Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 227 of 325
Found at i:71560361 original size:16 final size:16
Alignment explanation
Indices: 71560326--71560362 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
71560316 ATTACATATC
* *
71560326 TATTCTATTACAAGTC
1 TATTCTATTACAACTA
71560342 TATTCTATTACAACTA
1 TATTCTATTACAACTA
71560358 TATTC
1 TATTC
71560363 AATCTATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (16 bp):
TATTCTATTACAACTA
Found at i:71565137 original size:17 final size:17
Alignment explanation
Indices: 71565101--71565136 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
71565091 AATATTAAAA
*
71565101 TTTAATTATTTTTCATT
1 TTTAATTATTTATCATT
71565118 TTTAA-TATTTATCATT
1 TTTAATTATTTATCATT
71565134 TTT
1 TTT
71565137 TGCCACATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTAATTATTTATCATT
Found at i:71565773 original size:18 final size:18
Alignment explanation
Indices: 71565752--71565797 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
71565742 ATAAAAAAAC
71565752 CATTAAAAATCAATTAAA
1 CATTAAAAATCAATTAAA
* *
71565770 CATTAAAACTTAATTAAA
1 CATTAAAAATCAATTAAA
71565788 -ATTAACAAAT
1 CATTAA-AAAT
71565798 TCATTCGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (18 bp):
CATTAAAAATCAATTAAA
Found at i:71574683 original size:39 final size:39
Alignment explanation
Indices: 71574629--71574900 Score: 445
Period size: 39 Copynumber: 7.0 Consensus size: 39
71574619 ATTATATTAT
* * *
71574629 CAGCACAAAGCCTGCGGGACTTTAACCTGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
71574668 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
71574707 CAGCATGAAGCCTGCGGGACTTTAGTCAGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
71574746 CAGCACGAAGCCTGCGGGACTTTGGCCCGAATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
71574785 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
71574824 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
71574863 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
71574901 TCAGTGTCTT
Statistics
Matches: 216, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 216 1.00
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:71592471 original size:19 final size:18
Alignment explanation
Indices: 71592443--71592481 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
71592433 TGAAATAACT
**
71592443 AAAAATAAATTTAAATAA
1 AAAAATAAATAAAAATAA
71592461 AAAAATGAAATAAAAATAA
1 AAAAAT-AAATAAAAATAA
71592480 AA
1 AA
71592482 TGAATTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AAAAATAAATAAAAATAA
Found at i:71594644 original size:40 final size:39
Alignment explanation
Indices: 71594567--71594780 Score: 313
Period size: 40 Copynumber: 5.4 Consensus size: 39
71594557 AAACCAAGTA
* *
71594567 CCTTCGGGATTTAGCCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
*
71594606 CCTTCGGGACTTAGCTCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGC-CGGATATAGTAACTCGCACAAATG
*
71594646 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
*
71594686 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
* *
71594726 CCTTCGGGACTTAGCCTAGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCC-GGATATAGTAACTCGCACAAATG
71594766 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
71594781 TCGGTTATCG
Statistics
Matches: 161, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 17 0.11
40 143 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:71599182 original size:28 final size:28
Alignment explanation
Indices: 71599142--71599198 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
71599132 TAGTCATACA
*
71599142 TAGTATGTGGAGCAGGATTTTGATTAGC
1 TAGTACGTGGAGCAGGATTTTGATTAGC
71599170 TAGTACGTGGAGCAGGATTTTGATTAGC
1 TAGTACGTGGAGCAGGATTTTGATTAGC
71599198 T
1 T
71599199 GCAATTGCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.09, G:0.32, T:0.35
Consensus pattern (28 bp):
TAGTACGTGGAGCAGGATTTTGATTAGC
Found at i:71603926 original size:40 final size:40
Alignment explanation
Indices: 71603871--71603951 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
71603861 TGCTATAAAA
71603871 TGATATTTTTGGAAATAAATACCAATTTAAAAGTAAATAC
1 TGATATTTTTGGAAATAAATACCAATTTAAAAGTAAATAC
* * *
71603911 TGATATTTTTGGAAATAAATATCGATTTTAAAGTAAATAC
1 TGATATTTTTGGAAATAAATACCAATTTAAAAGTAAATAC
71603951 T
1 T
71603952 TTTTGGATAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (40 bp):
TGATATTTTTGGAAATAAATACCAATTTAAAAGTAAATAC
Found at i:71603929 original size:22 final size:22
Alignment explanation
Indices: 71603871--71603931 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 22
71603861 TGCTATAAAA
71603871 TGATATTTTTGGAAATAAATAC
1 TGATATTTTTGGAAATAAATAC
* *
71603893 -CA-A--TTT-AAAAGTAAATAC
1 TGATATTTTTGGAAA-TAAATAC
71603911 TGATATTTTTGGAAATAAATA
1 TGATATTTTTGGAAATAAATA
71603932 TCGATTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
17 3 0.10
18 10 0.34
19 1 0.03
20 2 0.07
21 1 0.03
22 9 0.31
23 3 0.10
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (22 bp):
TGATATTTTTGGAAATAAATAC
Found at i:71607526 original size:28 final size:28
Alignment explanation
Indices: 71607463--71607585 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
71607453 ATATTAAGTC
*
71607463 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
71607490 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
71607518 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
71607546 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
71607575 CGCACACTTAG
1 CGCACACTTAG
71607586 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:71615730 original size:28 final size:28
Alignment explanation
Indices: 71615667--71615789 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
71615657 ATATTAAGTC
*
71615667 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
71615694 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
71615722 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
71615750 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
71615779 CGCACACTTAG
1 CGCACACTTAG
71615790 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:71628543 original size:24 final size:25
Alignment explanation
Indices: 71628516--71628592 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 25
71628506 GCCTAGCATC
71628516 TTTTAAT-AATTGAGGCAAAGCCCT
1 TTTTAATAAATTGAGGCAAAGCCCT
* *
71628540 TTTTGATAAATTGGGGCAAAGCCCT
1 TTTTAATAAATTGAGGCAAAGCCCT
** *
71628565 TTTGGATAAACT-AGGGCAAAGCCCT
1 TTTTAATAAATTGA-GGCAAAGCCCT
71628590 TTT
1 TTT
71628593 CGGTAAACTG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 6 0.13
25 40 0.87
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (25 bp):
TTTTAATAAATTGAGGCAAAGCCCT
Found at i:71628557 original size:25 final size:25
Alignment explanation
Indices: 71628529--71628617 Score: 124
Period size: 25 Copynumber: 3.6 Consensus size: 25
71628519 TAATAATTGA
* *
71628529 GGCAAAGCCCTTTTTGATAAATTGG
1 GGCAAAGCCCTTTTCGATAAACTGG
* *
71628554 GGCAAAGCCCTTTTGGATAAACTAG
1 GGCAAAGCCCTTTTCGATAAACTGG
*
71628579 GGCAAAGCCCTTTTCGGTAAACTGG
1 GGCAAAGCCCTTTTCGATAAACTGG
*
71628604 GGCATAGCCCTTTT
1 GGCAAAGCCCTTTT
71628618 AGCACTTCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (25 bp):
GGCAAAGCCCTTTTCGATAAACTGG
Found at i:71628851 original size:27 final size:27
Alignment explanation
Indices: 71628821--71629065 Score: 341
Period size: 27 Copynumber: 9.1 Consensus size: 27
71628811 GGGCAAAATG
* * * *
71628821 GTAATTTTACCCTATAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
71628848 GTAATTCTACCCTAAAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
71628875 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
71628901 GATAGTTCTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
71628929 GTAGTTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
71628956 GTAGTTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
71628983 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
71629010 GTAATTCTACCCTA-AGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
71629036 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
71629063 GTA
1 GTA
71629066 TTTTACGAAT
Statistics
Matches: 204, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
26 27 0.13
27 176 0.86
28 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:71629109 original size:27 final size:27
Alignment explanation
Indices: 71629090--71629229 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
71629080 GGTTTTTCGA
*
71629090 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTCACAAACCAGGGGTATTTTGG
*
71629117 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTCACAAACCAGGGGTATTTTGG
* * * * *
71629144 TAATTTTATAAACTAAGGGTATTTTAG
1 TAATTTCACAAACCAGGGGTATTTTGG
* **
71629171 TAATTTTACAAACCAATGGTATTTTGG
1 TAATTTCACAAACCAGGGGTATTTTGG
*
71629198 TAATTTTACAAACCA-GGGTATTTTGG
1 TAATTTCACAAACCAGGGGTATTTTGG
71629224 TAATTT
1 TAATTT
71629230 TGTAAACCAA
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 16 0.16
27 86 0.84
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
TAATTTCACAAACCAGGGGTATTTTGG
Found at i:71629148 original size:54 final size:52
Alignment explanation
Indices: 71629090--71629244 Score: 202
Period size: 54 Copynumber: 2.9 Consensus size: 52
71629080 GGTTTTTCGA
* *
71629090 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAA-CA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
* * *
71629144 TAATTTTATAAACTAAGGGTATTTTAGTAATTTTACAAACCAATGGTATTTTGG
1 TAATTTTACAAAC--AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
**
71629198 TAATTTTACAAACCAGGGTATTTTGGTAATTTTGTAAACCAAGGGTA
1 TAATTTTACAAA-CAGGGTATTTTGGTAATTTTACAAACCAAGGGTA
71629245 AAACGATAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
53 30 0.34
54 56 0.64
55 2 0.02
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (52 bp):
TAATTTTACAAACAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
Found at i:71629254 original size:27 final size:27
Alignment explanation
Indices: 71629222--71629487 Score: 289
Period size: 27 Copynumber: 9.9 Consensus size: 27
71629212 AGGGTATTTT
* * *
71629222 GGTAATTTTGTAAACCAAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * * *
71629249 GATAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
* ** * *
71629276 AGTAATTTTATAAATTAATGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
*
71629303 GGTAATTTTATAAATCGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
**
71629330 GGTAATTTTATAAATTAAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * *
71629357 AGTAATTTTGTAAATTGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * *
71629384 AGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
*
71629411 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * *
71629438 GGTAATTCTATAAATCAAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
* *
71629465 GGTAATTTTGTAAATCGGGGGTA
1 GGTAATTTTATAAATCGAGGGTA
71629488 CTTTGATAAT
Statistics
Matches: 205, Mismatches: 34, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 205 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (27 bp):
GGTAATTTTATAAATCGAGGGTAAAAC
Found at i:71629283 original size:54 final size:54
Alignment explanation
Indices: 71629223--71629487 Score: 332
Period size: 54 Copynumber: 4.9 Consensus size: 54
71629213 GGGTATTTTG
* * * * * *
71629223 GTAATTTTGTAAACCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
* * * **
71629277 GTAATTTTATAAATTAATGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
* ** *
71629331 GTAATTTTATAAATTAAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAACA
1 GTAATTTTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
* * * * *
71629385 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
* *
71629439 GTAATTCTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGGGGGTA
1 GTAATTTTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
71629488 CTTTGATAAT
Statistics
Matches: 182, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 182 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.32
Consensus pattern (54 bp):
GTAATTTTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACA
Found at i:71629324 original size:81 final size:81
Alignment explanation
Indices: 71629221--71629487 Score: 345
Period size: 81 Copynumber: 3.3 Consensus size: 81
71629211 CAGGGTATTT
* * * * * * *
71629221 TGGTAATTTTGTAAACCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTTTA
1 TGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTA
*
71629286 TAAATTAATGGTAAAA
66 TAAATTAAGGGTAAAA
* ** *
71629302 TGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTATAAATTAAGGGTAAAACAGTAATTTTG
1 TGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTA
*
71629367 TAAATTGAGGGTAAAA
66 TAAATTAAGGGTAAAA
** * * *
71629383 CAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
1 TGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTA
*
71629448 TAAATCAAGGGTAAAA
66 TAAATTAAGGGTAAAA
* *
71629464 TGGTAATTTTGTAAATCGGGGGTA
1 TGGTAATTTTATAAATCGAGGGTA
71629488 CTTTGATAAT
Statistics
Matches: 157, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 157 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (81 bp):
TGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTA
TAAATTAAGGGTAAAA
Found at i:71629498 original size:81 final size:81
Alignment explanation
Indices: 71629221--71629528 Score: 337
Period size: 81 Copynumber: 3.8 Consensus size: 81
71629211 CAGGGTATTT
* * * * * *
71629221 TGGTAATTTTGTAAACCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTTTA
1 TGGTAATTTTATAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACAGTAATTTTA
*
71629286 TAAATTAATGGTAAAA
66 TAAATTAAGGGTAAAA
* * ** *
71629302 TGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTATAAATTAAGGGTAAAACAGTAATTTTG
1 TGGTAATTTTATAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACAGTAATTTTA
*
71629367 TAAATTGAGGGTAAAA
66 TAAATTAAGGGTAAAA
** * * * *
71629383 CAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
1 TGGTAATTTTATAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACAGTAATTTTA
*
71629448 TAAATCAAGGGTAAAA
66 TAAATTAAGGGTAAAA
* * *** * * * ***
71629464 TGGTAATTTTGTAAATCGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTA
1 TGGTAATTTTATAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACAGTAATTTTA
71629529 CAATCGACGG
Statistics
Matches: 186, Mismatches: 41, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 186 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.33
Consensus pattern (81 bp):
TGGTAATTTTATAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACAGTAATTTTA
TAAATTAAGGGTAAAA
Found at i:71629513 original size:27 final size:26
Alignment explanation
Indices: 71629467--71629634 Score: 133
Period size: 27 Copynumber: 6.3 Consensus size: 26
71629457 GGTAAAATGG
** *
71629467 TAATTTTGTAAATCGGGGGTACTTTGA
1 TAATTTTACAAATCGAGGGTA-TTTGA
* *
71629494 TAATTTTACAAGTCGAGGGTATTTCA
1 TAATTTTACAAATCGAGGGTATTTGA
* * *
71629520 GTAATTTTAC-AATCGACGGTTTTTGG
1 -TAATTTTACAAATCGAGGGTATTTGA
* *
71629546 TAATTTTATAAATC-AGAGGTACTTTGG
1 TAATTTTACAAATCGAG-GGTA-TTTGA
* * * *
71629573 TAATTTTACAAGTCCAAGGTATTTCA
1 TAATTTTACAAATCGAGGGTATTTGA
*
71629599 GTAATTTTACAAATCGAGGGTATTTTGG
1 -TAATTTTACAAATCGAGGGTA-TTTGA
71629627 TAATTTTA
1 TAATTTTA
71629635 GTAAACTAAA
Statistics
Matches: 111, Mismatches: 23, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
25 9 0.08
26 25 0.23
27 73 0.66
28 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (26 bp):
TAATTTTACAAATCGAGGGTATTTGA
Found at i:71629568 original size:79 final size:81
Alignment explanation
Indices: 71629464--71629639 Score: 266
Period size: 79 Copynumber: 2.2 Consensus size: 81
71629454 AAGGGTAAAA
* * * * *
71629464 TGGTAATTTTGTAAATCGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTA
1 TGGTAATTTTATAAATCAGAGGTACTTTGATAATTTTACAAGTCCAAGGTATTTCAGTAATTTTA
71629529 C-AATCGACGGT-TTT
66 CAAATCGACGGTATTT
*
71629543 TGGTAATTTTATAAATCAGAGGTACTTTGGTAATTTTACAAGTCCAAGGTATTTCAGTAATTTTA
1 TGGTAATTTTATAAATCAGAGGTACTTTGATAATTTTACAAGTCCAAGGTATTTCAGTAATTTTA
*
71629608 CAAATCGAGGGTATTT
66 CAAATCGACGGTATTT
71629624 TGGTAATTTTAGTAAA
1 TGGTAATTTTA-TAAA
71629640 CTAAAGTATT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 60 0.69
80 9 0.10
81 14 0.16
82 4 0.05
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
TGGTAATTTTATAAATCAGAGGTACTTTGATAATTTTACAAGTCCAAGGTATTTCAGTAATTTTA
CAAATCGACGGTATTT
Found at i:71632009 original size:25 final size:25
Alignment explanation
Indices: 71631974--71632069 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
71631964 TTTATCATAT
71631974 AACTGGAGGCAAAGCCCTTTTTGATA
1 AACTGG-GGCAAAGCCCTTTTTGATA
71632000 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
71632025 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
71632050 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
71632070 AGCACTTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 59 0.91
26 6 0.09
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:71632338 original size:54 final size:54
Alignment explanation
Indices: 71632280--71632487 Score: 238
Period size: 54 Copynumber: 3.9 Consensus size: 54
71632270 ATGGTAATTT
* * *
71632280 TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGTTATTTCGGTAGTTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAGTTC
* ** * *
71632334 TACCCTACAGGGGTATTTCGATGGTTCTACCTTACAGGGGTATTTTGGTAGTTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAGTTC
* * * * * * *
71632388 TACCCTACAGGGGTATTTCGGTAATTTTATCTTACAGGGGTATTTCAGTAATTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAGTTC
* * *
71632442 TACCCTACAAGGGGATTTC-AGTAATTCTACCCTACAAGAGTATTTC
1 TACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTC
71632488 AGTATTTTAC
Statistics
Matches: 129, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
54 129 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAGTTC
Found at i:71632391 original size:81 final size:81
Alignment explanation
Indices: 71632273--71632487 Score: 229
Period size: 81 Copynumber: 2.7 Consensus size: 81
71632263 GGGCAAAATG
* * * * * *
71632273 GTAATTTTACCCCACAAGGGTATCTC-GATAATTCTACCCTACAGGGTTATTTCGGTAGTTCTAC
1 GTAATTCTACCCTACAAGGGGATTTCAG-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
71632337 CCTACAGGGGTATTTC-
65 CCTACAGGGGTATTTCA
** * ** * *
71632353 GATGGTTCTACCTTAC-AGGGGTATTTTGGTAGTTCTACCCTACAGGGGTATTTCGGTAATTTTA
1 G-TAATTCTACCCTACAAGGGG-ATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
* *
71632417 TCTTACAGGGGTATTTCA
64 CCCTACAGGGGTATTTCA
* *
71632435 GTAATTCTACCCTACAAGGGGATTTCAGTAATTCTACCCTACAAGAGTATTTC
1 GTAATTCTACCCTACAAGGGGATTTCAGTAATTCTACCCTACAGGGGTATTTC
71632488 AGTATTTTAC
Statistics
Matches: 108, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
80 5 0.05
81 96 0.89
82 7 0.06
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGGATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
CTACAGGGGTATTTCA
Found at i:71632488 original size:27 final size:27
Alignment explanation
Indices: 71632273--71632491 Score: 201
Period size: 27 Copynumber: 8.1 Consensus size: 27
71632263 GGGCAAAATG
* * *
71632273 GTAATTTTACCCCACAAGGGTATCTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
71632299 GATAATTCTACCCTAC-AGGGTTATTTCG
1 G-TAATTCTACCCTACAAGGG-TATTTCA
* *
71632327 GTAGTTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
** * * **
71632353 GATGGTTCTACCTTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * *
71632381 GTAGTTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
71632408 GTAATTTTATCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
71632435 GTAATTCTACCCTACAAGGGGATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
71632462 GTAATTCTACCCTACAAGAGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
71632489 GTA
1 GTA
71632492 TTTTACGAAT
Statistics
Matches: 164, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
26 6 0.04
27 153 0.93
28 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:71632521 original size:27 final size:27
Alignment explanation
Indices: 71632491--71632577 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
71632481 GTATTTCAGT
*
71632491 ATTTTACGAATC-GAGGGT-TTTTCGATA
1 ATTTTACAAATCAG-GGGTATTTT-GATA
* *
71632518 ATTTCACAAATCAGGGGTATTTTGGTA
1 ATTTTACAAATCAGGGGTATTTTGATA
* * **
71632545 ATTTTACAAACCAGAGGTATTTTGGCA
1 ATTTTACAAATCAGGGGTATTTTGATA
71632572 ATTTTA
1 ATTTTA
71632578 TAAACATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
27 46 0.90
28 5 0.10
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTTACAAATCAGGGGTATTTTGATA
Found at i:71632587 original size:38 final size:38
Alignment explanation
Indices: 71632545--71632620 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
71632535 TATTTTGGTA
* *
71632545 ATTTTACAAACC-AGAGGTATTTTGGCAATTTTATAAAC
1 ATTTTACAAACCAAG-GGTATTTTAGCAATTTTACAAAC
* *
71632583 ATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
1 ATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAAC
71632621 CAATGGTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 31 0.94
39 2 0.06
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (38 bp):
ATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAAC
Found at i:71632615 original size:27 final size:27
Alignment explanation
Indices: 71632583--71632682 Score: 146
Period size: 27 Copynumber: 3.7 Consensus size: 27
71632573 TTTTATAAAC
* *
71632583 ATTTTATAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
71632610 ATTTTACAAACCAATGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
71632637 ATTTTACAAACCAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
**
71632664 ATTTTGTAAACCAAGGGTA
1 ATTTTACAAACCAAGGGTA
71632683 AAATAATAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
ATTTTACAAACCAAGGGTATTTTGGTA
Found at i:71632692 original size:27 final size:27
Alignment explanation
Indices: 71632662--71632928 Score: 183
Period size: 27 Copynumber: 9.9 Consensus size: 27
71632652 GGTATTTTGG
* *
71632662 TAATTTTGTAAACCAAGGGTAAAATAA
1 TAATTTTGTAAATCGAGGGTAAAATAA
* **
71632689 TAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTTTGTAAATCGAGGGTAAAATAA
* **
71632716 TAATTTTATAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAATAA
* * ***
71632743 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAATAA
* * * **
71632770 TAATTTTATAAATTGAGGATAAAACGA
1 TAATTTTGTAAATCGAGGGTAAAATAA
* **
71632797 TAACTTTGTAAATCGAGGGTAAAACGA
1 TAATTTTGTAAATCGAGGGTAAAATAA
* * * **
71632824 TAATTCTATAAATTGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAATAA
* * ** **
71632851 TAATTCTATAAATCGAAAGTAAAACGA
1 TAATTTTGTAAATCGAGGGTAAAATAA
* * * * **
71632878 TAATTCTATAAATTGAGGGTGAAATGG
1 TAATTTTGTAAATCGAGGGTAAAATAA
*
71632905 TAATTCTGTAAATCGAGGGTAAAA
1 TAATTTTGTAAATCGAGGGTAAAA
71632929 CGGTAATTCT
Statistics
Matches: 201, Mismatches: 39, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 201 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (27 bp):
TAATTTTGTAAATCGAGGGTAAAATAA
Found at i:71632736 original size:81 final size:81
Alignment explanation
Indices: 71632689--71632952 Score: 375
Period size: 81 Copynumber: 3.3 Consensus size: 81
71632679 GGTAAAATAA
*
71632689 TAATTCTGTAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAA
1 TAATTCTATAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAA
71632754 ATCGAGGGTAAAACGG
66 ATCGAGGGTAAAACGG
* * * * * * *
71632770 TAATTTTATAAATTGAGGATAAAACGATAACTTTGTAAATCGAGGGTAAAACGATAATTCTATAA
1 TAATTCTATAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAA
* *
71632835 ATTGAGGGTAAAATGG
66 ATCGAGGGTAAAACGG
** * * * *
71632851 TAATTCTATAAATCGAAAGTAAAACGATAATTCTATAAATTGAGGGTGAAATGGTAATTCTGTAA
1 TAATTCTATAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAA
71632916 ATCGAGGGTAAAACGG
66 ATCGAGGGTAAAACGG
*
71632932 TAATTCTATAAATCGGGGGTA
1 TAATTCTATAAATCGAGGGTA
71632953 CTTTTATACT
Statistics
Matches: 155, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 155 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (81 bp):
TAATTCTATAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAA
ATCGAGGGTAAAACGG
Found at i:71632933 original size:27 final size:27
Alignment explanation
Indices: 71632689--71632952 Score: 332
Period size: 27 Copynumber: 9.8 Consensus size: 27
71632679 GGTAAAATAA
* *
71632689 TAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTATAAATCGAGGGTAAAACGG
* *
71632716 TAATTTTATAAATCGAGGGTAAAATGG
1 TAATTCTATAAATCGAGGGTAAAACGG
71632743 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTATAAATCGAGGGTAAAACGG
* * * *
71632770 TAATTTTATAAATTGAGGATAAAACGA
1 TAATTCTATAAATCGAGGGTAAAACGG
* *
71632797 TAACTT-TGTAAATCGAGGGTAAAACGA
1 TAA-TTCTATAAATCGAGGGTAAAACGG
* *
71632824 TAATTCTATAAATTGAGGGTAAAATGG
1 TAATTCTATAAATCGAGGGTAAAACGG
** *
71632851 TAATTCTATAAATCGAAAGTAAAACGA
1 TAATTCTATAAATCGAGGGTAAAACGG
* * *
71632878 TAATTCTATAAATTGAGGGTGAAATGG
1 TAATTCTATAAATCGAGGGTAAAACGG
*
71632905 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTATAAATCGAGGGTAAAACGG
*
71632932 TAATTCTATAAATCGGGGGTA
1 TAATTCTATAAATCGAGGGTA
71632953 CTTTTATACT
Statistics
Matches: 201, Mismatches: 34, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.01
27 197 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
TAATTCTATAAATCGAGGGTAAAACGG
Found at i:71632944 original size:54 final size:54
Alignment explanation
Indices: 71632677--71632944 Score: 385
Period size: 54 Copynumber: 5.0 Consensus size: 54
71632667 TTGTAAACCA
** * *
71632677 AGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACGATAATTTTATAAATCG
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATTG
* * *
71632731 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTATAAATTG
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATTG
* * *
71632785 AGGATAAAACGATAACTT-TGTAAATCGAGGGTAAAACGATAATTCTATAAATTG
1 AGGGTAAAATGGTAA-TTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATTG
* **
71632839 AGGGTAAAATGGTAATTCTATAAATCGAAAGTAAAACGATAATTCTATAAATTG
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATTG
* *
71632893 AGGGTGAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAAT
1 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAAT
71632945 CGGGGGTACT
Statistics
Matches: 190, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 2 0.01
54 186 0.98
55 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.29
Consensus pattern (54 bp):
AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATTG
Found at i:71633060 original size:27 final size:26
Alignment explanation
Indices: 71632963--71633101 Score: 163
Period size: 27 Copynumber: 5.2 Consensus size: 26
71632953 CTTTTATACT
*
71632963 TTTTACAAGTCGAGGGTATTTCTGTAA
1 TTTTACAA-TCGAGGGTATTTCGGTAA
*
71632990 TTTTACAATCGACGGTATTTCGGTAA
1 TTTTACAATCGAGGGTATTTCGGTAA
* * *
71633016 TTTTATAAACTGGGGGTACTTT-GGTAA
1 TTTTACAATC-GAGGGTA-TTTCGGTAA
* *
71633043 TTTTACAAGTCGAAGGTATTTCAGTAA
1 TTTTACAA-TCGAGGGTATTTCGGTAA
71633070 TTTTACAAATCGAGGGTATTTCGGTAA
1 TTTTAC-AATCGAGGGTATTTCGGTAA
71633097 TTTTA
1 TTTTA
71633102 GTAAACTAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
26 27 0.29
27 61 0.65
28 6 0.06
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (26 bp):
TTTTACAATCGAGGGTATTTCGGTAA
Found at i:71633088 original size:81 final size:83
Alignment explanation
Indices: 71632914--71633108 Score: 263
Period size: 81 Copynumber: 2.4 Consensus size: 83
71632904 GTAATTCTGT
*** * * * *
71632914 AAATCGAGGGTAAAACGGTAATTCTATAAA-TCGGGGGTACTTTTATACTTTTTACAAGTCGAGG
1 AAATCGAGGGTATTTCGGTAATTTTATAAACTCGGGGGTACTTTGATACATTTTACAAGTCGAAG
*
71632978 GTATTTCTGTAATTTTAC
66 GTATTTCAGTAATTTTAC
* *
71632996 -AATCGACGGTATTTCGGTAATTTTATAAACT-GGGGGTACTTTGGTA-ATTTTACAAGTCGAAG
1 AAATCGAGGGTATTTCGGTAATTTTATAAACTCGGGGGTACTTTGATACATTTTACAAGTCGAAG
71633058 GTATTTCAGTAATTTTAC
66 GTATTTCAGTAATTTTAC
71633076 AAATCGAGGGTATTTCGGTAATTTTAGTAAACT
1 AAATCGAGGGTATTTCGGTAATTTTA-TAAACT
71633109 AAAGTATTCT
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
80 31 0.31
81 61 0.62
82 7 0.07
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.37
Consensus pattern (83 bp):
AAATCGAGGGTATTTCGGTAATTTTATAAACTCGGGGGTACTTTGATACATTTTACAAGTCGAAG
GTATTTCAGTAATTTTAC
Found at i:71633116 original size:54 final size:53
Alignment explanation
Indices: 71632963--71633101 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 53
71632953 CTTTTATACT
* * * *
71632963 TTTTACAAGTCGAGGGTATTTCTGTAATTTTACAATCGACGGTATTTCGGTAA
1 TTTTACAAATCGAGGGTATTTCGGTAATTTTACAATCGAAGGTATTTCAGTAA
* *
71633016 TTTTATAAA-CTGGGGGTACTTT-GGTAATTTTACAAGTCGAAGGTATTTCAGTAA
1 TTTTACAAATC-GAGGGTA-TTTCGGTAATTTTACAA-TCGAAGGTATTTCAGTAA
71633070 TTTTACAAATCGAGGGTATTTCGGTAATTTTA
1 TTTTACAAATCGAGGGTATTTCGGTAATTTTA
71633102 GTAAACTAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
52 1 0.01
53 28 0.38
54 43 0.59
55 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (53 bp):
TTTTACAAATCGAGGGTATTTCGGTAATTTTACAATCGAAGGTATTTCAGTAA
Found at i:71636371 original size:23 final size:21
Alignment explanation
Indices: 71636343--71636391 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
71636333 TAAAAAAGGG
71636343 TAATAAAT-AAATAGATAAATAGA
1 TAATAAATAAAATAG-T-AATA-A
71636366 TAAT-AATAAAATAGTAATAA
1 TAATAAATAAAATAGTAATAA
71636386 TAATAA
1 TAATAA
71636392 TGAAGGCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 4 0.17
23 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
TAATAAATAAAATAGTAATAA
Found at i:71636383 original size:14 final size:15
Alignment explanation
Indices: 71636359--71636388 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
71636349 ATAAATAGAT
71636359 AAATAGATAATAATA
1 AAATAGATAATAATA
71636374 AAATAG-TAATAATA
1 AAATAGATAATAATA
71636388 A
1 A
71636389 TAATGAAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:71636550 original size:5 final size:4
Alignment explanation
Indices: 71636427--71636591 Score: 92
Period size: 4 Copynumber: 41.8 Consensus size: 4
71636417 CGATGATAGA
* * * * *
71636427 AAAT AAAA AAAT AAA- ATAT AAA- AAAT GAAG GAAT -AAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
71636472 AAAT AAAT ACAAG GATT AAAAT AAA- AAAT AAA- ATAT AAAT GAAT AAAT
1 AAAT AAAT A-AAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * *
71636520 AAGT AAAT GAAC AAAT AAAT AAAT AAAAT AAA- AGGAA- CAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT
* *
71636569 AAAC AAGT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAA
71636592 AGAATTAAAA
Statistics
Matches: 121, Mismatches: 29, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
3 16 0.13
4 95 0.79
5 10 0.08
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:71636562 original size:41 final size:42
Alignment explanation
Indices: 71636490--71636593 Score: 133
Period size: 41 Copynumber: 2.5 Consensus size: 42
71636480 ACAAGGATTA
* * *
71636490 AAATAAA-AAATAAAATATAAATGAATAAATAAGTAAATGAAC
1 AAATAAATAAATAAAATA-AAAGGAATAAATAAATAAATAAAC
*
71636532 AAATAAATAAATAAAATAAAAGGAA-CAATAAATAAATAAAC
1 AAATAAATAAATAAAATAAAAGGAATAAATAAATAAATAAAC
*
71636573 AAGTAAATAAAT-AAATAAAAG
1 AAATAAATAAATAAAATAAAAG
71636594 AATTAAAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
40 9 0.16
41 24 0.43
42 13 0.23
43 10 0.18
ACGTcount: A:0.71, C:0.03, G:0.07, T:0.19
Consensus pattern (42 bp):
AAATAAATAAATAAAATAAAAGGAATAAATAAATAAATAAAC
Found at i:71639302 original size:30 final size:30
Alignment explanation
Indices: 71639262--71639320 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
71639252 TTTACGAGCC
* *
71639262 TAGGGACCAAAGTGCAAATATGTAAAAGTT
1 TAGGGACCAAAATGCAAATATGAAAAAGTT
* * *
71639292 TAGGGGCCAAAATGTAAATTTGAAAAAGT
1 TAGGGACCAAAATGCAAATATGAAAAAGT
71639321 ATGATTTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (30 bp):
TAGGGACCAAAATGCAAATATGAAAAAGTT
Found at i:71651687 original size:2 final size:2
Alignment explanation
Indices: 71651680--71651717 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
71651670 AGTCCTTGCA
71651680 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
71651718 GAATCTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:71656938 original size:25 final size:26
Alignment explanation
Indices: 71656901--71656952 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
71656891 TTAAACATGC
71656901 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
71656927 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
71656952 A
1 A
71656953 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:71658457 original size:26 final size:26
Alignment explanation
Indices: 71658426--71658533 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
71658416 TGAAATTCCC
*
71658426 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
71658452 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
71658478 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
71658504 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71658530 ATCA
1 ATCA
71658534 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:71665522 original size:26 final size:26
Alignment explanation
Indices: 71665493--71665601 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
71665483 ATGAAATTCC
* * *
71665493 TATCTTGGAACATTTACCTAAACTAT
1 TATCATGGAACATTTACCTAATCCAT
*
71665519 TATCATAGAACATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAATCCAT
*
71665545 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAATCCAT
*
71665571 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAATCCAT
71665597 TATCA
1 TATCA
71665602 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAATCCAT
Found at i:71672119 original size:30 final size:30
Alignment explanation
Indices: 71672085--71672145 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
71672075 TCCTTAACTC
71672085 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
71672115 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
71672145 A
1 A
71672146 GGCTCGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:71674438 original size:19 final size:18
Alignment explanation
Indices: 71674411--71674461 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
71674401 TATAAAAATT
71674411 AATTT-TAAAAATTAAAA
1 AATTTATAAAAATTAAAA
*
71674428 ATATTTATAAAATTTTAAAA
1 A-ATTTATAAAA-ATTAAAA
*
71674448 AATATATAAAAATT
1 AATTTATAAAAATT
71674462 GACAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.04
18 6 0.21
19 14 0.50
20 7 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTTATAAAAATTAAAA
Found at i:71674864 original size:18 final size:20
Alignment explanation
Indices: 71674812--71674857 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
71674802 TTTTTGAAAA
71674812 ATAATTTTTTG---AATTCT
1 ATAATTTTTTGAATAATTCT
* *
71674829 ATAATTTTTTTAATAATTGT
1 ATAATTTTTTGAATAATTCT
71674849 ATAATTTTT
1 ATAATTTTT
71674858 GAAAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
20 14 0.58
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (20 bp):
ATAATTTTTTGAATAATTCT
Found at i:71678673 original size:11 final size:11
Alignment explanation
Indices: 71678657--71678682 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71678647 GATCTCATTA
71678657 ACAATAGATTT
1 ACAATAGATTT
71678668 ACAATAGATTT
1 ACAATAGATTT
71678679 ACAA
1 ACAA
71678683 ATGCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (11 bp):
ACAATAGATTT
Found at i:71680899 original size:159 final size:159
Alignment explanation
Indices: 71680610--71680940 Score: 522
Period size: 159 Copynumber: 2.1 Consensus size: 159
71680600 GTGTGCTCTC
*
71680610 TACACGCCCATGTCCTCCGGCCGTGTAACTCTCTGACTATGACGTCAGCACCAATCTAGGGTCAC
1 TACACGCCCATGTCCTCCGACCGTGTAACTCTCTGACTATGACGTCAGCACCAATCTAGGGTCAC
* *
71680675 ACGGCCATATCACACGCTCGTGTGGCCAGACCGTGTGGGTAATTAAAAGTAAATGAATTTTTCAT
66 ACGGCCACATCACACGCCCGTGTGGCCAGACCGTGTGGGTAATTAAAAGTAAATGAATTTTTCAT
* * *
71680740 AAAAAGTTGTAGACTTCACATGGCCAGGG
131 AAAAAGGTGTAGACTTCACATAGCCAGAG
* *
71680769 TACACGCCCATGTCCTCTGACCGTGTAACTCT-TCGACTATGACGTCAGCACCAATTTAGGGTCA
1 TACACGCCCATGTCCTCCGACCGTGTAACTCTCT-GACTATGACGTCAGCACCAATCTAGGGTCA
* * *
71680833 CACGGCCACATCACATGCCCGTGTGGCCAGACCGTGTGGTTAATTAAAATTAAATG-ATCTTTTC
65 CACGGCCACATCACACGCCCGTGTGGCCAGACCGTGTGGGTAATTAAAAGTAAATGAAT-TTTTC
71680897 ATAAAAAGGTGTAGACTTCACATAGCCAGAG
129 ATAAAAAGGTGTAGACTTCACATAGCCAGAG
*
71680928 TACACGCCTATGT
1 TACACGCCCATGT
71680941 GGGTAGGTCG
Statistics
Matches: 158, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
158 3 0.02
159 155 0.98
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (159 bp):
TACACGCCCATGTCCTCCGACCGTGTAACTCTCTGACTATGACGTCAGCACCAATCTAGGGTCAC
ACGGCCACATCACACGCCCGTGTGGCCAGACCGTGTGGGTAATTAAAAGTAAATGAATTTTTCAT
AAAAAGGTGTAGACTTCACATAGCCAGAG
Found at i:71682385 original size:43 final size:43
Alignment explanation
Indices: 71682337--71682418 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
71682327 ATATGTATCA
*
71682337 CATCCATTATAAACTCAGACCACTCAACGAGCTCAGATGATTG
1 CATCCATAATAAACTCAGACCACTCAACGAGCTCAGATGATTG
* *
71682380 CATCCATAATGAACTCGGACCACTCAACGAGCTCAGATG
1 CATCCATAATAAACTCAGACCACTCAACGAGCTCAGATG
71682419 GTACATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (43 bp):
CATCCATAATAAACTCAGACCACTCAACGAGCTCAGATGATTG
Found at i:71687572 original size:42 final size:42
Alignment explanation
Indices: 71687466--71687632 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 42
71687456 CGATATGTGT
* *
71687466 TTTCGTGTAAGACCACATTTGGGACGTTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTAC-T-TGA
71687509 TTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGTACTTGA
1 TTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGTACTTGA
* *
71687552 TTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGA
1 TTTCGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCG-TACTTGA
* * * *
71687595 TTACATGTAAGACCACATCTGGGACGTTGGCATTGTAC
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTAC
71687633 GAGCTTTTTG
Statistics
Matches: 107, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.28
43 42 0.39
44 32 0.30
45 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTACTTGA
Found at i:71693323 original size:10 final size:10
Alignment explanation
Indices: 71693307--71693336 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
71693297 TTAAAACTTG
71693307 AATTTAAAAT
1 AATTTAAAAT
*
71693317 CATTTAAAAT
1 AATTTAAAAT
71693327 AATTTAAAAT
1 AATTTAAAAT
71693337 TATTAGTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:71695167 original size:371 final size:371
Alignment explanation
Indices: 71694484--71695225 Score: 1430
Period size: 371 Copynumber: 2.0 Consensus size: 371
71694474 ATAGTGTCCT
71694484 CCGGTTGGCCTTGAGTGGCAGTGTTCCAATATTTTTGATATTTCTGATCCTGTAACGCATCTTCT
1 CCGGTTGGCCTTGAGTGGCAGTGTTCCAATATTTTTGATATTTCTGATCCTGTAACGCATCTTCT
*
71694549 GATGACTTGATCTGCACATCTGTGAAACAAAAATGGATCGTCCCAAAAGTAGTTTTTCACATCAT
66 GATGACTTGATCTACACATCTGTGAAACAAAAATGGATCGTCCCAAAAGTAGTTTTTCACATCAT
71694614 TAAAGAAACGCTTCTTTTGCTGGTGTGTTAACCCTTTTGGGATAATGTTAGCAGCTAAAAAATTT
131 TAAAGAAACGCTTCTTTTGCTGGTGTGTTAACCCTTTTGGGATAATGTTAGCAGCTAAAAAATTT
* *
71694679 GCGATGTCTGCAAACCAATGTACCTCGTAGTTAGATATAGTGAAAAATTGTTCTTCAGGGAACGA
196 GCGATGTCTACAAACCAAGGTACCTCGTAGTTAGATATAGTGAAAAATTGTTCTTCAGGGAACGA
71694744 ATCATTTATTTCCACGTCATCTAGTTCTCTGGTATTGGATTTCTCGAGCCTGGACAGATGATCAG
261 ATCATTTATTTCCACGTCATCTAGTTCTCTGGTATTGGATTTCTCGAGCCTGGACAGATGATCAG
* *
71694809 CCGCGAGATTTTTAGCTCTTTTCTTGTCCTGAATTTCCAAGTCAAA
326 CCGCGAGATTTTCAGCTCCTTTCTTGTCCTGAATTTCCAAGTCAAA
71694855 CCGGTTGGCCTTGAGTGGCAGTGTTCCAATATTTTTGATATTTCTGATCCTGTAACGCATCTTCT
1 CCGGTTGGCCTTGAGTGGCAGTGTTCCAATATTTTTGATATTTCTGATCCTGTAACGCATCTTCT
*
71694920 GATGACTTGATCTACACATCTGTGAAACAGAAATGGATCGTCCCAAAAGTAGTTTTTCACATCAT
66 GATGACTTGATCTACACATCTGTGAAACAAAAATGGATCGTCCCAAAAGTAGTTTTTCACATCAT
71694985 TAAAGAAACGCTTCTTTTGCTGGTGTGTTAACCCTTTTGGGATAATGTTAGCAGCTAAAAAATTT
131 TAAAGAAACGCTTCTTTTGCTGGTGTGTTAACCCTTTTGGGATAATGTTAGCAGCTAAAAAATTT
71695050 GCGATGTCTACAAACCAAGGTACCTCGTAGTTAGATATAGTGAAAAATTGTTCTTCAGGGAACGA
196 GCGATGTCTACAAACCAAGGTACCTCGTAGTTAGATATAGTGAAAAATTGTTCTTCAGGGAACGA
71695115 ATCATTTATTTCCACGTCATCTAGTTCTCTGGTATTGGATTTCTCGAGCCTGGACAGATGATCAG
261 ATCATTTATTTCCACGTCATCTAGTTCTCTGGTATTGGATTTCTCGAGCCTGGACAGATGATCAG
71695180 CCGCGAGATTTTCAGCTCCTTTCTTGTCCTGAATTTCCAAGTCAAA
326 CCGCGAGATTTTCAGCTCCTTTCTTGTCCTGAATTTCCAAGTCAAA
71695226 TTCTTATAAT
Statistics
Matches: 365, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
371 365 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (371 bp):
CCGGTTGGCCTTGAGTGGCAGTGTTCCAATATTTTTGATATTTCTGATCCTGTAACGCATCTTCT
GATGACTTGATCTACACATCTGTGAAACAAAAATGGATCGTCCCAAAAGTAGTTTTTCACATCAT
TAAAGAAACGCTTCTTTTGCTGGTGTGTTAACCCTTTTGGGATAATGTTAGCAGCTAAAAAATTT
GCGATGTCTACAAACCAAGGTACCTCGTAGTTAGATATAGTGAAAAATTGTTCTTCAGGGAACGA
ATCATTTATTTCCACGTCATCTAGTTCTCTGGTATTGGATTTCTCGAGCCTGGACAGATGATCAG
CCGCGAGATTTTCAGCTCCTTTCTTGTCCTGAATTTCCAAGTCAAA
Found at i:71701757 original size:14 final size:14
Alignment explanation
Indices: 71701740--71701778 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
71701730 AAAAAAGAGC
71701740 GAAAAGAAAAATGA-
1 GAAAAGAAAAA-GAT
71701754 GAAAAGAAAAAGAT
1 GAAAAGAAAAAGAT
71701768 GAAAATGAAAA
1 GAAAA-GAAAA
71701779 TGAAAATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 16 0.70
15 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.08
Consensus pattern (14 bp):
GAAAAGAAAAAGAT
Found at i:71701766 original size:20 final size:20
Alignment explanation
Indices: 71701741--71701784 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
71701731 AAAAAGAGCG
71701741 AAAAGA-AAAATGAGAAAAGA
1 AAAAGAGAAAATGA-AAAAGA
*
71701761 AAAAGATGAAAATGAAAATGA
1 AAAAGA-GAAAATGAAAAAGA
71701782 AAA
1 AAA
71701785 TGAGTGTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (20 bp):
AAAAGAGAAAATGAAAAAGA
Found at i:71701797 original size:14 final size:14
Alignment explanation
Indices: 71701780--71701806 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
71701770 AAATGAAAAT
71701780 GAAAATGAGTGTGA
1 GAAAATGAGTGTGA
71701794 GAAAATGAGTGTG
1 GAAAATGAGTGTG
71701807 TTTGCAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.37, T:0.22
Consensus pattern (14 bp):
GAAAATGAGTGTGA
Found at i:71709699 original size:93 final size:93
Alignment explanation
Indices: 71709587--71709758 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
71709577 GCCCATAAGT
* *
71709587 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACACAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACACAA
71709652 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* *
71709680 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACACAA
* *
71709745 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
71709759 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACACAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:71709754 original size:46 final size:46
Alignment explanation
Indices: 71709579--71709754 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
71709569 TGTAACCCGC
* *
71709579 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
71709625 CCATAAGTGAACTCGGACTCAACACAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
71709671 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
71709718 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
71709755 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 29 0.27
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:71714511 original size:19 final size:19
Alignment explanation
Indices: 71714484--71714530 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
71714474 ATAGGGGACG
71714484 CGCCCGTGTGTTCTCTACA
1 CGCCCGTGTGTTCTCTACA
* *
71714503 CGCCAGTGTGTTCTCTAGA
1 CGCCCGTGTGTTCTCTACA
71714522 CGCCCGTGT
1 CGCCCGTGT
71714531 CCTCCGACCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.11, C:0.34, G:0.26, T:0.30
Consensus pattern (19 bp):
CGCCCGTGTGTTCTCTACA
Found at i:71715230 original size:11 final size:11
Alignment explanation
Indices: 71715216--71715252 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
71715206 GACAATATCT
71715216 CATCATATAAC
1 CATCATATAAC
71715227 CATCATATAAC
1 CATCATATAAC
*
71715238 CA-CATAGAA-
1 CATCATATAAC
71715247 CATCAT
1 CATCAT
71715253 CAATGCATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
9 2 0.08
10 9 0.38
11 13 0.54
ACGTcount: A:0.46, C:0.27, G:0.03, T:0.24
Consensus pattern (11 bp):
CATCATATAAC
Found at i:71716136 original size:43 final size:43
Alignment explanation
Indices: 71716072--71716154 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
71716062 ATATGTATCA
* * * * *
71716072 CATCCATTATGAACTCGGACCACTCAACGAGCTTGGATGCTCG
1 CATCCATAATAAACTCAGACCACTCAAAGAGCTCGGATGCTCG
71716115 CATCCATAATAAACTCAGACCACTCAAAGAGCTCGGATGC
1 CATCCATAATAAACTCAGACCACTCAAAGAGCTCGGATGC
71716155 CACATATATC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.20
Consensus pattern (43 bp):
CATCCATAATAAACTCAGACCACTCAAAGAGCTCGGATGCTCG
Found at i:71721885 original size:40 final size:40
Alignment explanation
Indices: 71721802--71721987 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
71721792 TTGAATGATG
* * * *
71721802 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
71721842 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71721882 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71721922 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71721963 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71721988 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71721994 original size:80 final size:79
Alignment explanation
Indices: 71721855--71722020 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
71721845 GGACTAAGAT
* **
71721855 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
71721919 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
71721935 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
71721999 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
71722014 CCGAAGG
1 CCGAAGG
71722021 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:71729976 original size:78 final size:81
Alignment explanation
Indices: 71729841--71730024 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
71729831 TTGAATGATG
*
71729841 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
71729905 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
71729920 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
71729982 TTGTGCGAGTTACTATA
65 TTGTGCGAGTTACTATA
* *
71729999 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71730025 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
77 1 0.01
78 50 0.54
79 28 0.30
80 14 0.15
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:71730038 original size:40 final size:39
Alignment explanation
Indices: 71729842--71730024 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 39
71729832 TGAATGATGT
* * * *
71729842 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
71729882 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
71729921 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71729959 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71730000 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
71730025 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 26 0.20
39 20 0.16
40 72 0.56
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71730043 original size:80 final size:77
Alignment explanation
Indices: 71729894--71730057 Score: 222
Period size: 79 Copynumber: 2.1 Consensus size: 77
71729884 GGACTAAGAT
* **
71729894 CCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
71729959 TCCGGGTTAAGTC
66 TCC-GGTTAAATC
*
71729972 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
71730036 ATATCCGGTTAAATT
63 AAATCCGGTTAAATC
71730051 CCGAAGG
1 CCGAAGG
71730058 TACGTGATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 25 0.33
79 26 0.34
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAATC
Found at i:71745470 original size:25 final size:25
Alignment explanation
Indices: 71745442--71745547 Score: 90
Period size: 25 Copynumber: 4.3 Consensus size: 25
71745432 CCATATAATA
71745442 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATGTGAGCCATGTAACG
* * * *** *
71745467 GGAAGCTTATCTGGGTTGTATAACG
1 GGAAGCTCATGTGAGCCATGTAACG
* ** *
71745492 AGAAGCTCATAAGAGCCA--TAATCA
1 GGAAGCTCATGTGAGCCATGTAA-CG
71745516 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATGTGAGCCATGTAACG
71745541 GGAAGCT
1 GGAAGCT
71745548 TATCCGGGCT
Statistics
Matches: 58, Mismatches: 20, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
23 3 0.05
24 16 0.28
25 36 0.62
26 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (25 bp):
GGAAGCTCATGTGAGCCATGTAACG
Found at i:71745526 original size:74 final size:73
Alignment explanation
Indices: 71745436--71745620 Score: 273
Period size: 74 Copynumber: 2.5 Consensus size: 73
71745426 CTCAAGCCAT
* * *
71745436 ATAATAGGAAGCTCATGTGAGCCATGTAACGGGAAGCTTATCTGGGTTGTATAACGAGAAGCTCA
1 ATAATAGGAAGCTCATGTGAGCCATGTAACGGGAAGCTTATCCGGGCTGTATAACGAAAAGCTCA
71745501 TAAGAGCC
66 TAAGAGCC
*
71745509 ATAATCAGGAAGCTCATGTGAGCCATGTAACGGGAAGCTTATCCGGGCTGTATAATGAAAAGCTC
1 ATAAT-AGGAAGCTCATGTGAGCCATGTAACGGGAAGCTTATCCGGGCTGTATAACGAAAAGCTC
*
71745574 ATAAGAGTC
65 ATAAGAGCC
* * *
71745583 ATAATTAGGAAGCTCATGCGAGCCA-ATAACGGGTAGCT
1 ATAA-TAGGAAGCTCATGTGAGCCATGTAACGGGAAGCT
71745621 CCGAAGAGCC
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
73 16 0.16
74 85 0.83
75 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (73 bp):
ATAATAGGAAGCTCATGTGAGCCATGTAACGGGAAGCTTATCCGGGCTGTATAACGAAAAGCTCA
TAAGAGCC
Found at i:71745667 original size:25 final size:25
Alignment explanation
Indices: 71745617--71745699 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
71745607 AATAACGGGT
* *
71745617 AGCTCCGAAGAGCCAT-TAATTAGGA
1 AGCTCCGAATAGCCATAT-ATTGGGA
71745642 AGCTCCGAATAGCCATATATTGGGA
1 AGCTCCGAATAGCCATATATTGGGA
*
71745667 AG-TTC-AAGTGAGCCA-ATATTGGGA
1 AGCTCCGAA-T-AGCCATATATTGGGA
*
71745691 AGCTTCGAA
1 AGCTCCGAA
71745700 GTGCTGTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
23 2 0.04
24 14 0.28
25 31 0.62
26 3 0.06
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (25 bp):
AGCTCCGAATAGCCATATATTGGGA
Found at i:71745690 original size:24 final size:27
Alignment explanation
Indices: 71745626--71745702 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 27
71745616 TAGCTCCGAA
* *
71745626 GAGCCAT-TAATTAGGAAGCTCCGAA-T
1 GAGCCATAT-ATTGGGAAGCTTCGAAGT
71745652 -AGCCATATATTGGGAAG-TTC-AAGT
1 GAGCCATATATTGGGAAGCTTCGAAGT
71745676 GAGCCA-ATATTGGGAAGCTTCGAAGT
1 GAGCCATATATTGGGAAGCTTCGAAGT
71745702 G
1 G
71745703 CTGTTAATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
23 2 0.05
24 14 0.32
25 22 0.50
26 6 0.14
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (27 bp):
GAGCCATATATTGGGAAGCTTCGAAGT
Found at i:71753337 original size:24 final size:23
Alignment explanation
Indices: 71753293--71753338 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71753283 AAACAAAATT
* * *
71753293 AAAAAAAAAACTTGTTTATTTTC
1 AAAAAAAAAAATTATTAATTTTC
71753316 AAAAAAAAAATATTATTAATTTT
1 AAAAAAAAAA-ATTATTAATTTT
71753339 TGTATTATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAAAAAAAAATTATTAATTTTC
Found at i:71761649 original size:29 final size:30
Alignment explanation
Indices: 71761590--71761647 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
71761580 TCCGAGCCTT
*
71761590 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
71761620 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
71761648 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:71761877 original size:13 final size:13
Alignment explanation
Indices: 71761859--71761890 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
71761849 TTTCCAGCAA
71761859 TTATGAATTTATT
1 TTATGAATTTATT
71761872 TTATGAATTTATT
1 TTATGAATTTATT
*
71761885 TGATGA
1 TTATGA
71761891 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:71762098 original size:50 final size:50
Alignment explanation
Indices: 71761985--71762226 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
71761975 ATTTGGGTAA
* * * *
71761985 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
71762041 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
71762091 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
71762141 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
71762191 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
71762227 TTTGGCATGT
Statistics
Matches: 167, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 93 0.56
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:71762169 original size:100 final size:103
Alignment explanation
Indices: 71761985--71762234 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
71761975 ATTTGGGTAA
*
71761985 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
71762050 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* *
71762091 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
71762153 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
71762191 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
71762235 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:71776695 original size:21 final size:21
Alignment explanation
Indices: 71776671--71776736 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
71776661 GTGGAGGATC
71776671 TTGCAGAAACTGTGGGCTTAG
1 TTGCAGAAACTGTGGGCTTAG
* * *
71776692 TTGCAGGAGA-TG-GAGCCTTGG
1 TTGCA-GAAACTGTG-GGCTTAG
* *
71776713 CTGCAGAAACTGTGGGTTTAG
1 TTGCAGAAACTGTGGGCTTAG
71776734 TTG
1 TTG
71776737 ACGAAGTTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (21 bp):
TTGCAGAAACTGTGGGCTTAG
Found at i:71778899 original size:5 final size:5
Alignment explanation
Indices: 71778889--71778928 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
71778879 AAACAATACC
71778889 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
71778929 GGAATAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:71780403 original size:36 final size:37
Alignment explanation
Indices: 71780363--71780456 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 37
71780353 GTTTTCTAGC
* *
71780363 ATAGTGGTTTGTCATGGGATA-TCTTTAGTTTTAAGG
1 ATAGTGGTTTGTCATGGGATACTCTCTAGTTTTAAAG
* *
71780399 ATAGTGGCTTGTTATGGGATACGTCTCTAGTTTTAAAG
1 ATAGTGGTTTGTCATGGGATAC-TCTCTAGTTTTAAAG
* * *
71780437 ATAATAGTTTGTCATAGGAT
1 ATAGTGGTTTGTCATGGGAT
71780457 GTAAGCCTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 19 0.40
38 28 0.60
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (37 bp):
ATAGTGGTTTGTCATGGGATACTCTCTAGTTTTAAAG
Found at i:71781449 original size:46 final size:46
Alignment explanation
Indices: 71781382--71781476 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
71781372 ATTGTTCATT
71781382 AACTTGGAATCTAATATAAGTTCTTTCAAAATCTTATACTTAGAAA
1 AACTTGGAATCTAATATAAGTTCTTTCAAAATCTTATACTTAGAAA
71781428 AACTTGGAATCTAATATAAGTTCTTTCAAAATCTTATACTTAGAAA
1 AACTTGGAATCTAATATAAGTTCTTTCAAAATCTTATACTTAGAAA
71781474 AAC
1 AAC
71781477 ATGTATAGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (46 bp):
AACTTGGAATCTAATATAAGTTCTTTCAAAATCTTATACTTAGAAA
Found at i:71781736 original size:20 final size:20
Alignment explanation
Indices: 71781711--71781751 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
71781701 AATCAACTAA
71781711 TTCTAATGCATTCAAACATG
1 TTCTAATGCATTCAAACATG
71781731 TTCTAATGCATTCAAACATG
1 TTCTAATGCATTCAAACATG
71781751 T
1 T
71781752 GCTAGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TTCTAATGCATTCAAACATG
Found at i:71785346 original size:26 final size:26
Alignment explanation
Indices: 71785314--71785363 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
71785304 CATATACTGA
71785314 TACTGGCAGCTTTGCTGCGATATTAT
1 TACTGGCAGCTTTGCTGCGATATTAT
*
71785340 TACTGGCAGCTTTGTTGCGATATT
1 TACTGGCAGCTTTGCTGCGATATT
71785364 GATGTGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATATTAT
Found at i:71803433 original size:50 final size:49
Alignment explanation
Indices: 71803280--71803487 Score: 154
Period size: 49 Copynumber: 4.4 Consensus size: 49
71803270 GCTATGCCCC
* * * * *
71803280 AGACATGGTCTTACACTGGCTCATC--CATC-AAGTCGATGCCATGTCCC
1 AGACATGGTCTTACACTGACT-ATCAAAATCGAGGCCGATGCCATGTCCT
* *
71803327 AGACATGGTCTTACACTGACTATCAAAATCGAGGCCGACGCCATGTACT
1 AGACATGGTCTTACACTGACTATCAAAATCGAGGCCGATGCCATGTCCT
* * *
71803376 AGACATGGTCTTACACT-AGCTCTCACATATCCG-TGCCGATGCCATGTCCT
1 AGACATGGTCTTACACTGA-CTATCA-AAAT-CGAGGCCGATGCCATGTCCT
* *
71803426 ATG-CATGGTCTTACATTGACATATC----TCGTA-GCCGATG-CATGTCCC
1 A-GACATGGTCTTACACTGAC-TATCAAAATCG-AGGCCGATGCCATGTCCT
71803471 AGACAT-GTCTTACACTG
1 AGACATGGTCTTACACTG
71803488 GCTTACATCT
Statistics
Matches: 133, Mismatches: 16, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
44 11 0.08
45 13 0.10
46 11 0.08
47 20 0.15
48 4 0.03
49 35 0.26
50 32 0.24
51 7 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
AGACATGGTCTTACACTGACTATCAAAATCGAGGCCGATGCCATGTCCT
Found at i:71803498 original size:46 final size:47
Alignment explanation
Indices: 71803268--71803584 Score: 192
Period size: 46 Copynumber: 6.7 Consensus size: 47
71803258 TATAATGCCA
* * *
71803268 ATGCTATGCCCCAGACATGGTCTTACACTGGC-T-CATCCATC-AAGTCG
1 ATGC-ATGTCCCAGACATGGTCTTACACTGGCTTACAT-C-TCGAGGCCG
* **
71803315 ATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCAAAATCGAGGCCG
1 ATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATCTCGAGGCCG
* * * * * *
71803364 ACGCCATGTACTAGACATGGTCTTACACTAGCTCTCACATATCCG-TGCCG
1 ATG-CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGAGGCCG
* * * *
71803414 ATGCCATGTCCTATG-CATGGTCTTACATTGAC--ATATCTCGTA-GCCG
1 ATG-CATGTCCCA-GACATGGTCTTACACTGGCTTACATCTCG-AGGCCG
71803460 ATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCG
1 ATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCG
* * * * * *
71803506 ATGAATGTCCCAGACAT-TTCTTACACTAGCTCT-CGTCTCAATGCC-
1 ATGCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAGGCCG
*
71803551 ATTGCGATGTCCCAGACATGGTCTTACCCTGGCT
1 A-TGC-ATGTCCCAGACATGGTCTTACACTGGCT
71803585 CACAAACAAC
Statistics
Matches: 216, Mismatches: 34, Indels: 39
0.75 0.12 0.13
Matches are distributed among these distances:
44 12 0.06
45 15 0.07
46 61 0.28
47 43 0.20
48 14 0.06
49 32 0.15
50 33 0.15
51 5 0.02
52 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCG
Found at i:71805107 original size:27 final size:27
Alignment explanation
Indices: 71805059--71805110 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
71805049 AAATTAAAAT
* *
71805059 TTTAATTTTAGAGTGTATATTTAATAC
1 TTTAATTTTAGAATGTACATTTAATAC
*
71805086 TTTAATTTTAGAATGTCCATTTAAT
1 TTTAATTTTAGAATGTACATTTAAT
71805111 TTTATTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.52
Consensus pattern (27 bp):
TTTAATTTTAGAATGTACATTTAATAC
Found at i:71815741 original size:46 final size:45
Alignment explanation
Indices: 71815691--71815833 Score: 136
Period size: 45 Copynumber: 3.2 Consensus size: 45
71815681 TCTAAGTACA
*
71815691 AGCTTAAATTGTTCATCCAAAATAAATGACAATGCTCCTAAGCATG
1 AGCTTAAACTGTTCATCCAAAATAAATGAC-ATGCTCCTAAGCATG
* * * **
71815737 AGCTTAAACTGTT-AGCACAAAAT-AATGATCATACTCCTCAGCACA
1 AGCTTAAACTGTTCATC-CAAAATAAATGA-CATGCTCCTAAGCATG
* * *
71815782 AGTTTAAACTGTTCATCCAAAA-ACAT---ATGCTCCTAAGCGTG
1 AGCTTAAACTGTTCATCCAAAATAAATGACATGCTCCTAAGCATG
71815823 AGCTTAAACTG
1 AGCTTAAACTG
71815834 CACATCCATA
Statistics
Matches: 78, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
41 20 0.26
45 37 0.47
46 21 0.27
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (45 bp):
AGCTTAAACTGTTCATCCAAAATAAATGACATGCTCCTAAGCATG
Found at i:71817865 original size:16 final size:15
Alignment explanation
Indices: 71817841--71817870 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
71817831 AACTGTTTCA
71817841 TTACAAATTTCACTC
1 TTACAAATTTCACTC
71817856 TTACATAATTTCACT
1 TTACA-AATTTCACT
71817871 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:71818195 original size:50 final size:50
Alignment explanation
Indices: 71818082--71818357 Score: 297
Period size: 50 Copynumber: 5.5 Consensus size: 50
71818072 GTGGTATGCA
* * *
71818082 TAGTAGCCTGCACTTAATACTACACATGCGACC-AACAAT-TCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCT-GGTACACG
* ** *
71818131 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATAAACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* *** * * *
71818181 TAGTAGCCTGCACTTAGTACTACACATGTGA-TTGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CCATCTGGTACACG
* *
71818232 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* *** *
71818282 TAGTATCCTGCACTTAGTACTACACATGTGACCTAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-AACCATCTGGTACACG
*
71818333 TAGTAGCCTGCACATAGTACTACAC
1 TAGTAGCCTGCACTTAGTACTACAC
71818358 GTGTTCTCAC
Statistics
Matches: 187, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
49 31 0.17
50 83 0.44
51 72 0.39
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
Found at i:71818255 original size:101 final size:101
Alignment explanation
Indices: 71818131--71818312 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
71818121 TCGGTACACG
*
71818131 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATAAACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTAATAAACGTAGTAGCCTGCACTT
71818196 AGTACTACACATGTGATTGAAGTTGTCGGGTACGCA
66 AGTACTACACATGTGATTGAAGTTGTCGGGTACGCA
* * ** * *
71818232 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTATCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTAATAAACGTAGTAGCCTGCACTT
71818297 AGTACTACACATGTGA
66 AGTACTACACATGTGA
71818313 CCTAAACCAT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTAATAAACGTAGTAGCCTGCACTT
AGTACTACACATGTGATTGAAGTTGTCGGGTACGCA
Found at i:71818335 original size:101 final size:101
Alignment explanation
Indices: 71818082--71818357 Score: 290
Period size: 101 Copynumber: 2.8 Consensus size: 101
71818072 GTGGTATGCA
* * * * * *
71818082 TAGTAGCCTGCACTTAATACTACACATGCGAC--CAACAATTCGG-TACACGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACTGAAACCA-TCGGAAACACATAGTAGCCTGCAC
*
71818144 TTAGTACTACACACGTGACCTAACCATCTAATAAACG
65 TTAGTACTACACACGCGACCTAACCATCTAATAAACG
* **** ** *
71818181 TAGTAGCCTGCACTTAGTACTACACATGTGATTGAAGTTGTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACTGAAACCATCGGAAACACATAGTAGCCTGCACT
* * ** *
71818246 TAGTACTACACATGCGACCTAACTATCTGGTACACG
66 TAGTACTACACACGCGACCTAACCATCTAATAAACG
* **
71818282 TAGTATCCTGCACTTAGTACTACACATGTGACCT-AAACCATCTTAAACACATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CTGAAACCATCGGAAACACATAGTAGCCTGCAC
*
71818346 ATAGTACTACAC
65 TTAGTACTACAC
71818358 GTGTTCTCAC
Statistics
Matches: 145, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
99 29 0.20
100 4 0.03
101 111 0.77
102 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACTGAAACCATCGGAAACACATAGTAGCCTGCACT
TAGTACTACACACGCGACCTAACCATCTAATAAACG
Found at i:71819985 original size:43 final size:42
Alignment explanation
Indices: 71819938--71820061 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 42
71819928 TCGACGACTA
71819938 TTGAAGCGAAC-ATCATTGATTCAAGATCAAATCTTGATGACCC
1 TTGAAGC-AACTA-CATTGATTCAAGATCAAATCTTGATGACCC
* * * *
71819981 TTGAAGCAGACTAAATTGATTCAAGATCAAGTCTCGGTGACCC
1 TTGAAGCA-ACTACATTGATTCAAGATCAAATCTTGATGACCC
*
71820024 TTGAAGCAAACTACATT-ATCCTAAGATCAAATCTTGAT
1 TTGAAGC-AACTACATTGATTC-AAGATCAAATCTTGAT
71820062 AAACCTTAGA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 4 0.06
43 62 0.91
44 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (42 bp):
TTGAAGCAACTACATTGATTCAAGATCAAATCTTGATGACCC
Found at i:71821822 original size:9 final size:9
Alignment explanation
Indices: 71821804--71821844 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
71821794 ATAAGTATAA
71821804 AATTAACCG
1 AATTAACCG
*
71821813 AATTACCCG
1 AATTAACCG
*
71821822 AATTAACCA
1 AATTAACCG
71821831 AATTAACCG
1 AATTAACCG
71821840 AATTA
1 AATTA
71821845 TTTGTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:71821879 original size:5 final size:6
Alignment explanation
Indices: 71821864--71821898 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
71821854 AATTATATGT
71821864 TTTTTA TTTTTA TTTTTA GTTTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA --TTTTTA TTTTTA TTT
71821899 ATCAAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.78
8 6 0.22
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:71823112 original size:31 final size:30
Alignment explanation
Indices: 71823064--71823122 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
71823054 TTATATATCG
71823064 TTATATTAAATTATTTAAATATAATTTATTA
1 TTATATTAAATTATTTAAA-ATAATTTATTA
* *
71823095 TTATATTTAAGTT-TTTAAAATATTTTAT
1 TTATA-TTAAATTATTTAAAATAATTTAT
71823123 CAATAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.32
31 11 0.44
32 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (30 bp):
TTATATTAAATTATTTAAAATAATTTATTA
Found at i:71846948 original size:4 final size:4
Alignment explanation
Indices: 71846939--71846965 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
71846929 CAAACACAAA
71846939 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
71846966 AACCTTGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:71847151 original size:28 final size:29
Alignment explanation
Indices: 71847108--71847176 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
71847098 TTGGGGGTGT
*
71847108 TTTTTTTTTTGTTTTTTGGAGGAGGTTTG
1 TTTTTTTTTTGTTTTTTGGAGGAGGGTTG
71847137 TTTTTTTTTTGTTTTTT-GAGGAGGGTTG
1 TTTTTTTTTTGTTTTTTGGAGGAGGGTTG
71847165 TTTTTTGTTTTG
1 TTTTTT-TTTTG
71847177 GAAAGGCTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 16 0.42
29 22 0.58
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.68
Consensus pattern (29 bp):
TTTTTTTTTTGTTTTTTGGAGGAGGGTTG
Found at i:71847500 original size:3 final size:3
Alignment explanation
Indices: 71847489--71847568 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
71847479 TTTATTTTTT
* *
71847489 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
71847532 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
71847569 ATATGCCCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:71847546 original size:21 final size:18
Alignment explanation
Indices: 71847493--71847568 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 18
71847483 TTTTTTTTAT
* *
71847493 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
71847512 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
71847530 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
71847551 TTTATATTATTA-TATTA
1 TTTATATTATTATTATTA
71847568 T
1 T
71847569 ATATGCCCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.12
18 18 0.36
19 9 0.18
20 5 0.10
21 12 0.24
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:71847569 original size:27 final size:26
Alignment explanation
Indices: 71847480--71847572 Score: 82
Period size: 26 Copynumber: 3.6 Consensus size: 26
71847470 GAGCTTTGTT
* * * *
71847480 TTATTTTTTTTATTTTATTATTTTTA
1 TTATTATTTATATATTATTATTTATA
*
71847506 CTATTATTTATATTATTATTA-TTAT-
1 TTATTATTTATA-TATTATTATTTATA
* * *
71847531 TTCTCATGTATATATTATTATTTATA
1 TTATTATTTATATATTATTATTTATA
71847557 TTATTATATTATATAT
1 TTATTAT-TTATATAT
71847573 GCCCTCTCCA
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
24 8 0.16
25 12 0.24
26 17 0.33
27 14 0.27
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (26 bp):
TTATTATTTATATATTATTATTTATA
Found at i:71847893 original size:3 final size:3
Alignment explanation
Indices: 71847885--71847924 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
71847875 TGTATTTCTA
* *
71847885 TAT TAT TAT TAT TAT TGT TAT TAT TAT TGT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
71847925 TATCATTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:71847905 original size:12 final size:12
Alignment explanation
Indices: 71847885--71847924 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
71847875 TGTATTTCTA
*
71847885 TATTATTATTAT
1 TATTGTTATTAT
71847897 TATTGTTATTAT
1 TATTGTTATTAT
71847909 TATTGTTATTAT
1 TATTGTTATTAT
71847921 TATT
1 TATT
71847925 TATCATTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (12 bp):
TATTGTTATTAT
Found at i:71859424 original size:18 final size:18
Alignment explanation
Indices: 71859403--71859438 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
71859393 TTAAAAGTGT
* *
71859403 TTATGAGTATAAATATAA
1 TTATAAGTACAAATATAA
71859421 TTATAAGTACAAATATAA
1 TTATAAGTACAAATATAA
71859439 ATCATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (18 bp):
TTATAAGTACAAATATAA
Found at i:71860099 original size:5 final size:5
Alignment explanation
Indices: 71860089--71860118 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
71860079 ATGTTTTCGG
71860089 TTTTA TTTTA TTTTA TTTTA TTTT- TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
71860119 AATTGTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:71863880 original size:37 final size:36
Alignment explanation
Indices: 71863805--71863880 Score: 82
Period size: 37 Copynumber: 2.1 Consensus size: 36
71863795 TTTTAATTTG
* ** *
71863805 ATAATGTTTTATAGTTTTTAACTTTTTATATTTCAT
1 ATAATGTTTTATAGTTTTTAACTTTATATAACTAAT
*
71863841 ATAATGTTTTTATAATTTTTTAA-TTTATATAACTAAT
1 ATAATG-TTTTAT-AGTTTTTAACTTTATATAACTAAT
71863878 ATA
1 ATA
71863881 TTATATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
36 6 0.18
37 19 0.58
38 8 0.24
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (36 bp):
ATAATGTTTTATAGTTTTTAACTTTATATAACTAAT
Found at i:71868744 original size:22 final size:23
Alignment explanation
Indices: 71868716--71868768 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
71868706 CCAAAACCTG
71868716 TTTAAAGAC-ATGTACACCCCTC
1 TTTAAAGACTATGTACACCCCTC
* *
71868738 TTTAAAGCCTTATGTATACCCCTC
1 TTTAAAGAC-TATGTACACCCCTC
*
71868762 TCTAAAG
1 TTTAAAG
71868769 CTTTCCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 8 0.31
24 18 0.69
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.32
Consensus pattern (23 bp):
TTTAAAGACTATGTACACCCCTC
Found at i:71871975 original size:23 final size:22
Alignment explanation
Indices: 71871945--71871989 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
71871935 CTAAAAAAAC
*
71871945 CAAAACTTGCTAGAATAGCAGA
1 CAAAACTTGCTAGAACAGCAGA
*
71871967 CAAATACTTGCTAGCACAGCAGA
1 CAAA-ACTTGCTAGAACAGCAGA
71871990 TTAACTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (22 bp):
CAAAACTTGCTAGAACAGCAGA
Found at i:71875922 original size:46 final size:46
Alignment explanation
Indices: 71875603--71875921 Score: 460
Period size: 46 Copynumber: 6.9 Consensus size: 46
71875593 TTTGACATGA
* * ** * *
71875603 TGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
71875649 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
71875695 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
71875741 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
71875787 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
71875833 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
71875879 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
71875922 GAGAGCACAC
Statistics
Matches: 256, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 252 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:71878073 original size:11 final size:11
Alignment explanation
Indices: 71878057--71878115 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
71878047 CTTTATATAC
71878057 TAATAAAATAA
1 TAATAAAATAA
*
71878068 TAATAAAGTAA
1 TAATAAAATAA
71878079 TAATAAAATATA
1 TAATAAAATA-A
* *
71878091 TTATTAAAATAT
1 -TAATAAAATAA
71878103 TAATAAAATAA
1 TAATAAAATAA
71878114 TA
1 TA
71878116 TTTATCTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 30 0.75
12 1 0.03
13 9 0.22
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:71878663 original size:30 final size:30
Alignment explanation
Indices: 71878629--71878690 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
71878619 TTTGTAAGTA
*
71878629 AAACAAGTGAGTCACTTGGTTTTACAAACT
1 AAACAAGTGAGTCACTTGGTCTTACAAACT
71878659 AAACAAGTGAGTCACTTGGTCTTACAAACT
1 AAACAAGTGAGTCACTTGGTCTTACAAACT
71878689 AA
1 AA
71878691 GTTTTCAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (30 bp):
AAACAAGTGAGTCACTTGGTCTTACAAACT
Found at i:71879826 original size:2 final size:2
Alignment explanation
Indices: 71879821--71879854 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
71879811 GATATATGTG
71879821 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
71879855 GCTTGCTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71882430 original size:20 final size:20
Alignment explanation
Indices: 71882407--71882460 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
71882397 TTGTTATATT
*
71882407 TTATAGTTTT-TTTGGATTAA
1 TTATA-TTTTATTTGAATTAA
71882427 TTATATTTTATTTGAATTATA
1 TTATATTTTATTTGAATTA-A
*
71882448 TTTTTATTTTATT
1 -TTATATTTTATT
71882461 ATTTTTAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 13 0.45
21 1 0.03
22 11 0.38
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (20 bp):
TTATATTTTATTTGAATTAA
Found at i:71882462 original size:16 final size:17
Alignment explanation
Indices: 71882425--71882456 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71882415 TTTTTGGATT
71882425 AATTATA-TTTTATTTG
1 AATTATATTTTTATTTG
71882441 AATTATATTTTTATTT
1 AATTATATTTTTATTT
71882457 TATTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
AATTATATTTTTATTTG
Found at i:71891061 original size:17 final size:19
Alignment explanation
Indices: 71891025--71891081 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
71891015 AATTATCAAT
* *
71891025 TTAAAATATAAATATTTAA
1 TTAAAAGATAAATATATAA
71891044 TTAAAA-AT-AATATATAA
1 TTAAAAGATAAATATATAA
71891061 -TAAAAGATAAAATATATAA
1 TTAAAAGAT-AAATATATAA
71891080 TT
1 TT
71891082 TAAGTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 5 0.15
17 10 0.30
18 2 0.06
19 15 0.45
20 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TTAAAAGATAAATATATAA
Found at i:71896628 original size:28 final size:28
Alignment explanation
Indices: 71896583--71896641 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
71896573 AACTTTAACA
*
71896583 TTTTCTCTTTCATCTTCTCTGCCATCTC
1 TTTTCTCTTTCATCTTCTCTGCCATATC
* *
71896611 TTTTCTCTTTCGTTTTCTCTGCCATATC
1 TTTTCTCTTTCATCTTCTCTGCCATATC
71896639 TTT
1 TTT
71896642 CATTTTTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.07, C:0.31, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTCTCTTTCATCTTCTCTGCCATATC
Found at i:71897225 original size:14 final size:16
Alignment explanation
Indices: 71897194--71897225 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
71897184 TGGAAGAGAA
71897194 GATAAAATTGTACAAG
1 GATAAAATTGTACAAG
71897210 GATAAAA-TGT-CAAG
1 GATAAAATTGTACAAG
71897224 GA
1 GA
71897226 ACAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
GATAAAATTGTACAAG
Found at i:71897531 original size:45 final size:45
Alignment explanation
Indices: 71897482--71897568 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
71897472 AATATAAATT
*
71897482 GTCCATCAAAATACAACCAT-TAGAATGATTCAACAAAATAAATAC
1 GTCCATCAAAATACAACCATCTA-AATGATCCAACAAAATAAATAC
* *
71897527 GTCCATCAAAATACATCTATCTAAATGATCCAACAAAATAAA
1 GTCCATCAAAATACAACCATCTAAATGATCCAACAAAATAAA
71897569 ACCATCCATC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.51, C:0.21, G:0.06, T:0.23
Consensus pattern (45 bp):
GTCCATCAAAATACAACCATCTAAATGATCCAACAAAATAAATAC
Found at i:71897577 original size:45 final size:45
Alignment explanation
Indices: 71897483--71897578 Score: 124
Period size: 45 Copynumber: 2.1 Consensus size: 45
71897473 ATATAAATTG
* *
71897483 TCCATCAAAATACAACCATTAGAATGATTCAACAAAATAAATACG
1 TCCATCAAAATACAACCATTAGAATGATCCAACAAAATAAATACA
* *
71897528 TCCATCAAAATACATCTATCTA-AATGATCCAACAAAATAAA-ACCA
1 TCCATCAAAATACAACCAT-TAGAATGATCCAACAAAATAAATA-CA
71897573 TCCATC
1 TCCATC
71897579 GTATGATAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
44 1 0.02
45 42 0.93
46 2 0.04
ACGTcount: A:0.49, C:0.24, G:0.04, T:0.23
Consensus pattern (45 bp):
TCCATCAAAATACAACCATTAGAATGATCCAACAAAATAAATACA
Found at i:71900399 original size:21 final size:22
Alignment explanation
Indices: 71900375--71900421 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
71900365 AGGACTAATC
71900375 AGAAACAAAAC-AAAAAATTTT
1 AGAAACAAAACTAAAAAATTTT
*
71900396 AG-AA-AAAACTTAAAAATTTT
1 AGAAACAAAACTAAAAAATTTT
71900416 A-AAACA
1 AGAAACA
71900422 GGGGTCACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
19 5 0.23
20 14 0.64
21 3 0.14
ACGTcount: A:0.66, C:0.09, G:0.04, T:0.21
Consensus pattern (22 bp):
AGAAACAAAACTAAAAAATTTT
Found at i:71902056 original size:48 final size:48
Alignment explanation
Indices: 71901995--71902208 Score: 220
Period size: 48 Copynumber: 4.5 Consensus size: 48
71901985 TATGAGAGTC
* *
71901995 AGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGAGATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAGATACAAGCT
* * * * * *
71902043 AATGTAAGACATGTCTGGGACATGCATCGGCATTGAGACA-A-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAGATACAAGCT
* * *
71902089 AGTGTAAGACATGTCTGGAACATGCATAGGCCTCGAGAGATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAGATACAAGCT
* * * * * * *
71902137 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGA-TG-TGCTAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGAGAGATACAAGCT
71902184 AGTGTAAGACTATGTCTGGGACATG
1 AGTGTAAGAC-ATGTCTGGGACATG
71902209 ACGTTGGCAT
Statistics
Matches: 136, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
46 37 0.27
47 18 0.13
48 72 0.53
49 9 0.07
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAGATACAAGCT
Found at i:71902106 original size:46 final size:48
Alignment explanation
Indices: 71901995--71902166 Score: 222
Period size: 48 Copynumber: 3.6 Consensus size: 48
71901985 TATGAGAGTC
* * *
71901995 AGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGAGATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGATACAAGCT
* * * * *
71902043 AATGTAAGACATGTCTGGGACATGCATCGGCATTGAGACA-A-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGATACAAGCT
* *
71902089 AGTGTAAGACATGTCTGGAACATGCATAGGCCTCGAGAGATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGATACAAGCT
*
71902137 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACATGTCTGGGACAT-GCATCG
71902167 ACTTTGATGT
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
46 37 0.36
47 2 0.02
48 59 0.57
49 5 0.05
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGATACAAGCT
Done.