTTCTGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCGATTTTCCCTAATCGGGGATA
128 TTTCTGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCATAATCGGAAATA
* *
1180471 CTCTAACCCTGTTATTTCCGAGGGGTTACTCCAACCCTGATTT
193 CTCTAACCCTGTTATTTCCGAGGGGATACTCCAACCCTGATTA
* * ** **
1180514 TATTTCTAAAATACCAATTTCCACCATCGAAGATACTCCAACCCTGTTATTTTTTAGGGGATACT
1 TATTTCTAAAATACCATTTTCCACCATTGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACT
1180579 CCAATCCTGATTTTATTTCTAAAACACTGA-TTTTCTACAATCGGGGATACTCCAACCCCATTAT
66 CCAA-CCTGATTTTATTTCTAAAACACTGATTTTTC-ACAATCGGGGATACTCCAACCCCATTAT
1180643 TT-TCGAGGGGATACTCCAACTCC-GATTTTATTTCCAAAACATCGATTTTCCATAATC-GAAAT
129 TTCT-GAGGGGATACTCCAAC-CCTGATTTTATTTCCAAAACATCGATTTTCCATAATCGGAAAT
* *
1180705 ACT-TCAACCCTGTTATTTTCGAGGGGATACTCCAA-CCTCGGTTA
192 ACTCT-AACCCTGTTATTTCCGAGGGGATACTCCAACCCT-GATTA
* * **
1180749 TATTTCCAAAACACCATTTTTCCATAATTGGGGATACTCCAATCCC-GTTATTTTCGAGGGGATA
1 TATTTCTAAAATACCA-TTTTCCACCATTGGGGATACTCCAA-CCCTGTTATTTTCGAGGGGATA
* * * * *
1180813 TTTCAACCTCGGTTTTATTT-TCAAAACA-TCGATTTTTCACAATTGGGGATACTCCGACCCCA
64 CTCCAACCT-GATTTTATTTCT-AAAACACT-GATTTTTCACAATCGGGGATACTCCAACCCCA
1180875 GATTTATTTT
Statistics
Matches: 306, Mismatches: 43, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
234 4 0.01
235 62 0.20
236 212 0.69
237 28 0.09
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (235 bp):
TATTTCTAAAATACCATTTTCCACCATTGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACT
CCAACCTGATTTTATTTCTAAAACACTGATTTTTCACAATCGGGGATACTCCAACCCCATTATTT
CTGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCATAATCGGAAATACTC
TAACCCTGTTATTTCCGAGGGGATACTCCAACCCTGATTA
Found at i:1180843 original size:157 final size:155
Alignment explanation
Indices: 1180274--1180848 Score: 601
Period size: 157 Copynumber: 3.7 Consensus size: 155
1180264 TCATTGATGT
* ** * * *
1180274 TTTTATTTCTAAAATACCAATTTTCCACCGTTGGGGATACTCCGACCTCATTATTTTCGAGGAGA
1 TTTTATTTCTAAAACACC-ATTTTCCACAATCGGGGATACTCCAACC-CATTATTTTCGAGGGGA
* * * *
1180339 TACTCGAACCCCGATTTTATTTCCAAAACA-CTGATTTTTCATAATCGGAGATAC-TCTAACCCT
64 TACTCCAACCTCGATTTTATTTCCAAAACATC-GATTTTCCATAATC-GAAATACTTC-AACCCT
1180402 GTTA-TTTCTGAGGGGATACTCCAACC-CTGG
126 GTTATTTTC-GAGGGGATACTCCAACCTC-GG
* * * *
1180432 TTTTATTTCTAAAACATCGATTTTCC-CTAATCGGGGATACTCTAACCCTGTTATTTCCGAGGGG
1 TTTTATTTCTAAAACA-CCATTTTCCAC-AATCGGGGATACTCCAACCC-ATTATTTTCGAGGGG
* * * * * ** *
1180496 TTACTCCAACC-CTGATTTTATTTCTAAAATA-CCAATTTCCACCATCGAAGATACTCCAACCCT
63 ATACTCCAACCTC-GATTTTATTTCCAAAACATCGATTTTCCATAATCGAA-ATACTTCAACCCT
** *
1180559 GTTATTTTTTAGGGGATACTCCAATCCT-GA
126 GTTATTTTCGAGGGGATACTCCAA-CCTCGG
* *
1180589 TTTTATTTCTAAAACACTGATTTTCTACAATCGGGGATACTCCAACCCCATTATTTTCGAGGGGA
1 TTTTATTTCTAAAACAC-CATTTTCCACAATCGGGGATACTCCAA-CCCATTATTTTCGAGGGGA
1180654 TACTCCAA-CTCCGATTTTATTTCCAAAACATCGATTTTCCATAATCGAAATACTTCAACCCTGT
64 TACTCCAACCT-CGATTTTATTTCCAAAACATCGATTTTCCATAATCGAAATACTTCAACCCTGT
1180718 TATTTTCGAGGGGATACTCCAACCTCGG
128 TATTTTCGAGGGGATACTCCAACCTCGG
* * * * *
1180746 TTATATTTCCAAAACACCATTTTTCCATAATTGGGGATACTCCAATCCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACACCA-TTTTCCACAATCGGGGATACTCCAA-CCCATTATTTTCGAGGGGA
* * * *
1180811 TATTTCAACCTCGGTTTTATTTTCAAAACATCGATTTT
64 TACTCCAACCTCGATTTTATTTCCAAAACATCGATTTT
1180849 TCACAATTGG
Statistics
Matches: 348, Mismatches: 51, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
156 8 0.02
157 238 0.68
158 101 0.29
159 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (155 bp):
TTTTATTTCTAAAACACCATTTTCCACAATCGGGGATACTCCAACCCATTATTTTCGAGGGGATA
CTCCAACCTCGATTTTATTTCCAAAACATCGATTTTCCATAATCGAAATACTTCAACCCTGTTAT
TTTCGAGGGGATACTCCAACCTCGG
Found at i:1180992 original size:79 final size:79
Alignment explanation
Indices: 1180861--1181032 Score: 186
Period size: 79 Copynumber: 2.2 Consensus size: 79
1180851 ACAATTGGGG
* * * ** * * *
1180861 ATACTCCGACCCCAGATT-TATTTTTAAAACATCGATTTTCCACCATCAAGGATATTCTAAGCAC
1 ATACTCCAACCCC-GGTTGTATTTCTAAAACATCGATTTTCCAAAATCAAGGATACTCCAACCAC
* *
1180925 GTTATTTTCGAGGGA
65 GTTATTTCCAAGGGA
* * *
1180940 ATACTCTAACCCCGGTTGTATTTCTAAAACATCGA-TTTCCTAAAATCGAGGATACTCCAACCTC
1 ATACTCCAACCCCGGTTGTATTTCTAAAACATCGATTTTCC-AAAATCAAGGATACTCCAACCAC
*
1181004 GTTATTTCCAAGGGG
65 GTTATTTCCAAGGGA
1181019 ATACTCCAACCCCG
1 ATACTCCAACCCCG
1181033 TTTTTATCTC
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 8 0.11
79 68 0.89
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (79 bp):
ATACTCCAACCCCGGTTGTATTTCTAAAACATCGATTTTCCAAAATCAAGGATACTCCAACCACG
TTATTTCCAAGGGA
Found at i:1181020 original size:209 final size:207
Alignment explanation
Indices: 1180649--1181039 Score: 461
Period size: 209 Copynumber: 1.9 Consensus size: 207
1180639 TTATTTTCGA
* * *
1180649 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATCGATTTTCCATAATCGAAATACTTCAACC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACAATCGAAATACTTCAACA
* * * *
1180714 CTGTTATTTTCGAGGGGATACTCCAACCTCGGTTATATTTCCAAAACACCATTTTTCCATAATTG
66 CTGTTATTTTCGAGGGAATACTCCAACCCCGGTTATATTTCCAAAACACCA-TTTTCCAAAATCG
* * * * * *
1180779 GGGATACTCCAATCCCGTTATTTTCGAGGGGATATTTCAACCTCGGTTTTATTTTCAAAACATCG
130 AGGATACTCCAATCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTTTCAAAACATCG
1180844 ATTTTTCACAATT
195 ATTTTTCACAATT
* ** *
1180857 GGGGATACTCCGACCCCAGA-TTTATTTTTAAAACATCGATTTTCCACCATC-AAGGATA-TTCT
1 GGGGATACTCCAACCCC-GATTTTATTTCCAAAACATCGATTTTCCACAATCGAA--ATACTTC-
* * * *
1180919 AAGCAC-GTTATTTTCGAGGGAATACTCTAACCCCGGTTGTATTTCTAAAACATCGA-TTTCCTA
62 AA-CACTGTTATTTTCGAGGGAATACTCCAACCCCGGTTATATTTCCAAAACA-CCATTTTCC-A
*
1180982 AAATCGAGGATACTCCAA-CCTCGTTATTTCCAAGGGGATACTCCAACCCCGTTTTTAT
124 AAATCGAGGATACTCCAATCC-CGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTAT
1181040 CTCCAAAATA
Statistics
Matches: 153, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
207 2 0.01
208 52 0.34
209 95 0.62
210 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (207 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACAATCGAAATACTTCAACA
CTGTTATTTTCGAGGGAATACTCCAACCCCGGTTATATTTCCAAAACACCATTTTCCAAAATCGA
GGATACTCCAATCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTTTCAAAACATCGA
TTTTTCACAATT
Found at i:1183048 original size:4 final size:4
Alignment explanation
Indices: 1183039--1183088 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
1183029 ATTGGGGTTC
* * * *
1183039 TTAT TTAT TTAT TTAT TCAT TCAT TCAT TTAT TTAT TTTT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1183087 TT
1 TT
1183089 TGTTTTGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:1183671 original size:78 final size:78
Alignment explanation
Indices: 1183542--1183700 Score: 264
Period size: 78 Copynumber: 2.0 Consensus size: 78
1183532 TTTAACCATG
* *
1183542 AAGACATGGTTCTGATCGTTGATGAGTACAATGCATTATTCAACATCGAGAAAGCTCAAACTGAT
1 AAGACATGGTTCTGATCGTTGATCAGTACAATGCATTACTCAACATCGAGAAAGCTCAAACTGAT
1183607 AGGGTGTATTAAA
66 AGGGTGTATTAAA
* * *
1183620 AAGACATGGTTCTGATCGTTGATCAGTATACTGCATTACTCAACATTGAGAAAGCTCAAACTGAT
1 AAGACATGGTTCTGATCGTTGATCAGTACAATGCATTACTCAACATCGAGAAAGCTCAAACTGAT
*
1183685 AGGGTGTATTACA
66 AGGGTGTATTAAA
1183698 AAG
1 AAG
1183701 CTTCGAACTC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (78 bp):
AAGACATGGTTCTGATCGTTGATCAGTACAATGCATTACTCAACATCGAGAAAGCTCAAACTGAT
AGGGTGTATTAAA
Found at i:1190876 original size:62 final size:63
Alignment explanation
Indices: 1190797--1190917 Score: 190
Period size: 62 Copynumber: 1.9 Consensus size: 63
1190787 ATACTCAAGC
* *
1190797 ATCTTAAGAATCATTTTAACGCCATGCATGTGTGGATTTAAAGTAT-AAAAATATTTTTTCTT
1 ATCTTAAGAATCATTTTAACGCCATGCATCTATGGATTTAAAGTATAAAAAATATTTTTTCTT
* * *
1190859 ATCTTAGGATTCATTTTAAGGCCATGCATCTATGGATTTAAAGTATAAAAAATATTTTT
1 ATCTTAAGAATCATTTTAACGCCATGCATCTATGGATTTAAAGTATAAAAAATATTTTT
1190918 CTTGTTTTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
62 41 0.77
63 12 0.23
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (63 bp):
ATCTTAAGAATCATTTTAACGCCATGCATCTATGGATTTAAAGTATAAAAAATATTTTTTCTT
Found at i:1192265 original size:153 final size:153
Alignment explanation
Indices: 1191984--1192276 Score: 360
Period size: 153 Copynumber: 1.9 Consensus size: 153
1191974 ACATAGCAAT
* * *
1191984 AAAGGATGAACCCATCCTAAATGTATACTTCAGCATAGAAGCGACCTAGTGACTACATAGGATTC
1 AAAGGATGAACCCATCCTAAATGTATACTTCAGCATAAAAACGACCTAGTGACTACATAAGATTC
** * * * *
1192049 AGTTTTAAAGAAAATTACCAAAATACCCTTAAGATATACCTTCGACATGAAAGTGTTTAGTAATC
66 AGTGCTAAAGAAAATTACCAAAATACCCTAAAGATATACCTTCGACATAAAAGTATCTAGTAATC
1192114 TTAAAGGACATGAAAAAATTATA
131 TTAAAGGACATGAAAAAATTATA
* * * *
1192137 AAAGGATGAACCTATCCTAAATGTATTCCTTCAGGATAAAAACGACC-AGATGACTACCTAAGAT
1 AAAGGATGAACCCATCCTAAATGTA-TACTTCAGCATAAAAACGACCTAG-TGACTACATAAGAT
* * *
1192201 TCAGTGCT-AA-AAAATTACCAAAATACCCCTAAAG-TATACCTTTGACGTAAAAGTATCCTGGT
64 TCAGTGCTAAAGAAAATTACCAAAATA-CCCTAAAGATATACCTTCGACATAAAAGTAT-CTAGT
* *
1192263 AATTTTAAATGACA
127 AATCTTAAAGGACA
1192277 CAAAAGGATC
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
152 33 0.28
153 50 0.42
154 35 0.30
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (153 bp):
AAAGGATGAACCCATCCTAAATGTATACTTCAGCATAAAAACGACCTAGTGACTACATAAGATTC
AGTGCTAAAGAAAATTACCAAAATACCCTAAAGATATACCTTCGACATAAAAGTATCTAGTAATC
TTAAAGGACATGAAAAAATTATA
Found at i:1192291 original size:153 final size:154
Alignment explanation
Indices: 1191905--1192315 Score: 358
Period size: 154 Copynumber: 2.7 Consensus size: 154
1191895 GTTTTAATGT
* * * * * * *
1191905 AAAATTACCAAAATATCCCTAGA-ATATACCTT-TAGCATGAAAGTATCTTGGCAACCTTAAAAG
1 AAAATTACCAAAATA-CCCTAAAGATATACCTTCGA-CATAAAAGTATC-TAGTAATCTTAAAGG
* * * * * *
1191968 AC-TCAAACATAGCA-ATAAAGGATGAACCCATCCTAAATGTATACTTCAGCATAGAAGCGACCT
63 ACATCAAA-AAATCATAAAAAGGATGAACCTATCCTAAATGTATACTTCAGCATAAAAACGACCT
* **
1192031 AGTGACTACATAGGATTCAGTTTTAAAG
127 AGTGACTACATAAGATTCAGTGCTAAAG
* * * *
1192059 AAAATTACCAAAATACCCTTAAGATATACCTTCGACATGAAAGTGTTTAGTAATCTTAAAGGACA
1 AAAATTACCAAAATACCCTAAAGATATACCTTCGACATAAAAGTATCTAGTAATCTTAAAGGACA
* * * *
1192124 TGAAAAAATTAT-AAAAGGATGAACCTATCCTAAATGTATTCCTTCAGGATAAAAACGACC-AGA
66 TCAAAAAATCATAAAAAGGATGAACCTATCCTAAATGTA-TACTTCAGCATAAAAACGACCTAG-
*
1192187 TGACTACCTAAGATTCAGTGCT-AA-
129 TGACTACATAAGATTCAGTGCTAAAG
* * * * *
1192211 AAAATTACCAAAATACCCCTAAAG-TATACCTTTGACGTAAAAGTATCCTGGTAATTTTAAATGA
1 AAAATTACCAAAATA-CCCTAAAGATATACCTTCGACATAAAAGTAT-CTAGTAATCTTAAAGGA
* * *
1192275 CA-CAAAAGGATCATAAAAAGG-TCAAACCTATCCTAGATGTA
64 CATCAAAA-AATCATAAAAAGGAT-GAACCTATCCTAAATGTA
1192316 AACCTTTGGC
Statistics
Matches: 209, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
152 37 0.18
153 76 0.36
154 95 0.45
155 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (154 bp):
AAAATTACCAAAATACCCTAAAGATATACCTTCGACATAAAAGTATCTAGTAATCTTAAAGGACA
TCAAAAAATCATAAAAAGGATGAACCTATCCTAAATGTATACTTCAGCATAAAAACGACCTAGTG
ACTACATAAGATTCAGTGCTAAAG
Found at i:1192488 original size:157 final size:157
Alignment explanation
Indices: 1192326--1192791 Score: 363
Period size: 156 Copynumber: 3.0 Consensus size: 157
1192316 AACCTTTGGC
* **
1192326 ATAAAAGCAA-CCAGGTGAT-TACCTAGGACTCGAATCT-AGAAAAAATTTC-AAAATTGCCTCT
1 ATAAAAGCAACCCA-GTGATGT-CCTAGGACTCGAATCTAAG-AAAAATTACAAAAATACCCT-T
* *
1192387 A-GAGTACACCTTCGATGTGAAA-GTATCCCGA-TAACCTTAAAAAACATAAAAATGATAAGTAA
62 ATG-GTACACCTTCGATGT-AAATGTAT-CCGAGCAACCTTAAAAAACACAAAAATGATAAG-AA
*
1192449 AATA-G-TGAACCTATCCTAAATGCATACCTTCATT
123 AA-AGGATGAACCTATCCTAAATGCACACCTTCATT
* * *
1192483 ATAAAAGCAACCCAGTGATGTCGTAGGACTCGATTCTAAGGAAAATTACAAAAATACCCTTATGG
1 ATAAAAGCAACCCAGTGATGTCCTAGGACTCGAATCTAAGAAAAATTACAAAAATACCCTTATGG
* * * *
1192548 TATACCTTCGATGTAAATGTATCCTAGCAACCTTAAAAGACACAAAAATGATATGAAAAAGGATG
66 TACACCTTCGATGTAAATGTATCCGAGCAACCTTAAAAAACACAAAAATGATAAGAAAAAGGATG
* ****
1192613 AACCTATCCTACATGCACACCTTTGGC
131 AACCTATCCTAAATGCACACCTTCATT
* * * * * * * **
1192640 ATAAAATG--ATCCAGTGATGACCTAGGACTC-AATTCTAGGGAAAGTTACTAAAATACCTTTGG
1 ATAAAA-GCAACCCAGTGATGTCCTAGGACTCGAA-TCTAAGAAAAATTACAAAAATACCCTTAT
* * * ** *
1192702 GGTATACCTTTGACATG-AAA-GTATCTC-AGCAACCCTAAAGGAAA-A-AAGGATGATAAGGAA
64 GGTACACCTTCG--ATGTAAATGTATC-CGAGCAACCTTAAA--AAACACAAAAATGATAAGAAA
*
1192762 AAGGATGAACCTATCCTAAATGTACACCTT
124 AAGGATGAACCTATCCTAAATGCACACCTT
1192792 TTAGATAAAA
Statistics
Matches: 256, Mismatches: 37, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
155 2 0.01
156 119 0.46
157 114 0.45
158 21 0.08
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (157 bp):
ATAAAAGCAACCCAGTGATGTCCTAGGACTCGAATCTAAGAAAAATTACAAAAATACCCTTATGG
TACACCTTCGATGTAAATGTATCCGAGCAACCTTAAAAAACACAAAAATGATAAGAAAAAGGATG
AACCTATCCTAAATGCACACCTTCATT
Found at i:1192733 original size:156 final size:155
Alignment explanation
Indices: 1192211--1192884 Score: 441
Period size: 157 Copynumber: 4.3 Consensus size: 155
1192201 TCAGTGCTAA
* * ** * * * * * ** *
1192211 AAAATTACCAAAATACCCCTAAAGTATACCTTTGACGTAAAAGTATCCTGGTAATTTTAAATGAC
1 AAAATTACAAAAATACCCTTAGGGTATACCTTCGATGTAAATGTATCCTAGCAACCTTAAAAGAC
* * * * * * * * *
1192276 ACAAAAGGATCATAAAAAGG-TCAAACCTATCCTAGATGTAAACCTTTGGCATAAAAGCAA-CCA
66 AAAAAATGATAAGAAAAAGGAT-GAACCTATCCTAAATGCACACCTTTAGCATAAAAG-AACCCA
* *
1192339 GGTGATTACCTAGGACTCGAA-TCT-AGAA
129 -GTGATGACCTAGGACTC-AATTCTAAG-G
* ** * * * *
1192367 AAAATTTC-AAAATTGCCTCTAGAGTACACCTTCGATGTGAAA-GTATCC-CGATAACCTTAAAA
1 AAAATTACAAAAATACCCT-TAGGGTATACCTTCGATGT-AAATGTATCCTAG-CAACCTTAAAA
* * * **
1192429 AACATAAAAATGATAAGTAAAATA-G-TGAACCTATCCTAAATGCATACCTTCATTATAAAAGCA
63 GACA-AAAAATGATAAG-AAAA-AGGATGAACCTATCCTAAATGCACACCTTTAGCATAAAAG-A
* * *
1192492 ACCCAGTGATGTCGTAGGACTCGATTCTAAGG
124 ACCCAGTGATGACCTAGGACTCAATTCTAAGG
*
1192524 AAAATTACAAAAATACCCTTATGGTATACCTTCGATGTAAATGTATCCTAGCAACCTTAAAAGAC
1 AAAATTACAAAAATACCCTTAGGGTATACCTTCGATGTAAATGTATCCTAGCAACCTTAAAAGAC
* * * *
1192589 ACAAAAATGATATGAAAAAGGATGAACCTATCCTACATGCACACCTTTGGCATAAAATG-ATCCA
66 A-AAAAATGATAAGAAAAAGGATGAACCTATCCTAAATGCACACCTTTAGCATAAAA-GAACCCA
*
1192653 GTGATGACCTAGGACTCAATTCTAGGG
129 GTGATGACCTAGGACTCAATTCTAAGG
* * * * * * *
1192680 AAAGTTACTAAAATACCTTTGGGGTATACCTTTGACATG-AAA-GTAT-CTCAGCAACCCTAAAG
1 AAAATTACAAAAATACCCTTAGGGTATACCTTCG--ATGTAAATGTATCCT-AGCAACCTTAAAA
* *
1192742 GA-AAAAAGGATGATAAGGAAAAGGATGAACCTATCCTAAATGTACACCTTTTAG-ATAAAAGCA
63 GACAAAAA--ATGATAAGAAAAAGGATGAACCTATCCTAAATGCACACC-TTTAGCATAAAAG-A
*** * ***
1192805 ACTTGGTGATGACCTAAGACTTGGTTCTAA--
124 ACCCAGTGATGACCTAGGACTCAATTCTAAGG
** * *
1192835 AAAATTATTAAAAT-TCCTTAGGGTATACCTTCGACGTGAAA-GTATCCTAG
1 AAAATTACAAAAATACCCTTAGGGTATACCTTCGATGT-AAATGTATCCTAG
1192885 TAATGCTAAA
Statistics
Matches: 411, Mismatches: 81, Indels: 54
0.75 0.15 0.10
Matches are distributed among these distances:
152 2 0.00
154 28 0.07
155 27 0.07
156 161 0.39
157 168 0.41
158 24 0.06
159 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (155 bp):
AAAATTACAAAAATACCCTTAGGGTATACCTTCGATGTAAATGTATCCTAGCAACCTTAAAAGAC
AAAAAATGATAAGAAAAAGGATGAACCTATCCTAAATGCACACCTTTAGCATAAAAGAACCCAGT
GATGACCTAGGACTCAATTCTAAGG
Found at i:1203452 original size:20 final size:20
Alignment explanation
Indices: 1203427--1203490 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
1203417 TACATGTATT
1203427 GATACATTGAATAATATATC
1 GATACATTGAATAATATATC
* *
1203447 GATACATTGAATGATGTATC
1 GATACATTGAATAATATATC
*
1203467 AATACATTGAATAA-AGTATC
1 GATACATTGAATAATA-TATC
1203487 GATA
1 GATA
1203491 TATCTGGGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (20 bp):
GATACATTGAATAATATATC
Found at i:1204332 original size:52 final size:52
Alignment explanation
Indices: 1204242--1204631 Score: 300
Period size: 52 Copynumber: 7.8 Consensus size: 52
1204232 TCATAAGAGC
* * * * *
1204242 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGTGAAGAAT
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAT
* ** *
1204294 GTCAATGTGCTGATTCATTGCTAGCGACATTAGACTTAAAGATGAGAAGAAT
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAT
* * * ** *
1204346 GCCAATGTGCTGATTTAAGGCCAGTGACATTGGGTTTAGGAATG-TTA-AAG-AT
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTA--AA-GATGAGAAGAAT
* * *
1204398 GCCAATATGCTGATTCAAGGCCAGC-A-ATATCGAACTTAAAGAT--GAAG-GT
1 GCCAATGTGCTGATTCAAGGCCAGCGACAT-TAG-ACTTAAAGATGAGAAGAAT
*
1204447 GCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGA-AAG--T
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAT
* ** * * *
1204496 GCCAATGTGCTGATTCAAGGCCAACGACATCGGACTTTAAGATGGTGAAG-GT
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAT-GAGAAGAAT
* * * *
1204548 GCCAATGTGTTGATTCAAGGCCAGCAATATTGGACTT--A-A--AG--G--T
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAT
* *
1204591 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAG
1204632 GTGCAAATGT
Statistics
Matches: 279, Mismatches: 42, Indels: 40
0.77 0.12 0.11
Matches are distributed among these distances:
43 36 0.13
44 1 0.00
45 1 0.00
46 1 0.00
49 79 0.28
50 13 0.05
51 8 0.03
52 132 0.47
53 3 0.01
54 4 0.01
55 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (52 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAGAAT
Found at i:1204462 original size:49 final size:49
Alignment explanation
Indices: 1204242--1204755 Score: 290
Period size: 52 Copynumber: 10.6 Consensus size: 49
1204232 TCATAAGAGC
* * * * *
1204242 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGTGAAGAAT
1 GCCAATGTGCTGATTCAAGGCCAGCAATATCGGACTTAAAGA--TGAAG-GT
* ** * * * ** *
1204294 GTCAATGTGCTGATTCATTGCTAGCGACATTAGACTTAAAGATGAGAAGAAT
1 GCCAATGTGCTGATTCAAGGCCAGCAATATCGGACTTAAAGAT--GAAG-GT
* ** * * ** * * *
1204346 GCCAATGTGCTGATTTAAGGCCAGTGACATTGGGTTTAGGAATGTTAAAGAT
1 GCCAATGTGCTGATTCAAGGCCAGCAATATCGGACTTA--AA-GATGAAGGT
* *
1204398 GCCAATATGCTGATTCAAGGCCAGCAATATCGAACTTAAAGATGAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCAATATCGGACTTAAAGATGAAGGT
* ** *
1204447 GCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGAAAGT
1 GCCAATGTGCTGATTCAAGGCCAGCAATATCGGACTTAAAGATGAAGGT
* * * *
1204496 GCCAATGTGCTGATTCAAGGCCAACGACATCGGACTTTAAGATGGTGAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCAATATCGGAC-TTAA-A-GATGAAGGT
* *
1204548 GCCAATGTGTTGATTCAAGGCCAGCAATATTGGACTT----A--AAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCAATATCGGACTTAAAGATGAAGGT
* *
1204591 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCAATATCGGACTTAAAGATGAAGGT
* * * * * * * *
1204634 GCAAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAGAGATGACAAAGGC
1 GCCAATGTGCTGATTCAAGGCCAGCAATATCGGACTTAAAGATG---AAGGT
* * * * * *
1204686 ACCAATATGCTAATTCAAGGCCAGCGATATTGGA-TT-----TAAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCAATATCGGACTTAAAGATGAAGGT
*
1204729 GCCAATGTGCTGGTTCAAGGCCAGCAA
1 GCCAATGTGCTGATTCAAGGCCAGCAA
1204756 CATTAGGCTT
Statistics
Matches: 375, Mismatches: 70, Indels: 43
0.77 0.14 0.09
Matches are distributed among these distances:
43 105 0.28
46 1 0.00
47 1 0.00
49 80 0.21
50 7 0.02
51 5 0.01
52 169 0.45
53 3 0.01
54 2 0.01
55 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
GCCAATGTGCTGATTCAAGGCCAGCAATATCGGACTTAAAGATGAAGGT
Found at i:1204605 original size:43 final size:43
Alignment explanation
Indices: 1204543--1204753 Score: 235
Period size: 43 Copynumber: 4.7 Consensus size: 43
1204533 TAAGATGGTG
* *
1204543 AAGGTGCCAATGTGTTGATTCAAGGCCAGCAATATTGGACTTA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA
1204586 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * *
1204629 AAGGTGCAAATGTGCTGATTCAAGGCCAACGACATTGGGCTTA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA
* * *
1204672 GAGATGACAAAG-GCACCAATATGCTAATTCAAGGCCAGCGATATTGGATTTA
1 -A-A-G-----GTG--CCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA
*
1204724 AAGGTGCCAATGTGCTGGTTCAAGGCCAGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGC
1204754 AACATTAGGC
Statistics
Matches: 141, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
43 101 0.72
44 2 0.01
45 2 0.01
46 1 0.01
49 1 0.01
50 2 0.01
51 2 0.01
52 30 0.21
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (43 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA
Found at i:1204684 original size:95 final size:95
Alignment explanation
Indices: 1204592--1204768 Score: 282
Period size: 95 Copynumber: 1.9 Consensus size: 95
1204582 CTTAAAGGTG
* *
1204592 CCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAAATGTGCTGATTCAAGGCCA
1 CCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAAATGTGCTGATTCAAGGCCA
* *
1204657 ACGACATTGGGCTTAGAGATGACAAAGGCA
66 ACAACATTAGGCTTAGAGATGACAAAGGCA
* * *
1204687 CCAATATGCTAATTCAAGGCCAGCGATATTGGATTTAAAGGTGCCAATGTGCTGGTTCAAGGCCA
1 CCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAAATGTGCTGATTCAAGGCCA
*
1204752 GCAACATTAGGCTTAGA
66 ACAACATTAGGCTTAGA
1204769 AAAAAATGCC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (95 bp):
CCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCAAATGTGCTGATTCAAGGCCA
ACAACATTAGGCTTAGAGATGACAAAGGCA
Found at i:1204702 original size:138 final size:142
Alignment explanation
Indices: 1204296--1204766 Score: 486
Period size: 138 Copynumber: 3.3 Consensus size: 142
1204286 TGAAGAATGT
** * * *
1204296 CAATGTGCTGATTCATTGCTAGCGACATTAGACTTAAAGATGAGAAGAATGCCAATGTGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGAT--G-AG--TGCAAATGTGCTGATT
* ** * * *
1204361 TAAGGCCAGTGACATTGGGTTTAG-GAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAGCAA
61 CAAGGCCAACGACATTGGGCTTAGAG-ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAA
* *
1204425 TATCGAACTTAAAGATGAAGGTGC
125 TATTGGACTT----A--AAGGTGC
*
1204449 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATG--AGTGCAAATGTGCTGATTCAA
* * * * * *
1204514 GGCCAACGACATCGGACTTTA-AGATGGTGAAGGTGCCAATGTGTTGATTCAAGGCCAGCAATAT
64 GGCCAACGACATTGGGC-TTAGAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATAT
1204578 TGGACTTAAAGGTGC
128 TGGACTTAAAGGTGC
* * *
1204593 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G-GTGCAAATGTGCTGATTCAAGG
1 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGAGTGCAAATGTGCTGATTCAAGG
* ** * *
1204654 CCAACGACATTGGGCTTAGAGATGACAAAGGCACCAATATGCTAATTCAAGGCCAGCGATATTGG
66 CCAACGACATTGGGCTTAGAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
*
1204719 ATTTAAAGGTGC
131 ACTTAAAGGTGC
* *
1204731 CAATGTGCTGGTTCAAGGCCAGCAACATTAGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTA
1204767 GAAAAAAATG
Statistics
Matches: 275, Mismatches: 38, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
137 3 0.01
138 112 0.41
141 1 0.00
142 1 0.00
143 2 0.01
144 39 0.14
146 1 0.00
150 71 0.26
151 5 0.02
152 3 0.01
153 37 0.13
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (142 bp):
CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGAGTGCAAATGTGCTGATTCAAGG
CCAACGACATTGGGCTTAGAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
ACTTAAAGGTGC
Found at i:1204811 original size:32 final size:32
Alignment explanation
Indices: 1204775--1204861 Score: 115
Period size: 32 Copynumber: 2.7 Consensus size: 32
1204765 TAGAAAAAAA
* *
1204775 TGCCACGAACTTGTGTGGGCTTTTGAA-AGGGT
1 TGCCACGAACTTGTGTGGGCTTTT-AAGAAGAT
1204807 TGCCACCG-ACTTGTGTGGGCTTTTAAGAAGAT
1 TGCCA-CGAACTTGTGTGGGCTTTTAAGAAGAT
*
1204839 TGCCACCAACTTGTGTGGGCTTT
1 TGCCACGAACTTGTGTGGGCTTT
1204862 AAAAATGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
31 3 0.06
32 44 0.90
33 2 0.04
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (32 bp):
TGCCACGAACTTGTGTGGGCTTTTAAGAAGAT
Found at i:1205215 original size:68 final size:66
Alignment explanation
Indices: 1205100--1205726 Score: 553
Period size: 68 Copynumber: 9.5 Consensus size: 66
1205090 TAGGCTTTTG
* * * * * *
1205100 AAAAGAAAAAGGTGCCACGGAGTTGTGAACTTAAAATGAACAA-GGTGCCAAGGAGTTGTGGACT
1 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAAGGAAAAAGGGTGCCACGGAGTTGTGGACT
1205164 T
66 T
* * * *
1205165 AAAAGGAACAAAGTGCCACGGAGTTGGGGATTTTTAGAGGAAAAAGGGTGCCACGGAGTTGTGGA
1 AAAAGGAA-AAGGTGCCACGGAGTTGTGGA-CTTTAAAGGAAAAAGGGTGCCACGGAGTTGTGGA
1205230 CTT
64 CTT
** ** *
1205233 AAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTTGGAGGAAAAAGGGTGCCATAGAGTTGTGGG
1 AAAAGGAA-AAGGTGCCACGGAGTTGTGGAC-TTTAAAGGAAAAAGGGTGCCACGGAGTTGTGGA
1205298 CTT
64 CTT
** * ** **
1205301 AAAAGGAAAAAGGGTGCCATAGAGTTGTGGGCTTTTGGAGGAAAAAGGGTGCCACAAAGTTGTGG
1 AAAAGG-AAAA-GGTGCCACGGAGTTGTGGAC-TTTAAAGGAAAAAGGGTGCCACGGAGTTGTGG
*
1205366 GCTT
63 ACTT
* * * * * *
1205370 AAAAGGACAAAGGGTGCCATGGAGTTATGGGCTTTAATGG-AAAATGGTGCCACGGAGTTGTGGG
1 AAAAGGA-AAA-GGTGCCACGGAGTTGTGGACTTTAAAGGAAAAAGGGTGCCACGGAGTTGTGGA
1205434 CTTT
64 C-TT
* * * *
1205438 AAAA-G-AAAGGACGCCATGGAGTTGTGGACTTAAAAGG-AAAA-GGTGCCACGGAGTTATGGAC
1 AAAAGGAAAAGG-TGCCACGGAGTTGTGGACTTTAAAGGAAAAAGGGTGCCACGGAGTTGTGGAC
1205499 TT
65 TT
** * *
1205501 AAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TTAAAAAAAAGAAGGGTGCCACGAAGTTATGGA
1 AAAAGGAA-AAGGTGCCACGGAGTTGTGGACTTTAAAGGAAA-AAGGGTGCCACGGAGTTGTGGA
1205565 CTT
64 CTT
* * * * *
1205568 AAAAGGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAA--GTGACATGGAGTTGTGAACT
1 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAAGGAAAAAGGGTGCCACGGAGTTGTGGACT
1205631 T
66 T
* * * * ** *
1205632 AAAAGGAAAAGGTGTCACGGAGTTATGGAC-TTAGA-G-AAAA-GATGCCACTAAATTGTGGACT
1 AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAAGGAAAAAGGGTGCCACGGAGTTGTGGACT
1205693 T
66 T
** *
1205694 GGAA-GAAGAAGGTTGCCACTGAGTTGTGGACTT
1 AAAAGGAA-AAGG-TGCCACGGAGTTGTGGACTT
1205727 GGAAAAGAGA
Statistics
Matches: 473, Mismatches: 69, Indels: 41
0.81 0.12 0.07
Matches are distributed among these distances:
61 7 0.01
62 21 0.04
63 24 0.05
64 69 0.15
65 54 0.11
66 47 0.10
67 68 0.14
68 101 0.21
69 82 0.17
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (66 bp):
AAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAAGGAAAAAGGGTGCCACGGAGTTGTGGACT
T
Found at i:1205313 original size:34 final size:33
Alignment explanation
Indices: 1205100--1205726 Score: 544
Period size: 33 Copynumber: 19.0 Consensus size: 33
1205090 TAGGCTTTTG
*
1205100 AAAA-GAAAAAGGTGCCACGGAGTTGTGAACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
1205132 AAAATGAACAAGGTGCCAAGGAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* *
1205165 AAAAGGAACAAA-GTGCCACGGAGTTGGGGATTTT
1 AAAAGGAA-AAAGGTGCCACGGAGTTGTGGA-CTT
* *
1205199 TAGAGGAAAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
*
1205233 AAAAGGAACAAGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGAC-TT
*** ** *
1205267 TGGAGGAAAAAGGGTGCCATAGAGTTGTGGGCTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
** *
1205301 AAAAGGAAAAAGGGTGCCATAGAGTTGTGGGCTTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGAC-TT
*** ** *
1205336 TGGAGGAAAAAGGGTGCCACAAAGTTGTGGGCTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
* * * *
1205370 AAAAGGACAAAGGGTGCCATGGAGTTATGGGCTT
1 AAAAGGA-AAAAGGTGCCACGGAGTTGTGGACTT
* * * *
1205404 TAATGGAAAATGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGAC-TT
* *
1205438 AAAA-G--AAAGGACGCCATGGAGTTGTGGACTT
1 AAAAGGAAAAAGG-TGCCACGGAGTTGTGGACTT
*
1205469 AAAAGG-AAAAGGTGCCACGGAGTTATGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
*
1205501 AAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
1205534 AAAA-AAAAGAAGGGTGCCACGAAGTTATGGACTT
1 AAAAGGAAA-AA-GGTGCCACGGAGTTGTGGACTT
*
1205568 AAAAGG-AAAAGGTGCCACAGAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
1205600 AAAAGGAAAAA-GTGACATGGAGTTGTGAACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* *
1205632 AAAAGG-AAAAGGTGTCACGGAGTTATGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* * ** *
1205664 -AGA-G-AAAAGATGCCACTAAATTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
** * *
1205694 GGAA-GAAGAAGGTTGCCACTGAGTTGTGGACTT
1 AAAAGGAAAAAGG-TGCCACGGAGTTGTGGACTT
1205727 GGAAAAGAGA
Statistics
Matches: 490, Mismatches: 83, Indels: 43
0.80 0.13 0.07
Matches are distributed among these distances:
30 21 0.04
31 18 0.04
32 114 0.23
33 152 0.31
34 119 0.24
35 66 0.13
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (33 bp):
AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:1205691 original size:30 final size:30
Alignment explanation
Indices: 1205657--1205743 Score: 95
Period size: 33 Copynumber: 2.8 Consensus size: 30
1205647 CACGGAGTTA
*
1205657 TGGACTTAGAGAAAAGATGCCACTAAATTG
1 TGGACTTGGAGAAAAGATGCCACTAAATTG
* * *
1205687 TGGACTTGGAAGAAGAAGGTTGCCACTGAGTTG
1 TGGACTTGG-AGAA-AA-GATGCCACTAAATTG
1205720 TGGACTTGGA-AAAGAGATGCCACT
1 TGGACTTGGAGAAA-AGATGCCACT
1205744 GAGTCATGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
30 17 0.35
31 7 0.15
32 3 0.06
33 21 0.44
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (30 bp):
TGGACTTGGAGAAAAGATGCCACTAAATTG
Found at i:1205888 original size:95 final size:94
Alignment explanation
Indices: 1205789--1206162 Score: 278
Period size: 95 Copynumber: 4.0 Consensus size: 94
1205779 GGGGTTTGAA
** * *
1205789 AAGAAAAAAG-TGCCACAAAGTGGTAGACTTGGAAGAAAAAAGGTGCCATTGAGTCGTGGAC-TT
1 AAGAAAAAAGATGCCACAAAGTCATAGACTT---AGAAAAAAGATGCCAATGAGTCGTGGACTTT
* *
1205852 GGAGAAGAGACGCCACTGAGTCGTGGACTTGG
63 GAAGAAGAAACGCCACTGAGTCGTGGACTTGG
* * *
1205884 AAGAAAAAAGGATGCCACTAAGTCATGGACTTAGAAAAGAGATGCCAATGAGTCGTGGACTTTGA
1 AAGAAAAAA-GATGCCACAAAGTCATAGACTTAGAAAAAAGATGCCAATGAGTCGTGGACTTTGA
* * *
1205949 AGAAGAAATGCCATTGAGTCGTGGACTTTG
65 AGAAGAAACGCCACTGAGTCGTGGACTTGG
* ** * * * * *
1205979 AAGAAAAAAGGATGCTACTGAGTCATGGACTTAGAAAAAAGGATACCACTGAGTTGTAGA-TTTA
1 AAGAAAAAA-GATGCCACAAAGTCATAGACTTAGAAAAAA-GATGCCAATGAGTCGTGGACTTT-
* * * *
1206043 GAA-AA-ATGATGCCACTAAGTCGTGGACTTTG
63 GAAGAAGA-AACGCCACTGAGTCGTGGACTTGG
* * * * * ** * * * *
1206074 AAG-AAGAA-ATGCCACTAAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTTGTGGACTTTGGA
1 AAGAAAAAAGATGCCACAAAGTCATAGACTTAGAAAAAAGATGCCAATGAGTCGTGGACTTTGAA
* * *
1206137 -AAGAAATGACATTGAGTCGTGGACTT
66 GAAGAAACGCCACTGAGTCGTGGACTT
1206163 TGAGAAATGA
Statistics
Matches: 234, Mismatches: 37, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
91 39 0.17
92 26 0.11
94 30 0.13
95 104 0.44
96 19 0.08
97 16 0.07
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.22
Consensus pattern (94 bp):
AAGAAAAAAGATGCCACAAAGTCATAGACTTAGAAAAAAGATGCCAATGAGTCGTGGACTTTGAA
GAAGAAACGCCACTGAGTCGTGGACTTGG
Found at i:1205960 original size:31 final size:31
Alignment explanation
Indices: 1205686--1206195 Score: 301
Period size: 30 Copynumber: 16.3 Consensus size: 31
1205676 CCACTAAATT
* * *
1205686 GTGGACTTGGAAGAAGAAGGTTGCCACTGAGTT
1 GTGGACTTTGAAGAAGAA--ATGCCACTGAGTC
* *
1205719 GTGGACTTGGAA-AAGAGATGCCACTGAGTC
1 GTGGACTTTGAAGAAGAAATGCCACTGAGTC
* ** *
1205749 ATGGACTTT--AGAAG-GGTGCCACAGAGTC
1 GTGGACTTTGAAGAAGAAATGCCACTGAGTC
* ** * ** *
1205777 ATGGGGTTTGAAAAGAAAAAAGTGCCACAAAGTG
1 GTGGACTTTG--AAGAAGAAA-TGCCACTGAGTC
* * * *
1205811 GTAGACTTGGAAGAAAAAAGGTGCCATTGAGTC
1 GTGGACTTTGAAGAAGAAA--TGCCACTGAGTC
* * *
1205844 GTGGAC-TTGGAGAAGAGACGCCACTGAGTC
1 GTGGACTTTGAAGAAGAAATGCCACTGAGTC
* * *
1205874 GTGGACTTGGAAGAAAAAAGGATGCCACTAAGTC
1 GTGGACTTTGAAG-AAGAA--ATGCCACTGAGTC
* * * *
1205908 ATGGACTTAGAA-AAGAGATGCCAATGAGTC
1 GTGGACTTTGAAGAAGAAATGCCACTGAGTC
*
1205938 GTGGACTTTGAAGAAGAAATGCCATTGAGTC
1 GTGGACTTTGAAGAAGAAATGCCACTGAGTC
* *
1205969 GTGGACTTTGAAGAAAAAAGGATGCTACTGAGTC
1 GTGGACTTTGAAG-AAGAA--ATGCCACTGAGTC
* * * *
1206003 ATGGACTTAGAA-AA-AAGGATACCACTGAGTT
1 GTGGACTTTGAAGAAGAA--ATGCCACTGAGTC
* * *
1206034 GTAGA-TTTAGAA-AA-ATGATGCCACTAAGTC
1 GTGGACTTT-GAAGAAGA-AATGCCACTGAGTC
*
1206064 GTGGACTTTGAAGAAGAAATGCCACTAAGTC
1 GTGGACTTTGAAGAAGAAATGCCACTGAGTC
* * *
1206095 GTGGACTTTG-GGAAGAGATGCCACTGAGTT
1 GTGGACTTTGAAGAAGAAATGCCACTGAGTC
* * *
1206125 GTGGACTTTGGA-AAGAAATGACATTGAGTC
1 GTGGACTTTGAAGAAGAAATGCCACTGAGTC
* *
1206155 GTGGACTTTG-AGAAATGAGATGCTACTGAGTC
1 GTGGACTTTGAAG-AA-GAAATGCCACTGAGTC
*
1206187 ATGGACTTT
1 GTGGACTTT
1206196 AGGAAGGGTG
Statistics
Matches: 375, Mismatches: 77, Indels: 51
0.75 0.15 0.10
Matches are distributed among these distances:
28 20 0.05
29 4 0.01
30 124 0.33
31 86 0.23
32 58 0.15
33 26 0.07
34 57 0.15
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.23
Consensus pattern (31 bp):
GTGGACTTTGAAGAAGAAATGCCACTGAGTC
Found at i:1206044 original size:126 final size:124
Alignment explanation
Indices: 1205814--1206132 Score: 340
Period size: 126 Copynumber: 2.5 Consensus size: 124
1205804 CAAAGTGGTA
* * * * *
1205814 GACTTGGAAGAAAAAAGGTGCCATTGAGTCGTGGAC-TTGGAGAAGAGACGCCACTGAGTCGTGG
1 GACTTTGAAGAAGAAA--TGCCATTGAGTCGTGGACTTTGGAAAAAAGACGCCACTGAGTCATGG
* * *
1205878 ACTTGGAAGAAAAAAGGATGCCACTAAGTCATGGACTTAGAAAAGA-GATGCCAATGAGTCGTG
64 ACTT-G-AGAAAAAAGGATACCACTAAGTCATAGACTTAGAAAA-ATGATGCCAATAAGTCGTG
* *
1205941 GACTTTGAAGAAGAAATGCCATTGAGTCGTGGACTTTGAAGAAAAAAGGATGCTACTGAGTCATG
1 GACTTTGAAGAAGAAATGCCATTGAGTCGTGGACTTTG--GAAAAAA-GACGCCACTGAGTCATG
* ** * *
1206006 GACTT-AGAAAAAAGGATACCACTGAGTTGTAGATTTAGAAAAATGATGCCACTAAGTCGTG
63 GACTTGAGAAAAAAGGATACCACTAAGTCATAGACTTAGAAAAATGATGCCAATAAGTCGTG
* * * * * **
1206067 GACTTTGAAGAAGAAATGCCACTAAGTCGTGGACTTTGG-GAAGAGATGCCACTGAGTTGTGGAC
1 GACTTTGAAGAAGAAATGCCATTGAGTCGTGGACTTTGGAAAAAAGACGCCACTGAGTCATGGAC
1206131 TT
66 TT
1206133 TGGAAAGAAA
Statistics
Matches: 165, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
122 19 0.12
123 3 0.02
124 1 0.01
125 19 0.12
126 85 0.52
127 14 0.08
128 5 0.03
129 19 0.12
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (124 bp):
GACTTTGAAGAAGAAATGCCATTGAGTCGTGGACTTTGGAAAAAAGACGCCACTGAGTCATGGAC
TTGAGAAAAAAGGATACCACTAAGTCATAGACTTAGAAAAATGATGCCAATAAGTCGTG
Found at i:1206230 original size:92 final size:91
Alignment explanation
Indices: 1205868--1206230 Score: 261
Period size: 95 Copynumber: 3.9 Consensus size: 91
1205858 GAGACGCCAC
* * * *
1205868 TGAGTCGTGGACTTGGAAGAAAAAAGGATGCCACTAAGTCATGGAC-TTAGAAAAGAGATGCCAA
1 TGAGTCGTGGACTTTGAAG-AAGAA--ATGCCACTAAGTCATGGACTTTAG-GAAGAGATGCCAC
* * * *
1205932 TGAGTCGTGGACTTTGAAGAAGAAATGCCAT
62 GGAGTCATGGACTTTGGA-AAGAAATGACAT
* * * * * *
1205963 TGAGTCGTGGACTTTGAAGAAAAAAGGATGCTACTGAGTCATGGAC-TTAGAAAAAAGGATACCA
1 TGAGTCGTGGACTTTGAAG-AAGAA--ATGCCACTAAGTCATGGACTTTAG-GAAGA-GATGCCA
* ** * * * *
1206027 CTGAGTTGTAGA-TTTAGAAA-AATGATGCCAC
61 CGGAGTCATGGACTTTGGAAAGAA--ATGACAT
* * * *
1206058 TAAGTCGTGGACTTTGAAGAAGAAATGCCACTAAGTCGTGGACTTTGGGAAGAGATGCCACTGAG
1 TGAGTCGTGGACTTTGAAGAAGAAATGCCACTAAGTCATGGACTTTAGGAAGAGATGCCACGGAG
**
1206123 TTGTGGACTTTGGAAAGAAATGACAT
66 TCATGGACTTTGGAAAGAAATGACAT
* * * *
1206149 TGAGTCGTGGACTTTG-AGAAATGAGATGCTACTGAGTCATGGACTTTAGGAAG-GGTGCCACGG
1 TGAGTCGTGGACTTTGAAG-AA-GAAATGCCACTAAGTCATGGACTTTAGGAAGAGATGCCACGG
*
1206212 AGTCATGGGCTTTTGGAAA
64 AGTCATGGAC-TTTGGAAA
1206231 AAGAGTTTTG
Statistics
Matches: 224, Mismatches: 35, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
90 2 0.01
91 54 0.24
92 60 0.27
93 7 0.03
94 6 0.03
95 80 0.36
96 15 0.07
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (91 bp):
TGAGTCGTGGACTTTGAAGAAGAAATGCCACTAAGTCATGGACTTTAGGAAGAGATGCCACGGAG
TCATGGACTTTGGAAAGAAATGACAT
Found at i:1207459 original size:14 final size:14
Alignment explanation
Indices: 1207434--1207480 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
1207424 TTTAGAGCTT
1207434 TTTTGCTTTTTTTTG
1 TTTTG-TTTTTTTTG
1207449 TTTTGTTTTTTTTCG
1 TTTTGTTTTTTTT-G
*
1207464 TTTCG-TTTTTTTG
1 TTTTGTTTTTTTTG
1207477 TTTT
1 TTTT
1207481 TTTATCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 4 0.14
14 15 0.52
15 10 0.34
ACGTcount: A:0.00, C:0.06, G:0.13, T:0.81
Consensus pattern (14 bp):
TTTTGTTTTTTTTG
Found at i:1208967 original size:162 final size:162
Alignment explanation
Indices: 1208697--1209015 Score: 593
Period size: 162 Copynumber: 2.0 Consensus size: 162
1208687 CGTACACCGG
1208697 CTGGGGAGGTATCATGACTAGGCTTGGGTAAGGTGCACTTAGGTAATAAGGACCGGGTGCTCAAT
1 CTGGGGAGGTATCATGACTAGGCTTGGGTAAGGTGCACTTAGGTAATAAGGACCGGGTGCTCAAT
* *
1208762 GGTGTCTTGGTCGTGTCGAGTTGGCATAACTGATGGTATTGGCCTCTCCCTCTTTCTTTCTAGCA
66 GGTGTCTTGGTCATGTCGAGTTGGCATAACTGATGGCATTGGCCTCTCCCTCTTTCTTTCTAGCA
1208827 AATGCAGGCTTCTTGCTCAATTTGGATATCGA
131 AATGCAGGCTTCTTGCTCAATTTGGATATCGA
*
1208859 CTGGGGAGGTATCATGACTAGGCTTGGGTAAGGTGCACTTAGGTAATAAGGACTGGGTGCTCAAT
1 CTGGGGAGGTATCATGACTAGGCTTGGGTAAGGTGCACTTAGGTAATAAGGACCGGGTGCTCAAT
*
1208924 GGTGTCTTGGTCATGTCGGGTTGGCATAACTGATGGCATTGGCCTCTCCCTCTTTCTTTCTAGCA
66 GGTGTCTTGGTCATGTCGAGTTGGCATAACTGATGGCATTGGCCTCTCCCTCTTTCTTTCTAGCA
*
1208989 AATGCAGGCTTTTTGCTCAATTTGGAT
131 AATGCAGGCTTCTTGCTCAATTTGGAT
1209016 GACTCTCTCA
Statistics
Matches: 152, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
162 152 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (162 bp):
CTGGGGAGGTATCATGACTAGGCTTGGGTAAGGTGCACTTAGGTAATAAGGACCGGGTGCTCAAT
GGTGTCTTGGTCATGTCGAGTTGGCATAACTGATGGCATTGGCCTCTCCCTCTTTCTTTCTAGCA
AATGCAGGCTTCTTGCTCAATTTGGATATCGA
Found at i:1212278 original size:49 final size:49
Alignment explanation
Indices: 1212196--1212738 Score: 648
Period size: 49 Copynumber: 10.9 Consensus size: 49
1212186 TATGTGGGGA
* *
1212196 CTTTGAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCAT
1 CTTT-AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
* * * *
1212246 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
*
1212295 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CAT
* * * *
1212347 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
* *
1212396 CTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
* * * *
1212445 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
*
1212494 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
* *
1212543 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
*
1212586 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCTAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTTC-AT
* * ** *
1212638 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
* * * * *
1212693 CTTTAAGCCCAATATTGTTGGCCATGAATCAACATATTGGCATCTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTT
1212739 TATCACTTTT
Statistics
Matches: 421, Mismatches: 54, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
43 38 0.09
45 3 0.01
49 252 0.60
50 10 0.02
51 2 0.00
52 77 0.18
54 1 0.00
55 36 0.09
56 2 0.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (49 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
Found at i:1212511 original size:98 final size:98
Alignment explanation
Indices: 1212196--1212738 Score: 783
Period size: 98 Copynumber: 5.5 Consensus size: 98
1212186 TATGTGGGGA
*
1212196 CTTTGAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1212261 AGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
65 AGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
* *
1212295 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAAT
1212360 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
63 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
*
1212396 CTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1212461 GCTGGCCTTGACTCAGCACATTGGCACCTTCAT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCAT
1212494 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
1212559 GCTGGCCTTGAATCAGCACATTGGCA----C--
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCAT
* * *
1212586 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCTATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTTC-ATCTTTAAGTCCAAT
* * *
1212651 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
63 GTAGCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCAT
* * * * *
1212693 CTTTAAGCCCAATATTGTTGGCCATGAATCAACATATTGGCATCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1212739 TATCACTTTT
Statistics
Matches: 407, Mismatches: 19, Indels: 30
0.89 0.04 0.07
Matches are distributed among these distances:
92 39 0.10
94 7 0.02
95 41 0.10
98 177 0.43
99 7 0.02
100 3 0.01
101 92 0.23
105 6 0.01
107 35 0.09
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (98 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCACCTTCAT
Found at i:1212615 original size:92 final size:94
Alignment explanation
Indices: 1212494--1212672 Score: 308
Period size: 92 Copynumber: 1.9 Consensus size: 94
1212484 GCACCTTCAT
*
1212494 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG-CATCTTC-ATCTTTAAGTCCAATG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCTATCTTTAAGTCCAATG
1212557 TAGCTGGCCTTGAATCAGCACATTGGCAC
66 TAGCTGGCCTTGAATCAGCACATTGGCAC
* *
1212586 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCTATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG-ACATCTTCTATCTTTAAGTCCAAT
1212651 GTAGCTGGCCTTGAATCAGCAC
65 GTAGCTGGCCTTGAATCAGCAC
1212673 GTTGACATCC
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
92 39 0.48
94 6 0.07
95 36 0.44
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (94 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCTATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1212695 original size:199 final size:193
Alignment explanation
Indices: 1212195--1212937 Score: 811
Period size: 199 Copynumber: 3.7 Consensus size: 193
1212185 CTATGTGGGG
1212195 ACTTTGAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 ACTTT-AAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1212260 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
* *
1212325 AGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
130 AGCATATTGGCA--TCTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-
1212390 CTTC
192 C--C
1212394 ATCTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 A-CTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
*
1212459 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
1212524 AGCATATTGGCATCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
130 AGCATATTGGCATCTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
1212586 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCTATCTTTAAGTTCAA
1 ACTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGG--CATCTTC-ATCTTTAAGTCCAA
* * * * * *
1212650 TGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATTGTTGGC
63 TGTAGCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCATCTTTAAGTCCAATATAGCTGGC
* * * *
1212715 CATGAATCAACATATTGGCATCTTTATCACTTTTTTCATCATCATTTTTAAGTCCAATATCGCTG
122 CTTGAATCAGCATATTGG---C---AT--C----TTC--CATC---TTTAAGTCCAATGTAGCTG
*
1212780 GCCTTGAATCAGCATATTGGCATCTTC
170 GCCTTGAATCAGCACATTGGCA-C--C
* * * * *
1212807 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 A-CTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
* * * * *
1212866 TAGCTGGCCTTGAATCAGCATATTGGCACATTTTCTATCTTTAAGTTCAATGTAGCTGGCCTTGA
65 TAGCTGGCCTTGACTCAGCACATTGGCAC--CTTC-ATCTTTAAGTCCAATATAGCTGGCCTTGA
1212931 ATCAGCA
127 ATCAGCA
1212938 CGTTGACATC
Statistics
Matches: 474, Mismatches: 33, Indels: 62
0.83 0.06 0.11
Matches are distributed among these distances:
190 38 0.08
192 7 0.01
193 40 0.08
194 2 0.00
196 44 0.09
197 3 0.01
198 1 0.00
199 175 0.37
200 4 0.01
202 1 0.00
205 2 0.00
207 1 0.00
210 2 0.00
211 32 0.07
213 1 0.00
214 41 0.09
217 39 0.08
221 3 0.01
223 38 0.08
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (193 bp):
ACTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
GCATATTGGCATCTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:1212829 original size:49 final size:49
Alignment explanation
Indices: 1212751--1213004 Score: 241
Period size: 49 Copynumber: 5.1 Consensus size: 49
1212741 TCACTTTTTT
* * *
1212751 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* *
1212800 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1212849 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* * * ** *
1212892 CACATTTTCTATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGA
1 --CATCTTC-ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* * * * *
1212944 CATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGG
1 CAT-C----T-TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1212999 CATCTT
1 CATCTT
1213005 TATCACTTTT
Statistics
Matches: 167, Mismatches: 23, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
43 38 0.23
45 3 0.02
49 48 0.29
50 4 0.02
52 35 0.21
54 1 0.01
55 36 0.22
56 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (49 bp):
CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
Found at i:1212870 original size:43 final size:44
Alignment explanation
Indices: 1212761--1212895 Score: 191
Period size: 43 Copynumber: 3.0 Consensus size: 44
1212751 CATCATCATT
*
1212761 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* *
1212810 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
1212853 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
1212896 TTTTCTATCT
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
43 41 0.51
45 1 0.01
49 38 0.47
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
Found at i:1212922 original size:52 final size:54
Alignment explanation
Indices: 1212852--1213000 Score: 176
Period size: 52 Copynumber: 2.8 Consensus size: 54
1212842 ACATTGGCAC
1212852 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTCT-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
* * ** * *
1212904 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTCTCAT
* * * * *
1212959 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1213001 TCTTTATCAC
Statistics
Matches: 78, Mismatches: 16, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
52 37 0.47
54 7 0.09
55 34 0.44
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
Found at i:1212969 original size:266 final size:266
Alignment explanation
Indices: 1212490--1213109 Score: 1204
Period size: 266 Copynumber: 2.3 Consensus size: 266
1212480 ATTGGCACCT
*
1212490 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
1 TCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
1212555 TGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
66 TGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
1212620 TATTGGCACATTTTCTATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTT
131 TATTGGCACATTTTCTATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTT
*
1212685 TTTCTCATCTTTAAGCCCAATATTGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTT
196 TTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTT
1212750 TCATCA
261 TCATCA
1212756 TCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
1 TCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
1212821 TGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
66 TGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
1212886 TATTGGCACATTTTCTATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTT
131 TATTGGCACATTTTCTATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTT
1212951 TTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTT
196 TTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTT
1213016 TCATCA
261 TCATCA
* *
1213022 TCATTTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAA
1 TCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
1213087 TGTAGCTGGCCTTGAATCAGCAC
66 TGTAGCTGGCCTTGAATCAGCAC
1213110 GTTGACATCC
Statistics
Matches: 350, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
266 350 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (266 bp):
TCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
TGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
TATTGGCACATTTTCTATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTT
TTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTT
TCATCA
Found at i:1213142 original size:171 final size:171
Alignment explanation
Indices: 1212852--1213246 Score: 682
Period size: 171 Copynumber: 2.3 Consensus size: 171
1212842 ACATTGGCAC
*
1212852 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCTATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTTC-ATCTTTAAGTTCAAT
1212917 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
*
1212982 ATGAATCAACATATTGGCATCTTTATCACTTTTTTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* * *
1213026 TTTTAAGTCCAATATCGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
1213091 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
*
1213156 AATCAACATATTGGCATCTTTATCACTTTTCTCATCCTCAT
131 AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
1213197 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1213247 ATCTCTAAAA
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
171 167 0.80
172 6 0.03
174 37 0.18
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
Found at i:1213911 original size:13 final size:13
Alignment explanation
Indices: 1213893--1213917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1213883 ATTACTCAAA
1213893 TGTATCGATACAT
1 TGTATCGATACAT
1213906 TGTATCGATACA
1 TGTATCGATACA
1213918 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:1214030 original size:52 final size:52
Alignment explanation
Indices: 1213926--1214055 Score: 183
Period size: 52 Copynumber: 2.5 Consensus size: 52
1213916 CACTGATCTT
* *
1213926 TGTATCGATACATGCAGGC-AATTTGCCCAAATGTATCGATACATTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAAATGTATCGATACATATTAAAA
* *
1213977 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATTGATACACTATT-AAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAAATGTATCGATACA-TATTAAAA
* *
1214029 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
1214056 ATATTTCGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
51 19 0.27
52 49 0.69
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAAATGTATCGATACATATTAAAA
Found at i:1215280 original size:33 final size:33
Alignment explanation
Indices: 1215243--1215309 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1215233 TTCAACGATT
1215243 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1215276 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1215309 T
1 T
1215310 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1215281 original size:13 final size:13
Alignment explanation
Indices: 1215263--1215287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1215253 CATAAAATGT
1215263 TGTATCGATACAA
1 TGTATCGATACAA
1215276 TGTATCGATACA
1 TGTATCGATACA
1215288 TATTTTTTTG
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:1215347 original size:13 final size:13
Alignment explanation
Indices: 1215329--1215353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1215319 TGCCAAAAAA
1215329 TGTATCGATACAT
1 TGTATCGATACAT
1215342 TGTATCGATACA
1 TGTATCGATACA
1215354 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:1215455 original size:52 final size:52
Alignment explanation
Indices: 1215362--1215491 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
1215352 CACTGATCTT
* *
1215362 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
1215413 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
1215465 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
1215492 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:1216716 original size:33 final size:33
Alignment explanation
Indices: 1216679--1216745 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1216669 TTCAACGATT
1216679 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1216712 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1216745 T
1 T
1216746 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1216717 original size:13 final size:13
Alignment explanation
Indices: 1216699--1216723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1216689 CATAAAATGT
1216699 TGTATCGATACAA
1 TGTATCGATACAA
1216712 TGTATCGATACA
1 TGTATCGATACA
1216724 TATTTTTTTG
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:1216804 original size:13 final size:13
Alignment explanation
Indices: 1216786--1216810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1216776 ATTACTCAAA
1216786 TGTATCGATACAT
1 TGTATCGATACAT
1216799 TGTATCGATACA
1 TGTATCGATACA
1216811 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:1216912 original size:52 final size:52
Alignment explanation
Indices: 1216819--1216948 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
1216809 CACTGATCTT
* *
1216819 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
1216870 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
1216922 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
1216949 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:1218173 original size:33 final size:33
Alignment explanation
Indices: 1218136--1218202 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1218126 TTCAACGATT
1218136 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1218169 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1218202 T
1 T
1218203 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1218174 original size:13 final size:13
Alignment explanation
Indices: 1218156--1218180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1218146 CATAAAATGT
1218156 TGTATCGATACAA
1 TGTATCGATACAA
1218169 TGTATCGATACA
1 TGTATCGATACA
1218181 TATTTTTTTG
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:1218261 original size:13 final size:13
Alignment explanation
Indices: 1218243--1218267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1218233 ATTACTCAAA
1218243 TGTATCGATACAT
1 TGTATCGATACAT
1218256 TGTATCGATACA
1 TGTATCGATACA
1218268 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:1218369 original size:52 final size:52
Alignment explanation
Indices: 1218276--1218405 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
1218266 CACTGATCTT
* *
1218276 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
1218327 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
1218379 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
1218406 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:1219631 original size:33 final size:33
Alignment explanation
Indices: 1219594--1219660 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1219584 TTCAACGATT
1219594 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1219627 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1219660 T
1 T
1219661 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1219632 original size:13 final size:13
Alignment explanation
Indices: 1219614--1219638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1219604 CATAAAATGT
1219614 TGTATCGATACAA
1 TGTATCGATACAA
1219627 TGTATCGATACA
1 TGTATCGATACA
1219639 TATTTTTTTG
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:1219719 original size:13 final size:13
Alignment explanation
Indices: 1219701--1219725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1219691 ATTACTCAAA
1219701 TGTATCGATACAT
1 TGTATCGATACAT
1219714 TGTATCGATACA
1 TGTATCGATACA
1219726 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:1219863 original size:52 final size:51
Alignment explanation
Indices: 1219714--1219852 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 51
1219704 ATCGATACAT
*
1219714 TGTATCGATACACTGATCT--TTGTATCGATACATGCAGGCAATTTGCCCAGA
1 TGTATCGATACACT-AT-TAATTGTATCGATACATGCAGGCAATTTTCCCAGA
* *
1219765 TGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTTCCCAGA
1 TGTATCGATACACTATT-AATTGTATCGATACATGCAGGC-AATTTTCCCAGA
1219817 TGTATCGATACACTATTAATTGTATCGATACATGCA
1 TGTATCGATACACTATTAATTGTATCGATACATGCA
1219853 AACAACTTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 1 0.01
51 31 0.40
52 41 0.53
53 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (51 bp):
TGTATCGATACACTATTAATTGTATCGATACATGCAGGCAATTTTCCCAGA
Found at i:1221088 original size:33 final size:33
Alignment explanation
Indices: 1221051--1221117 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1221041 TTCAACGATT
1221051 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1221084 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1221117 T
1 T
1221118 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1221089 original size:13 final size:13
Alignment explanation
Indices: 1221071--1221095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1221061 CATAAAATGT
1221071 TGTATCGATACAA
1 TGTATCGATACAA
1221084 TGTATCGATACA
1 TGTATCGATACA
1221096 TATTTTTTTG
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:1221176 original size:13 final size:13
Alignment explanation
Indices: 1221158--1221182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1221148 ATTACTCAAA
1221158 TGTATCGATACAT
1 TGTATCGATACAT
1221171 TGTATCGATACA
1 TGTATCGATACA
1221183 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:1221284 original size:52 final size:52
Alignment explanation
Indices: 1221191--1221320 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
1221181 CACTGATCTT
* *
1221191 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
1221242 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
1221294 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
1221321 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:1227152 original size:12 final size:11
Alignment explanation
Indices: 1227130--1227205 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1227120 AGAGAAAGAA
*
1227130 GAGAGAGGAGG
1 GAGATAGGAGG
1227141 GATGATAGGAGG
1 GA-GATAGGAGG
*
1227153 AGAGACAGGA--
1 -GAGATAGGAGG
*
1227163 GAGATAGTA--
1 GAGATAGGAGG
1227172 GAGATAGGAGG
1 GAGATAGGAGG
1227183 GATGATAGGAGG
1 GA-GATAGGAGG
*
1227195 AGAGACAGGAG
1 -GAGATAGGAG
1227206 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1227181 original size:42 final size:42
Alignment explanation
Indices: 1227120--1227238 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
1227110 TAGCCCTCAA
* *
1227120 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1227162 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1227204 AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1227239 GAGAGAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.43, C:0.02, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1227222 original size:18 final size:18
Alignment explanation
Indices: 1227195--1227244 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1227185 TGATAGGAGG
*
1227195 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
1227213 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
1227231 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
1227245 AAAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.02, G:0.46, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:1230431 original size:78 final size:79
Alignment explanation
Indices: 1230257--1230431 Score: 185
Period size: 79 Copynumber: 2.2 Consensus size: 79
1230247 ATCGAAACTA
* *** *
1230257 AGTCATTAGGCTTAGGTCCACACCTTTTGTCAAGACTGGGTCCTAGTTTAGTTTAGGTTTCATGT
1 AGTCATTAGGCTTAGGTCCACACCTTTTGTCAAAACAAAGTCCTAGTTTAGATTAGGTTTCA-GT
* **
1230322 TTTTTGTCAAAACCT
65 CTTTCATCAAAACCT
* * * *
1230337 AGTCATTAGACTTAGGTCCAGA-CTTTTTTCAAAACAAAGTCTTAGTTTAGATTAGGTTTC-GTA
1 AGTCATTAGGCTTAGGTCCACACCTTTTGTCAAAACAAAGTCCTAGTTTAGATTAGGTTTCAGT-
*
1230400 CTTTCATCAAAA-TT
65 CTTTCATCAAAACCT
1230414 GAGTCATTAGGCTTAGGT
1 -AGTCATTAGGCTTAGGT
1230432 TTGTATTCGA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
77 3 0.04
78 25 0.32
79 31 0.39
80 20 0.25
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (79 bp):
AGTCATTAGGCTTAGGTCCACACCTTTTGTCAAAACAAAGTCCTAGTTTAGATTAGGTTTCAGTC
TTTCATCAAAACCT
Found at i:1231684 original size:58 final size:58
Alignment explanation
Indices: 1231619--1231814 Score: 202
Period size: 58 Copynumber: 3.4 Consensus size: 58
1231609 TAATAGCCCT
** * *
1231619 TAAAACATATAAAATGACTAAAATGATCCTAAAATTCCTAAAATTGCATAAAAT-TTCC
1 TAAAACATGGAAAATGACTAAAATGA-CCTAAAATGCATAAAATTGCATAAAATATTCC
** * * *
1231677 TAAAACATTAAAAATTACTAAAATAACCCTAAAATGCATAAAATTGCATAAACTATT-C
1 TAAAACATGGAAAATGACTAAAATGA-CCTAAAATGCATAAAATTGCATAAAATATTCC
* * * *
1231735 TAAATCATGGCAAATTACTAAAATGACTTTAAAATGCATAAAATTGCAT-AAATGA-TCC
1 TAAAACATGGAAAATGACTAAAATGAC-CTAAAATGCATAAAATTGCATAAAAT-ATTCC
*
1231793 TAAAACATGGCAAATGACTAAA
1 TAAAACATGGAAAATGACTAAA
1231815 GTAATGCAAA
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
57 5 0.04
58 110 0.94
59 2 0.02
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.28
Consensus pattern (58 bp):
TAAAACATGGAAAATGACTAAAATGACCTAAAATGCATAAAATTGCATAAAATATTCC
Found at i:1231719 original size:29 final size:27
Alignment explanation
Indices: 1231627--1231797 Score: 80
Period size: 29 Copynumber: 5.9 Consensus size: 27
1231617 CTTAAAACAT
*
1231627 ATAAAATGACTAAAATGATCCTAAAATTC
1 ATAAAATTACTAAAAT-ATCCTAAAA-TC
* * *
1231656 CTAAAATTGCATAAAATTTCCTAAAA-C
1 ATAAAATTAC-TAAAATATCCTAAAATC
*
1231683 ATTAAAAATTACTAAAATAACCCTAAAATGC
1 A-T-AAAATTACTAAAAT-ATCCTAAAAT-C
* * *
1231714 ATAAAATTGCATAAACTATTCT-AAATC
1 ATAAAATTAC-TAAAATATCCTAAAATC
* *
1231741 ATGGCAAATTACTAAAATGA-CTTTAAAATGC
1 AT--AAAATTACTAAAAT-ATC-CTAAAAT-C
*
1231772 ATAAAATTGC-ATAAATGATCCTAAAA
1 ATAAAATTACTA-AAAT-ATCCTAAAA
1231798 CATGGCAAAT
Statistics
Matches: 107, Mismatches: 20, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
27 4 0.04
28 17 0.16
29 64 0.60
30 17 0.16
31 5 0.05
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (27 bp):
ATAAAATTACTAAAATATCCTAAAATC
Found at i:1232697 original size:14 final size:13
Alignment explanation
Indices: 1232674--1232728 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 13
1232664 CACTTCCTAA
1232674 TTTT-TTCTTTCT
1 TTTTCTTCTTTCT
1232686 TTTTCATTC-TT-T
1 TTTTC-TTCTTTCT
*
1232698 TTTTCTTTTTTCT
1 TTTTCTTCTTTCT
*
1232711 TTTTCTTTTTTTCT
1 TTTTC-TTCTTTCT
1232725 TTTT
1 TTTT
1232729 TTTTTCTACT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 2 0.05
12 12 0.32
13 8 0.22
14 15 0.41
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTTCTTTCT
Done.