Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 171 of 284
Found at i:57560742 original size:27 final size:27
Alignment explanation
Indices: 57560327--57560744 Score: 385
Period size: 27 Copynumber: 15.7 Consensus size: 27
57560317 TTACACTACA
* * *
57560327 AGGGTATTTCGGTAATTTTACACCA-TA
1 AGGGTATTTCGATAATTTTACA-AATTG
*
57560354 AGGGTATTTCGATAATTTTACAAA-TC
1 AGGGTATTTCGATAATTTTACAAATTG
* * *
57560380 AGGGGTGTTTCGGTAATTTTACAAATCG
1 A-GGGTATTTCGATAATTTTACAAATTG
* * *
57560408 GGGGTATTTTGACAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATTG
*
57560435 AAGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATTG
* *
57560462 AGGGTGTTTCGATAATTTTAAAAATCT-
1 AGGGTATTTCGATAATTTTACAAAT-TG
*
57560489 AGGGTGTTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATTG
* * * *
57560516 AGGGTGTTTCGATAATTTCAAAAATCG
1 AGGGTATTTCGATAATTTTACAAATTG
* *
57560543 A-GGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATTG
* *
57560569 AGGGTATTT-TAGTAATTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATTG
57560595 AGGGTA-TTC-AGTAATTTTACAAATT-
1 AGGGTATTTCGA-TAATTTTACAAATTG
* *
57560620 AGGGGTATTTCAATAATTTCAC-AATTG
1 A-GGGTATTTCGATAATTTTACAAATTG
* *
57560647 AGGGTATTTCGATAATTTTACGAATCG
1 AGGGTATTTCGATAATTTTACAAATTG
* **
57560674 AGGGTATTTC-AGTAATTTCAC-AATCA
1 AGGGTATTTCGA-TAATTTTACAAATTG
*
57560700 AGGGTATTT-TAGTAATTTTACAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATTG
**
57560727 AGGGTATTTTAATAATTT
1 AGGGTATTTCGATAATTT
57560745 CTCTTTATTA
Statistics
Matches: 332, Mismatches: 42, Indels: 34
0.81 0.10 0.08
Matches are distributed among these distances:
25 13 0.04
26 92 0.28
27 224 0.67
28 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATTG
Found at i:57563624 original size:27 final size:28
Alignment explanation
Indices: 57563562--57563625 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
57563552 AAGGGAAAAA
* **
57563562 CAGTCATTTTACCCTACCGGGGTATGTT
1 CAGTCATTTTACACTACAAGGGTATGTT
57563590 -AGTCATTTTACACTACAAGGGTAT-TT
1 CAGTCATTTTACACTACAAGGGTATGTT
*
57563616 CAGTAATTTT
1 CAGTCATTTT
57563626 GTGACAGCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (28 bp):
CAGTCATTTTACACTACAAGGGTATGTT
Found at i:57575979 original size:53 final size:52
Alignment explanation
Indices: 57575715--57576100 Score: 391
Period size: 53 Copynumber: 7.2 Consensus size: 52
57575705 GGTATTTCGA
* * * *
57575715 TAATTTTACAAATCAGAGGTGT-TTTGGCAATTTTACAAATCGAGGGTATTTCAA
1 TAATTTCAC-AATC-GAGG-GTATTTGGTAATTTTACAAATCGAGGGTATTTTAG
* * *
57575769 TAATTTTACAAATCGAGGGTATTTCGGTAATTTTATAAATCGAGGGTA-TTTCG
1 TAATTTCAC-AATCGAGGGTATTT-GGTAATTTTACAAATCGAGGGTATTTTAG
* * * *
57575822 ATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTGTTTTCA-
1 -TAATTTCAC-AATCGAGGGTATTT-GGTAATTTTACAAATCGAGGGTATTTT-AG
** *
57575877 TAATTTCACAGATCGAGGGTATTTCGGTAATTTTACAAATTAAGAGTATTTTAG
1 TAATTTCACA-ATCGAGGGTATTT-GGTAATTTTACAAATCGAGGGTATTTTAG
* * * * *
57575931 TAATTTCATAACCGAGGGTATTTAAGTAACTTTACAAATCGAGGGTATTTCAG
1 TAATTTCACAATCGAGGGTATTT-GGTAATTTTACAAATCGAGGGTATTTTAG
* * *
57575984 TAATTTAACAATTGAGGATATTTTGGTAATTTTACAAATCGAGGGTATTTTAG
1 TAATTTCACAATCGAGGGTA-TTTGGTAATTTTACAAATCGAGGGTATTTTAG
* * *
57576037 TAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAG
1 TAATTTCACAATCGAGGGTATTT-GGTAATTTTACAAATCGAGGGTATTTTAG
*
57576090 TAATTTTACAA
1 TAATTTCACAA
57576101 ATCAAGGATA
Statistics
Matches: 282, Mismatches: 41, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
52 5 0.02
53 140 0.50
54 134 0.48
55 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (52 bp):
TAATTTCACAATCGAGGGTATTTGGTAATTTTACAAATCGAGGGTATTTTAG
Found at i:57576104 original size:27 final size:27
Alignment explanation
Indices: 57575703--57576122 Score: 439
Period size: 27 Copynumber: 15.7 Consensus size: 27
57575693 TTACACTACA
57575703 AGGGTATTTC-GATAATTTTACAAATCAG
1 AGGGTATTTCAG-TAATTTTACAAATC-G
* *
57575731 AGGTGT-TTT-GGCAATTTTACAAATCG
1 AGG-GTATTTCAGTAATTTTACAAATCG
*
57575757 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
57575784 AGGGTATTTCGGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
57575811 AGGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
*
57575838 AGGGTGTTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * *
57575865 AGGGTGTTTTCA-TAATTTCACAGATCG
1 AGGGT-ATTTCAGTAATTTTACAAATCG
* **
57575892 AGGGTATTTCGGTAATTTTACAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
57575919 AGAGTATTTTAGTAA-TTT-CATAACCG
1 AGGGTATTTCAGTAATTTTACA-AATCG
* *
57575945 AGGGTATTTAAGTAACTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
57575972 AGGGTATTTCAGTAATTTAAC-AATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
57575998 AGGATATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
57576025 AGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
57576051 AGGGTATTTC-GATAATTTTACAAATCA
1 AGGGTATTTCAG-TAATTTTACAAATCG
*
57576078 AGGGTATTTCAGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
57576105 AGGATATGTCAGTAATTT
1 AGGGTATTTCAGTAATTT
57576123 CTCTTTATTA
Statistics
Matches: 333, Mismatches: 44, Indels: 31
0.82 0.11 0.08
Matches are distributed among these distances:
25 5 0.02
26 73 0.22
27 239 0.72
28 14 0.04
29 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:57586249 original size:27 final size:27
Alignment explanation
Indices: 57586219--57586396 Score: 155
Period size: 27 Copynumber: 6.6 Consensus size: 27
57586209 ATATTGAGCC
* *
57586219 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
57586246 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
57586273 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
57586301 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
57586328 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
57586355 CGCACACTTAGTGCAACA-AAGTCGAA-T
1 CGCACACTTAGTGCTACATAA-TC-AACT
57586382 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57586397 GTACAATTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.79
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:57606578 original size:50 final size:50
Alignment explanation
Indices: 57606459--57606736 Score: 231
Period size: 50 Copynumber: 5.5 Consensus size: 50
57606449 ACTGTGAGAA
* * *** * *
57606459 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACGGATTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA--TAGTTAGGT
* * * *
57606511 CACGTATGTAGTACTAAGAGTAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
57606561 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTA-ACAACTTTA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGA-TA-GTTAGGT
* * ** * *
57606612 CACGTGTGTATTACTAAGTGCAGGC-ACTACGTGTTTCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
57606661 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
*
57606710 CACATGTGTAGTACTAAGTGTAGGCTA
1 CACATGTGTAGTACTAAGTGCAGGCTA
57606737 ATATGCGTAC
Statistics
Matches: 179, Mismatches: 41, Indels: 15
0.76 0.17 0.06
Matches are distributed among these distances:
48 3 0.02
49 54 0.30
50 62 0.35
51 25 0.14
52 35 0.20
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:57606676 original size:49 final size:50
Alignment explanation
Indices: 57606463--57606751 Score: 235
Period size: 49 Copynumber: 5.8 Consensus size: 50
57606453 TGAGAACACA
* * ** *
57606463 TGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGACGGATTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAA-ATGG--TTAGGTCACG
* * * * * * *
57606515 TATGTAGTACTAAGAGTAGGCTACTACGTGTACCAGATAGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCACG
* * *** *
57606565 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTAACAACTTTA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AA-ATGGTTAGGTCACG
* **
57606616 TGTGTATTACTAAGTGCAGGC-ACTACGTGTTTCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCACG
* ** * *
57606665 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTT-GGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCACG
* * * *
57606714 TGTGTAGTACTAAGTGTAGGCTAATATGCGTACCAAAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAAT
57606752 AGCTTCGGTT
Statistics
Matches: 184, Mismatches: 48, Indels: 13
0.75 0.20 0.05
Matches are distributed among these distances:
48 4 0.02
49 64 0.35
50 59 0.32
51 24 0.13
52 32 0.17
53 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTAGGTCACG
Found at i:57606676 original size:100 final size:101
Alignment explanation
Indices: 57606459--57606690 Score: 265
Period size: 100 Copynumber: 2.3 Consensus size: 101
57606449 ACTGTGAGAA
* * * * *
57606459 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT--TTAA-GACGGATTTAGGTCACGTATGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTAACAAC---TTTA-ATCACGTATGTA
* *
57606521 GTACTAAGAGTAGGCTACTACGTGTACCAGATAGTTAGGT
62 GTACTAAGAGCAGGCTACTACGTGTACCAAATAGTTAGGT
* * *
57606561 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTAACAACTTTAATCACGTGTGTATTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTAACAACTTTAATCACGTATGTAGTAC
* ** *
57606626 TAAGTGCAGGC-ACTACGTGTTTCAAATGGTTAGGT
66 TAAGAGCAGGCTACTACGTGTACCAAATAGTTAGGT
*
57606661 CACGTGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
57606691 CATGTACCGG
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
100 48 0.43
101 22 0.20
102 36 0.32
104 3 0.03
105 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (101 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTAACAACTTTAATCACGTATGTAGTAC
TAAGAGCAGGCTACTACGTGTACCAAATAGTTAGGT
Found at i:57610680 original size:21 final size:21
Alignment explanation
Indices: 57610654--57610695 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
57610644 TTTTCTCAAG
57610654 TAAGTTAATCGAAGTTGATGC
1 TAAGTTAATCGAAGTTGATGC
57610675 TAAGTTAATCGAAGTTGATGC
1 TAAGTTAATCGAAGTTGATGC
57610696 CTTCAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (21 bp):
TAAGTTAATCGAAGTTGATGC
Found at i:57612565 original size:33 final size:33
Alignment explanation
Indices: 57612528--57612594 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
57612518 CATCTTCTAC
*
57612528 CCCATGGCCAAAACATGCATGGAGAAGACATAG
1 CCCATGGCCAAAACATCCATGGAGAAGACATAG
* *
57612561 CCCATGGCCGAAACTTCCATGGAGAAGACATAG
1 CCCATGGCCAAAACATCCATGGAGAAGACATAG
57612594 C
1 C
57612595 TAGGGTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.27, G:0.24, T:0.13
Consensus pattern (33 bp):
CCCATGGCCAAAACATCCATGGAGAAGACATAG
Found at i:57613516 original size:50 final size:48
Alignment explanation
Indices: 57613451--57613694 Score: 195
Period size: 50 Copynumber: 4.9 Consensus size: 48
57613441 AAGATGGTTT
* * *
57613451 TAGGTCACGTGTGTAGTACTAAGAGCAGGCTATTACGTGTACCAAATAG
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAAT-G
* * *
57613500 TGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGACAACT-
1 T-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC--A-AA-TG
* * * * * *
57613552 TCA-ATCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGG
1 T-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAAT-G
* * ** *
57613601 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATTG
1 -TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAAATG
* * * *
57613651 TTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
57613695 GATAGCTTCG
Statistics
Matches: 154, Mismatches: 31, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 39 0.25
50 74 0.48
51 33 0.21
52 3 0.02
53 2 0.01
54 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (48 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATG
Found at i:57613582 original size:101 final size:101
Alignment explanation
Indices: 57613455--57613636 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
57613445 TGGTTTTAGG
* * *
57613455 TCACGTGTGTAGTACTAAGAGCAGGCTATTACGTGTACCAAATAGTGAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGAGCAGGCTACTACATGTACCAAATAGTGAGGTCACATGTGTAGTAC
57613520 TAAGTGCAGGCTACTATGCGTACCTGACAACTTCAA
66 TAAGTGCAGGCTACTATGCGTACCTGACAACTTCAA
* * * * * * *
57613556 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGAGCAGGCTACTACATGTACCAAATAGTGAGGTCACATGTGTAGTAC
*
57613621 TAAGTGTAGGCTACTA
66 TAAGTGCAGGCTACTA
57613637 CGTGTACTGG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGAGCAGGCTACTACATGTACCAAATAGTGAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCTGACAACTTCAA
Found at i:57613728 original size:150 final size:151
Alignment explanation
Indices: 57613450--57613731 Score: 377
Period size: 150 Copynumber: 1.9 Consensus size: 151
57613440 TAAGATGGTT
*
57613450 TTAGGTCACGTGTGTAGTACTAAGAGCAGGCTATTACGTGTACCAAATAGTGAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGAGCAGGCTACTACGTGTACCAAATAGTGAGGTCGCATGTGT
* ** * *
57613515 AGTACTAAGTGCAGGCTACTATGCGTACCTGACAACTTCAATCACGTGTGTAGTACTAAGTGTAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGACAACTTCAATCACAAGGGTAGTAATAAGTGTAG
57613580 GCTACTACATGTATCAGATGG
131 GCTACTACATGTATCAGATGG
* * *** * *
57613601 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATTGT-TGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGAGCAGGCTACTACGTGTACCAAATAGTGAGGTCGCATGTGT
* * ** * * *
57613665 AGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCGGTTACAAGGGTGGTAATATGTGTAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGACAACTTCAATCACAAGGGTAGTAATAAGTGTAG
57613730 GC
131 GC
57613732 AACCGTGTAT
Statistics
Matches: 111, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
150 67 0.60
151 44 0.40
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTACTAAGAGCAGGCTACTACGTGTACCAAATAGTGAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCAGACAACTTCAATCACAAGGGTAGTAATAAGTGTAG
GCTACTACATGTATCAGATGG
Found at i:57615704 original size:17 final size:18
Alignment explanation
Indices: 57615682--57615716 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
57615672 CATTACGGGC
57615682 TGTGTGGG-CCACATGGG
1 TGTGTGGGCCCACATGGG
57615699 TGTGTGGGCCCACATGGG
1 TGTGTGGGCCCACATGGG
57615717 CTCGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.20, G:0.46, T:0.23
Consensus pattern (18 bp):
TGTGTGGGCCCACATGGG
Found at i:57619380 original size:43 final size:42
Alignment explanation
Indices: 57619345--57619435 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
57619335 TCTTACTTGT
* *
57619345 AATCAAATATCGATGCCATTGTCCCAGACAGGGTCTTACACGA
1 AATCAAATA-CGAAGCCAATGTCCCAGACAGGGTCTTACACGA
* *
57619388 AATCAAATACGAAGCCAATGTCCTAGACATGGTCTTACACGTA
1 AATCAAATACGAAGCCAATGTCCCAGACAGGGTCTTACACG-A
57619431 AATCA
1 AATCA
57619436 TAAGTCGATG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (42 bp):
AATCAAATACGAAGCCAATGTCCCAGACAGGGTCTTACACGA
Found at i:57619423 original size:42 final size:43
Alignment explanation
Indices: 57619324--57619473 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
57619314 ATGCCAACAA
* ** * * *
57619324 CCCAGACGTGGTCTTACTTGTAATCAAATATCGATGCCATTGT
1 CCCAGACATGGTCTTACACGAAATCAAATATCGAAGCCAATGT
*
57619367 CCCAGACAGGGTCTTACACGAAATCAAATA-CGAAGCCAATGT
1 CCCAGACATGGTCTTACACGAAATCAAATATCGAAGCCAATGT
* * * **
57619409 CCTAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAACAT
1 CCCAGACATGGTCTTACACG-AAATCA-AATATCGAAGCCAATGT
**
57619453 CCCAGATGTGGTCTTACACGA
1 CCCAGACATGGTCTTACACGA
57619474 TAGCACATAT
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 28 0.32
43 32 0.36
44 28 0.32
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACGAAATCAAATATCGAAGCCAATGT
Found at i:57621292 original size:58 final size:58
Alignment explanation
Indices: 57621230--57621345 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
57621220 GAATTTGGAC
*
57621230 ATGTCTTGTCAAATACCAATTTAATAAGAAAAAAATGTTGATTTTCCAGAAACAAAGT
1 ATGTCTTGTCAAATACCAATTTAATAAGAAAAAAATGTTGAGTTTCCAGAAACAAAGT
* *
57621288 ATGTCTTGTCAAATACCAATTTAATGAGAAAATAATGTTGAGTTTCCAGAAACAAAGT
1 ATGTCTTGTCAAATACCAATTTAATAAGAAAAAAATGTTGAGTTTCCAGAAACAAAGT
57621346 TTTATATTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (58 bp):
ATGTCTTGTCAAATACCAATTTAATAAGAAAAAAATGTTGAGTTTCCAGAAACAAAGT
Found at i:57622244 original size:36 final size:35
Alignment explanation
Indices: 57622186--57622289 Score: 145
Period size: 36 Copynumber: 2.9 Consensus size: 35
57622176 TTTACATGCA
* **
57622186 AATCAAAATCAGTATAGCAGCATGCTTAACATGTG
1 AATCAAAATCAGAATAATAGCATGCTTAACATGTG
57622221 AATCAAAAATCAGAATAATAGCATGCTTAACATGTG
1 AATC-AAAATCAGAATAATAGCATGCTTAACATGTG
** *
57622257 AATCGGAATCAGAATAATAGCATGTTTAACATG
1 AATCAAAATCAGAATAATAGCATGCTTAACATG
57622290 CAAATCAGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
35 30 0.48
36 32 0.52
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (35 bp):
AATCAAAATCAGAATAATAGCATGCTTAACATGTG
Found at i:57622296 original size:29 final size:32
Alignment explanation
Indices: 57622204--57622301 Score: 85
Period size: 35 Copynumber: 2.9 Consensus size: 32
57622194 TCAGTATAGC
*
57622204 AGCATGCTTAACATGTGAATCAAAAATCAGAATAAT
1 AGCATGCTTAACA-GTG-A-C-GAAATCAGAATAAT
*
57622240 AGCATGCTTAACATGTGAATCGGAATCAGAATAAT
1 AGCATGCTTAACA-GTG-A-CGAAATCAGAATAAT
*
57622275 AGCATGTTTAACA-TG-C-AAATCAGAATA
1 AGCATGCTTAACAGTGACGAAATCAGAATA
57622302 TTCAAATCAG
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
29 10 0.17
30 1 0.02
33 2 0.03
35 24 0.41
36 21 0.36
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (32 bp):
AGCATGCTTAACAGTGACGAAATCAGAATAAT
Found at i:57625138 original size:40 final size:40
Alignment explanation
Indices: 57625079--57625442 Score: 602
Period size: 40 Copynumber: 9.1 Consensus size: 40
57625069 GAGCATTGGA
*
57625079 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
57625119 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
57625159 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
57625199 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
57625239 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
57625279 ATATATCCGGGCTAAGACCCGAAAGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
57625319 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
57625359 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
57625399 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
57625439 ATAT
1 ATAT
57625443 NNNNNNNNNN
Statistics
Matches: 310, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 310 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:57636600 original size:16 final size:16
Alignment explanation
Indices: 57636579--57636611 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57636569 TTGTAACGCC
57636579 CCAAAAATCCTGAAAT
1 CCAAAAATCCTGAAAT
57636595 CCAAAAATCCTGAAAT
1 CCAAAAATCCTGAAAT
57636611 C
1 C
57636612 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (16 bp):
CCAAAAATCCTGAAAT
Found at i:57637853 original size:16 final size:16
Alignment explanation
Indices: 57637832--57637882 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
57637822 ATGAATCTGC
*
57637832 AAAAGCCGAAATGCCA
1 AAAAGCCGAAAAGCCA
*
57637848 AAAAGCCAAAAAGCCA
1 AAAAGCCGAAAAGCCA
*
57637864 AAATGCCGAAAAGCCA
1 AAAAGCCGAAAAGCCA
57637880 AAA
1 AAA
57637883 GTTGGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.57, C:0.24, G:0.16, T:0.04
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:57637857 original size:8 final size:8
Alignment explanation
Indices: 57637832--57637882 Score: 66
Period size: 8 Copynumber: 6.4 Consensus size: 8
57637822 ATGAATCTGC
*
57637832 AAAAGCCG
1 AAAAGCCA
*
57637840 AAATGCCA
1 AAAAGCCA
57637848 AAAAGCCA
1 AAAAGCCA
57637856 AAAAGCCA
1 AAAAGCCA
* *
57637864 AAATGCCG
1 AAAAGCCA
57637872 AAAAGCCA
1 AAAAGCCA
57637880 AAA
1 AAA
57637883 GTTGGGCTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.57, C:0.24, G:0.16, T:0.04
Consensus pattern (8 bp):
AAAAGCCA
Found at i:57637862 original size:24 final size:24
Alignment explanation
Indices: 57637832--57637882 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
57637822 ATGAATCTGC
*
57637832 AAAAGCCGAAATGCCAAAAAGCCA
1 AAAAGCCAAAATGCCAAAAAGCCA
*
57637856 AAAAGCCAAAATGCCGAAAAGCCA
1 AAAAGCCAAAATGCCAAAAAGCCA
57637880 AAA
1 AAA
57637883 GTTGGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.24, G:0.16, T:0.04
Consensus pattern (24 bp):
AAAAGCCAAAATGCCAAAAAGCCA
Found at i:57638013 original size:9 final size:9
Alignment explanation
Indices: 57637989--57638024 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
57637979 AGAATTGGCC
57637989 AAATGGGCT
1 AAATGGGCT
57637998 GAAATGGGCT
1 -AAATGGGCT
57638008 AAATGGGCT
1 AAATGGGCT
57638017 AAATGGGC
1 AAATGGGC
57638025 CTGATGGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.33, C:0.11, G:0.36, T:0.19
Consensus pattern (9 bp):
AAATGGGCT
Found at i:57638035 original size:18 final size:18
Alignment explanation
Indices: 57637989--57638024 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
57637979 AGAATTGGCC
57637989 AAATGGGCTGAAATGGGCT
1 AAATGGGCT-AAATGGGCT
57638008 AAATGGGCTAAATGGGC
1 AAATGGGCTAAATGGGC
57638025 CTGATGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.33, C:0.11, G:0.36, T:0.19
Consensus pattern (18 bp):
AAATGGGCTAAATGGGCT
Found at i:57638214 original size:28 final size:29
Alignment explanation
Indices: 57638107--57638221 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
57638097 GAATGACTAT
* * * *
57638107 AATATGATTTAGGCCAAATGGGCCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* *
57638136 AATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATATG
*
57638165 AATATGAATTGGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATATG
*
57638194 AATAAG-ATTGGGCCTAGTGGGCCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
57638222 CATGTATGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
28 20 0.27
29 53 0.73
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATATG
Found at i:57642305 original size:16 final size:16
Alignment explanation
Indices: 57642284--57642318 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57642274 ATGAATCTGC
*
57642284 AAAAGCAGAAATGCCA
1 AAAAGCAGAAAAGCCA
*
57642300 AAAAGCCGAAAAGCCA
1 AAAAGCAGAAAAGCCA
57642316 AAA
1 AAA
57642319 GTTGGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.20, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAAGCAGAAAAGCCA
Found at i:57642586 original size:29 final size:29
Alignment explanation
Indices: 57642530--57642648 Score: 109
Period size: 29 Copynumber: 4.2 Consensus size: 29
57642520 GTGAGAATGA
* * * *
57642530 ATAT-AATATGATTTAGGCCCAATGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* *
57642558 ATATGAATGTGAATTGGGCCTAGTAGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* * *
57642587 ATAAGATTATGAACTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTAG-TGGGCC
* *
57642616 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
57642644 ATATG
1 ATATG
57642649 CATGCATGTA
Statistics
Matches: 71, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
28 23 0.32
29 48 0.68
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAGTGGGCC
Found at i:57645476 original size:8 final size:8
Alignment explanation
Indices: 57645463--57645492 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
57645453 TAACGCCCCA
57645463 AAAATCCC
1 AAAATCCC
57645471 AAAATCCC
1 AAAATCCC
57645479 AAAATCCC
1 AAAATCCC
*
57645487 GAAATC
1 AAAATC
57645493 TTGAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.33, G:0.03, T:0.13
Consensus pattern (8 bp):
AAAATCCC
Found at i:57646731 original size:8 final size:8
Alignment explanation
Indices: 57646714--57646748 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
57646704 ATGAATCGGC
57646714 AAAAGCCG
1 AAAAGCCG
*
57646722 AAATGCCG
1 AAAAGCCG
*
57646730 AAAAGTCG
1 AAAAGCCG
57646738 AAAAGCCG
1 AAAAGCCG
57646746 AAA
1 AAA
57646749 GTTGGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.51, C:0.20, G:0.23, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:57647005 original size:29 final size:28
Alignment explanation
Indices: 57646959--57647014 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
57646949 TATGAGCATG
*
57646959 AATATAATATGATTTGGGCCTAATGGGT
1 AATATAATATGAATTGGGCCTAATGGGT
* *
57646987 AATATGAATCTGAATTGGGCCTAGTGGG
1 AATAT-AATATGAATTGGGCCTAATGGG
57647015 CCATATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.30, C:0.09, G:0.29, T:0.32
Consensus pattern (28 bp):
AATATAATATGAATTGGGCCTAATGGGT
Found at i:57660584 original size:20 final size:20
Alignment explanation
Indices: 57660559--57660599 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
57660549 GGTCAATCAA
57660559 AGTCCATACTTGGTTTTCAT
1 AGTCCATACTTGGTTTTCAT
57660579 AGTCCATACTTGGTTTTCAT
1 AGTCCATACTTGGTTTTCAT
57660599 A
1 A
57660600 CATGGAATCC
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:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (20 bp):
AGTCCATACTTGGTTTTCAT
Found at i:57663648 original size:39 final size:39
Alignment explanation
Indices: 57663537--57663666 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
57663527 GGACTAAGAT
* * *
57663537 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
**
57663577 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
57663617 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
57663656 CCGAAGGCATT
1 CCGAAGGCATT
57663667 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.47
40 42 0.53
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:57663686 original size:79 final size:79
Alignment explanation
Indices: 57663537--57663701 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
57663527 GGACTAAGAT
* * * ** ** *
57663537 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
57663602 AATCCGGGTTATGTC
66 AATCC-GGTTAAATC
* * * *
57663617 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
57663681 TATCCGGTTAAATC
66 AATCCGGTTAAATC
57663695 CCGAAGG
1 CCGAAGG
57663702 TACGTGATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.70
80 7 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:57676191 original size:40 final size:40
Alignment explanation
Indices: 57676108--57676330 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
57676098 TTGAATACTG
* * * * * *
57676108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
57676148 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
57676188 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
57676228 TACGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
57676268 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
57676307 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57676331 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:57679787 original size:6 final size:6
Alignment explanation
Indices: 57679766--57679806 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
57679756 GTACCTAAAT
* *
57679766 AGTAATC AGTAAC AGTAGC AGTAAC AGTAAC AGTAAT AGTA
1 AGTAA-C AGTAAC AGTAAC AGTAAC AGTAAC AGTAAC AGTA
57679807 TTTAACACAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (6 bp):
AGTAAC
Found at i:57679806 original size:18 final size:19
Alignment explanation
Indices: 57679763--57679806 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
57679753 ACAGTACCTA
57679763 AATAGTAATCAGTAACAGT
1 AATAGTAATCAGTAACAGT
**
57679782 AGCAGTAA-CAGTAACAGT
1 AATAGTAATCAGTAACAGT
57679800 AATAGTA
1 AATAGTA
57679807 TTTAACACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (19 bp):
AATAGTAATCAGTAACAGT
Found at i:57679836 original size:45 final size:45
Alignment explanation
Indices: 57679786--57679887 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 45
57679776 AACAGTAGCA
* *
57679786 GTAACAGTAACAGTAATAGTATTTAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACAGTAACAGTATTTAACACACAAAGTGTC-GAATCG
** *
57679831 GTAACAGTAATGGTAACAGTATTTGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAGTATTTAACACACAAAGTGTCGAATCG
*
57679876 GTAATAGTAACA
1 GTAACAGTAACA
57679888 ATAGTCGGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 47 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTTAACACACAAAGTGTCGAATCG
Found at i:57680954 original size:20 final size:19
Alignment explanation
Indices: 57680927--57680968 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
57680917 ATATAAATCT
57680927 ATAACAATTA-ATAATTATA
1 ATAACAATTATAT-ATTATA
57680946 ATAATCAATTATATATTATA
1 ATAA-CAATTATATATTATA
57680966 ATA
1 ATA
57680969 TATATAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAACAATTATATATTATA
Found at i:57693846 original size:15 final size:16
Alignment explanation
Indices: 57693807--57693846 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
57693797 ATTGTTTTCT
57693807 TTTTCATTTAATTAAA
1 TTTTCATTTAATTAAA
* *
57693823 TTGTCATTTAA-TAAC
1 TTTTCATTTAATTAAA
57693838 TTTTCATTT
1 TTTTCATTT
57693847 TTCCAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTCATTTAATTAAA
Found at i:57707188 original size:52 final size:52
Alignment explanation
Indices: 57707131--57707231 Score: 193
Period size: 52 Copynumber: 1.9 Consensus size: 52
57707121 ATAGTGTGGG
57707131 CGACTTCGACTTCAAAATCCCGAGTACGATAGCTGAAGAACCAAAATCTTGT
1 CGACTTCGACTTCAAAATCCCGAGTACGATAGCTGAAGAACCAAAATCTTGT
*
57707183 CGACTTCGACTTCAAAATCCCGAGTCCGATAGCTGAAGAACCAAAATCT
1 CGACTTCGACTTCAAAATCCCGAGTACGATAGCTGAAGAACCAAAATCT
57707232 ATAAAACAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (52 bp):
CGACTTCGACTTCAAAATCCCGAGTACGATAGCTGAAGAACCAAAATCTTGT
Found at i:57707643 original size:40 final size:40
Alignment explanation
Indices: 57707606--57707785 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
57707596 GCTACTCGTT
*
57707606 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57707646 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* **
57707686 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
57707725 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
57707766 CAAA-GCCTTCGGGACTTAGC
1 CAAATGCCTTCGGGACTTAGC
57707786 AAGGACATCA
Statistics
Matches: 119, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 29 0.24
40 71 0.60
41 16 0.13
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:57707774 original size:79 final size:80
Alignment explanation
Indices: 57707606--57707785 Score: 206
Period size: 79 Copynumber: 2.2 Consensus size: 80
57707596 GCTACTCGTT
* **
57707606 CAAATGCCTTCGGGACATAGCCCG-GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGAAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
57707670 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* **
57707687 CAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
57707750 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
57707766 CAAAGCCTTCGGGACTTAGC
1 CAAAGCCTTCGGGACTTAGC
57707786 AAGGACATCA
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
78 3 0.04
79 58 0.69
80 20 0.24
81 3 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:57715525 original size:39 final size:40
Alignment explanation
Indices: 57715436--57715536 Score: 159
Period size: 39 Copynumber: 2.5 Consensus size: 40
57715426 NNNNNNNNNN
*
57715436 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
* *
57715476 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
*
57715515 TAGTATCTCGCACAAATGCCTT
1 TAGTAACTCGCACAAATGCCTT
57715537 TGGATCTTAG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 31 0.55
40 25 0.45
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
Found at i:57720050 original size:9 final size:9
Alignment explanation
Indices: 57720036--57720156 Score: 63
Period size: 9 Copynumber: 13.4 Consensus size: 9
57720026 TAAGTATAAT
57720036 TAAGTTATG
1 TAAGTTATG
57720045 TAAGTTATG
1 TAAGTTATG
* * *
57720054 ATATGATATA
1 -TAAGTTATG
*
57720064 T-ATTTATG
1 TAAGTTATG
57720072 T-A-TTATG
1 TAAGTTATG
57720079 TAAGTTATG
1 TAAGTTATG
* *
57720088 CAAATTATG
1 TAAGTTATG
*
57720097 TAAGATATGATA
1 TAAG-T-T-ATG
*
57720109 TATATTTATG
1 TA-AGTTATG
57720119 T-A-TTATG
1 TAAGTTATG
*
57720126 TAAGTTTTG
1 TAAGTTATG
*
57720135 TAAATTATG
1 TAAGTTATG
*
57720144 TAAATTATG
1 TAAGTTATG
57720153 TAAG
1 TAAG
57720157 ATATAATATA
Statistics
Matches: 85, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
7 12 0.14
8 8 0.09
9 47 0.55
10 10 0.12
11 2 0.02
12 5 0.06
13 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:57720085 original size:43 final size:43
Alignment explanation
Indices: 57720036--57720143 Score: 153
Period size: 47 Copynumber: 2.4 Consensus size: 43
57720026 TAAGTATAAT
*
57720036 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAATTATGATATGATATATATTTATGTATTATG
*
57720079 TAAGTTATGCAAATTATGTAAGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAATTA--T--GATATGATATATATTTATGTATTATG
*
57720126 TAAGTTTTGTAAATTATG
1 TAAGTTATGTAAATTATG
57720144 TAAATTATGT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
43 15 0.26
45 2 0.04
47 40 0.70
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (43 bp):
TAAGTTATGTAAATTATGATATGATATATATTTATGTATTATG
Found at i:57720113 original size:47 final size:47
Alignment explanation
Indices: 57720053--57720146 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
57720043 TGTAAGTTAT
57720053 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
* *
57720100 GATATGATATATATTTATGTATTATGTAAGTTTTGTAAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
57720147 ATTATGTAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (47 bp):
GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
Found at i:57720638 original size:104 final size:105
Alignment explanation
Indices: 57720428--57720678 Score: 409
Period size: 104 Copynumber: 2.4 Consensus size: 105
57720418 CAATATTTAA
* * *
57720428 AAATATAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTACACAAAATATTTTTCGTG
*
57720493 ATTAAATTAAATTAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* * *
57720533 AAATGCAATTTACTTTAATTAGCTAATTTAAAAATAAAATAAAAGTACACAAAATA-TTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTACACAAAATATTTTTCGTG
57720597 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
*
57720637 AATTACAATTTAATTTAATTAGGTAA-TT-AAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
57720679 CTTTAGCGGC
Statistics
Matches: 135, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
102 14 0.10
103 2 0.01
104 69 0.51
105 50 0.37
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (105 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTACACAAAATATTTTTCGTG
ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
Found at i:57724240 original size:75 final size:74
Alignment explanation
Indices: 57724062--57724224 Score: 202
Period size: 74 Copynumber: 2.2 Consensus size: 74
57724052 TAATACTCGA
* * * * * *
57724062 TCTTTGGCGGCATTTTTAAAAGGCACCGCTAAAGCCACTAAAAGCTCAATAAAAAAGACGGCGTT
1 TCTTTTGCGGCGTTTCTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATAAAAAAGACGGCGTT
*
57724127 TTGCAAAAT
66 GTGCAAAAT
* * *
57724136 TCTTTTGCGGCGTTTCTAAAAAGCGCCGCTAAAGCCAATAAAGGCTTAATAGAAAATGACGGCGT
1 TCTTTTGCGGCGTTTCTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATA-AAAAAGACGGCGT
**
57724201 TGTGTTAAAT
65 TGTGCAAAAT
57724211 T-TTTTGCGGCGTTT
1 TCTTTTGCGGCGTTT
57724225 TTTGTAAAGC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
74 56 0.74
75 20 0.26
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (74 bp):
TCTTTTGCGGCGTTTCTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATAAAAAAGACGGCGTT
GTGCAAAAT
Found at i:57725757 original size:29 final size:29
Alignment explanation
Indices: 57725724--57725782 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
57725714 AACCACCATA
*
57725724 TTCAATTTTTAGAGGATAAGACAAGAGAG
1 TTCAATTTTTAGAGGATAAGACAAAAGAG
57725753 TTCAATTTTTAGAGGATAAGACAAAAGAG
1 TTCAATTTTTAGAGGATAAGACAAAAGAG
57725782 T
1 T
57725783 GCTGATAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (29 bp):
TTCAATTTTTAGAGGATAAGACAAAAGAG
Found at i:57725927 original size:12 final size:13
Alignment explanation
Indices: 57725905--57725941 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
57725895 GATATGTTTG
57725905 TATTAATTTTTTA
1 TATTAATTTTTTA
57725918 TATT-ATTTTTTA
1 TATTAATTTTTTA
*
57725930 TATAAATTTTTT
1 TATTAATTTTTT
57725942 TAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTAATTTTTTA
Found at i:57726133 original size:11 final size:11
Alignment explanation
Indices: 57726119--57726171 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
57726109 ATACAATAAC
57726119 AACAAAATAGT
1 AACAAAATAGT
* *
57726130 AACAACATAAT
1 AACAAAATAGT
***
57726141 AGTGAAATAGT
1 AACAAAATAGT
57726152 AACAAAATAGT
1 AACAAAATAGT
*
57726163 AAAAAAATA
1 AACAAAATA
57726172 ACAGCTTTTT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.64, C:0.08, G:0.09, T:0.19
Consensus pattern (11 bp):
AACAAAATAGT
Found at i:57726170 original size:22 final size:22
Alignment explanation
Indices: 57726113--57726171 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
57726103 AGAGTTATAC
* *
57726113 AATAACAACAAAATAGTAACAA
1 AATAATAAAAAAATAGTAACAA
* ***
57726135 CATAATAGTGAAATAGTAACAA
1 AATAATAAAAAAATAGTAACAA
*
57726157 AATAGTAAAAAAATA
1 AATAATAAAAAAATA
57726172 ACAGCTTTTT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.19
Consensus pattern (22 bp):
AATAATAAAAAAATAGTAACAA
Found at i:57726579 original size:1 final size:1
Alignment explanation
Indices: 57726573--57726598 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
57726563 GCGCAAGTGT
57726573 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
57726599 GATTGCTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:57727436 original size:15 final size:16
Alignment explanation
Indices: 57727416--57727445 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
57727406 TTATTTTGAT
57727416 TTTTTAAAAA-AATTA
1 TTTTTAAAAATAATTA
57727431 TTTTTAAAAATAATT
1 TTTTTAAAAATAATT
57727446 TAAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTTAAAAATAATTA
Found at i:57727452 original size:13 final size:13
Alignment explanation
Indices: 57727418--57727456 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
57727408 ATTTTGATTT
*
57727418 TTTAAAAAAATTA
1 TTTAAAAAAATAA
**
57727431 TTTTTAAAAATAA
1 TTTAAAAAAATAA
57727444 TTTAAAAAAATAA
1 TTTAAAAAAATAA
57727457 AAAATCTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAAAAAAATAA
Found at i:57728368 original size:25 final size:25
Alignment explanation
Indices: 57728335--57728383 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
57728325 TAGTTGATTT
* *
57728335 TTTTTTTTTTTTG-CTTCAATCAAG
1 TTTTTATTTTATGACTTCAATCAAG
57728359 TTTTTATTTTATGACTTCAATCAAG
1 TTTTTATTTTATGACTTCAATCAAG
57728384 CATGGACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.57
Consensus pattern (25 bp):
TTTTTATTTTATGACTTCAATCAAG
Found at i:57729432 original size:21 final size:23
Alignment explanation
Indices: 57729389--57729434 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
57729379 GACTCGAAAG
*
57729389 TTTGATAAAATTTTTGAAGTTTT
1 TTTGATAAAATTTTTGAAATTTT
57729412 TTTG-TAAAATTTTT-AAATTTT
1 TTTGATAAAATTTTTGAAATTTT
57729433 TT
1 TT
57729435 ACATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
22 10 0.45
23 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (23 bp):
TTTGATAAAATTTTTGAAATTTT
Found at i:57732628 original size:95 final size:95
Alignment explanation
Indices: 57732468--57733338 Score: 1579
Period size: 95 Copynumber: 9.2 Consensus size: 95
57732458 ATAAAATGTG
** * * ***
57732468 TAAGACCATGGTTGAAAGATACC--T-TGGCAACATGATATGAAATGTGTAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
57732530 AGATACCATGGCAATGTGACATGAAAAGAA
66 AGATACCATGGCAATGTGACATGAAAAGAA
57732560 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
57732625 AGATACCATGGCAATGTGACATGAAAAGAA
66 AGATACCATGGCAATGTGACATGAAAAGAA
57732655 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
57732720 AGATACCATGGCAATGTGACATGAAAAGAA
66 AGATACCATGGCAATGTGACATGAAAAGAA
57732750 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
57732815 AGATACCATGGCAATGTGACATGAAAAGAA
66 AGATACCATGGCAATGTGACATGAAAAGAA
57732845 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
57732910 AGATACCATGGCAATGTGACATGAAAAGAA
66 AGATACCATGGCAATGTGACATGAAAAGAA
57732940 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
57733005 AGATACCATGGCAATGTGACATGAAAAGAA
66 AGATACCATGGCAATGTGACATGAAAAGAA
57733035 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
57733100 AGATACCATGGCAATGTGACATGAAAAGAA
66 AGATACCATGGCAATGTGACATGAAAAGAA
***
57733130 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGTGTAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
57733195 AGATACCATGGCAATGTGACATGAAAAGAA
66 AGATACCATGGCAATGTGACATGAAAAGAA
57733225 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
** *
57733290 AGATACCATGGCAACCTGACA-GAAAATGAG
66 AGATACCATGGCAATGTGACATGAAAA-GAA
*
57733320 TAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
57733339 CACTATGGCA
Statistics
Matches: 758, Mismatches: 17, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
92 23 0.03
94 6 0.01
95 729 0.96
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (95 bp):
TAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAA
AGATACCATGGCAATGTGACATGAAAAGAA
Found at i:57734030 original size:40 final size:40
Alignment explanation
Indices: 57733975--57734124 Score: 193
Period size: 40 Copynumber: 3.8 Consensus size: 40
57733965 ATTCGGATGA
*
57733975 TAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-AC
*
57734015 TAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAC
* *
57734055 T-ATATCCGGGCTAAGTCCCGAAGACATTTGTGCAAACTAC
1 TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTAC
57734095 TATATAT--GGGCTAAGTCCCGAAGGCATTTG
1 TA-ATATCCGGGCTAAGTCCCGAAGGCATTTG
57734125 AGCGAGTGGC
Statistics
Matches: 100, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
39 2 0.02
40 92 0.92
41 2 0.02
42 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
TAATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAC
Found at i:57734112 original size:80 final size:79
Alignment explanation
Indices: 57733979--57734143 Score: 226
Period size: 80 Copynumber: 2.1 Consensus size: 79
57733969 GGATGATAAT
* * *
57733979 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGACATTTGTGCAACTGACTAATT-CGGGCTAAGTCCCGAAGGCATTT
* *
57734044 GTGCGAGTTACTATA
65 GAGCGAGTGACTATA
57734059 TCCGGGCTAAGTCCCGAAGACATTTGTGCAAACT-ACTATATAT-GGGCTAAGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGACATTTGTGC-AACTGACTA-AT-TCGGGCTAAGTCCCGAAGGCAT
*
57734122 TTGAGCGAGTGGCTATA
63 TTGAGCGAGTGACTATA
57734139 TCCGG
1 TCCGG
57734144 TTAAAGCCCG
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
80 71 0.93
81 4 0.05
82 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGACATTTGTGCAACTGACTAATTCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTGACTATA
Found at i:57743779 original size:27 final size:26
Alignment explanation
Indices: 57743740--57743839 Score: 130
Period size: 27 Copynumber: 3.8 Consensus size: 26
57743730 AGCATGGCTG
* *
57743740 CCAGAA-AGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
57743765 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
57743792 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
57743819 CCAGAAACAGATAATGTGGCA
1 CCAG-AACAGATATTGTGGCA
57743840 AAGGCACTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
25 5 0.07
26 8 0.12
27 46 0.69
28 8 0.12
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:57744033 original size:22 final size:22
Alignment explanation
Indices: 57744005--57744069 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
57743995 GCAAATACGT
*
57744005 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
57744027 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
57744049 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
57744070 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:57744504 original size:27 final size:27
Alignment explanation
Indices: 57744484--57744618 Score: 189
Period size: 27 Copynumber: 5.0 Consensus size: 27
57744474 GGGTATCTTG
*
57744484 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57744511 GTAATTCTATCCTACAGTGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
57744538 GTAATTATACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57744565 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57744592 CTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
57744619 ATCATTTTGT
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:57744515 original size:54 final size:52
Alignment explanation
Indices: 57744457--57744618 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 52
57744447 GGGCAAAACG
* *
57744457 GTAATTTTAGCCCACAAGGGTATCTTGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTTTA-CCCACAAGGGTAT-TTAGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
57744511 GTAATTCTATCCTAC-AGTGGTATTTCAGTAATTATACCCTACAAGGGTATTTCG
1 GTAATTTTA-CCCACAAG-GGTATTT-AGTAATTCTACCCTACAGGGGTATTTCA
* *
57744565 GTAATTTTACCCTACAGGGGTATTTTACTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCC-ACAAGGGTA-TTTAGTAATTCTACCCTACAGGGGTATTTCA
57744619 ATCATTTTGT
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
53 6 0.07
54 78 0.89
55 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
GTAATTTTACCCACAAGGGTATTTAGTAATTCTACCCTACAGGGGTATTTCA
Found at i:57744597 original size:81 final size:81
Alignment explanation
Indices: 57744457--57744618 Score: 229
Period size: 81 Copynumber: 2.0 Consensus size: 81
57744447 GGGCAAAACG
* * * *
57744457 GTAATTTTAGCCCACAAGGGTATCTTGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTATC
1 GTAATTATAGCCCACAAGGGTATCTTGGTAATTCTACCCTACAGGGGTATTTCACTAATTCTACC
*
57744522 CTACAGTGGTATTTCA
66 CTACAGGGGTATTTCA
* *
57744538 GTAATTATA-CCCTACAAGGGTAT-TTCGGTAATTTTACCCTACAGGGGTATTTTACTAATTCTA
1 GTAATTATAGCCC-ACAAGGGTATCTT-GGTAATTCTACCCTACAGGGGTATTTCACTAATTCTA
57744601 CCCTACAGGGGTATTTCA
64 CCCTACAGGGGTATTTCA
57744619 ATCATTTTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 5 0.07
81 67 0.93
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (81 bp):
GTAATTATAGCCCACAAGGGTATCTTGGTAATTCTACCCTACAGGGGTATTTCACTAATTCTACC
CTACAGGGGTATTTCA
Found at i:57752244 original size:27 final size:26
Alignment explanation
Indices: 57752205--57752304 Score: 130
Period size: 27 Copynumber: 3.8 Consensus size: 26
57752195 AGCATGGCTG
* *
57752205 CCAGAA-AGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
57752230 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
57752257 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
57752284 CCAGAAACAGATAATGTGGCA
1 CCAG-AACAGATATTGTGGCA
57752305 AAGGCACTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
25 5 0.07
26 8 0.12
27 46 0.69
28 8 0.12
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:57752498 original size:22 final size:22
Alignment explanation
Indices: 57752470--57752534 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
57752460 GCAAATACGT
*
57752470 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
57752492 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
57752514 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
57752535 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:57752969 original size:27 final size:27
Alignment explanation
Indices: 57752949--57753083 Score: 189
Period size: 27 Copynumber: 5.0 Consensus size: 27
57752939 GGGTATCTTG
*
57752949 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57752976 GTAATTCTATCCTACAGTGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
57753003 GTAATTATACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57753030 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57753057 CTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
57753084 ATCATTTTGT
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:57752980 original size:54 final size:52
Alignment explanation
Indices: 57752922--57753083 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 52
57752912 GGGCAAAACG
* *
57752922 GTAATTTTAGCCCACAAGGGTATCTTGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTTTA-CCCACAAGGGTAT-TTAGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
57752976 GTAATTCTATCCTAC-AGTGGTATTTCAGTAATTATACCCTACAAGGGTATTTCG
1 GTAATTTTA-CCCACAAG-GGTATTT-AGTAATTCTACCCTACAGGGGTATTTCA
* *
57753030 GTAATTTTACCCTACAGGGGTATTTTACTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCC-ACAAGGGTA-TTTAGTAATTCTACCCTACAGGGGTATTTCA
57753084 ATCATTTTGT
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
53 6 0.07
54 78 0.89
55 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
GTAATTTTACCCACAAGGGTATTTAGTAATTCTACCCTACAGGGGTATTTCA
Found at i:57753062 original size:81 final size:81
Alignment explanation
Indices: 57752922--57753083 Score: 229
Period size: 81 Copynumber: 2.0 Consensus size: 81
57752912 GGGCAAAACG
* * * *
57752922 GTAATTTTAGCCCACAAGGGTATCTTGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTATC
1 GTAATTATAGCCCACAAGGGTATCTTGGTAATTCTACCCTACAGGGGTATTTCACTAATTCTACC
*
57752987 CTACAGTGGTATTTCA
66 CTACAGGGGTATTTCA
* *
57753003 GTAATTATA-CCCTACAAGGGTAT-TTCGGTAATTTTACCCTACAGGGGTATTTTACTAATTCTA
1 GTAATTATAGCCC-ACAAGGGTATCTT-GGTAATTCTACCCTACAGGGGTATTTCACTAATTCTA
57753066 CCCTACAGGGGTATTTCA
64 CCCTACAGGGGTATTTCA
57753084 ATCATTTTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 5 0.07
81 67 0.93
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (81 bp):
GTAATTATAGCCCACAAGGGTATCTTGGTAATTCTACCCTACAGGGGTATTTCACTAATTCTACC
CTACAGGGGTATTTCA
Found at i:57760119 original size:27 final size:27
Alignment explanation
Indices: 57760088--57760265 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57760078 TAAATTGTAC
57760088 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57760115 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57760141 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57760169 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57760197 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57760224 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57760251 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57760266 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57760202 original size:82 final size:81
Alignment explanation
Indices: 57760089--57760244 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57760079 AAATTGTACA
* *
57760089 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57760153 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57760170 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57760235 TGCGAGTTGA
65 TGCGAATTGA
57760245 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57760256 original size:82 final size:81
Alignment explanation
Indices: 57760085--57760265 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57760075 GATTAAATTG
* *
57760085 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57760150 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57760166 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57760230 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57760248 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57760266 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57761657 original size:26 final size:26
Alignment explanation
Indices: 57761621--57761671 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
57761611 GTTACAATAT
57761621 CAGTATCGCAGCAAAGCTGCCAGTAG
1 CAGTATCGCAGCAAAGCTGCCAGTAG
*
57761647 CAGTATTGCAGCAAAGCTGCCAGTA
1 CAGTATCGCAGCAAAGCTGCCAGTA
57761672 ATCAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGTATCGCAGCAAAGCTGCCAGTAG
Found at i:57763046 original size:20 final size:20
Alignment explanation
Indices: 57763021--57763060 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
57763011 GGAAAAAGAC
57763021 TTGGTTACCCGAGAAGAGAA
1 TTGGTTACCCGAGAAGAGAA
* *
57763041 TTGGTTACCTGAGAATAGAA
1 TTGGTTACCCGAGAAGAGAA
57763061 ACCACAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (20 bp):
TTGGTTACCCGAGAAGAGAA
Found at i:57770105 original size:34 final size:34
Alignment explanation
Indices: 57770057--57770130 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
57770047 GTGATAGTCT
* *
57770057 AGTATCAGTGTGGGCCTTAGCCCATTACAGTAGC
1 AGTATCAGTATGGGCCTTAGCCCATTACAGTAAC
57770091 AGTATCAGTATGGGCCTTAGCCCATTACAGTAAC
1 AGTATCAGTATGGGCCTTAGCCCATTACAGTAAC
57770125 AGTATC
1 AGTATC
57770131 TGAAATGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (34 bp):
AGTATCAGTATGGGCCTTAGCCCATTACAGTAAC
Found at i:57774056 original size:27 final size:27
Alignment explanation
Indices: 57774024--57774221 Score: 245
Period size: 27 Copynumber: 7.3 Consensus size: 27
57774014 ACTGAAAATG
* *
57774024 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
57774051 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
57774078 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
57774105 CCCTCGATTTATAGAACTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
57774132 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
57774159 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
57774186 CCATC-AGTTTATAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCGTTTTA
57774213 CCCTCGATT
1 CCCTCGATT
57774222 GTGAAATTAC
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 144 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:57774120 original size:81 final size:81
Alignment explanation
Indices: 57774024--57774221 Score: 290
Period size: 81 Copynumber: 2.4 Consensus size: 81
57774014 ACTGAAAATG
* *
57774024 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
**
57774089 CAAAATTACTGTTTTA
66 CAAAATTACCATTTTA
* * *
57774105 CCCTCGATTTATAGAACTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
57774170 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * *
57774186 CCATC-AGTTTATAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
57774222 GTGAAATTAC
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 104 0.99
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:57774283 original size:27 final size:27
Alignment explanation
Indices: 57774253--57774392 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
57774243 TGTAGGATAG
*
57774253 AATTACCACAATACCCCTAGTTTATAA
1 AATTACCAAAATACCCCTAGTTTATAA
* *
57774280 AATTACCAAAACACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAA
* * *
57774307 AATTACCAAAATACCACTGGTTTATGA
1 AATTACCAAAATACCCCTAGTTTATAA
* * *
57774334 AATTACCGAAATA-CCCTCATTTTGTAA
1 AATTACCAAAATACCCCT-AGTTTATAA
* *
57774361 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTATAA
57774388 AATTA
1 AATTA
57774393 TAGAAATACC
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.03
27 86 0.92
28 4 0.04
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTATAA
Found at i:57774399 original size:54 final size:55
Alignment explanation
Indices: 57774253--57774425 Score: 185
Period size: 54 Copynumber: 3.2 Consensus size: 55
57774243 TGTAGGATAG
* *
57774253 AATTACCACAATACCCCTAGTTTATAAAATTACCA-AAACACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTA-CAGAAATACCCTCTAGTTTGTAA
* * * * *
57774307 AATTACCAAAATACCACTGGTTTATGAAATTACCGAAATACCCTC-ATTTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTACAGAAATACCCTCTAGTTTGTAA
* * * *
57774361 AATTACCAAAATACCCCTAATTTACAAAATTATAGAAATACCCT-T-GATTTGTAG
1 AATTACCAAAATACCCCTAGTTTATAAAATTACAGAAATACCCTCTAG-TTTGTAA
*
57774415 ATTTACCAAAA
1 AATTACCAAAA
57774426 CACCTTTGTA
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
53 1 0.01
54 96 0.98
55 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (55 bp):
AATTACCAAAATACCCCTAGTTTATAAAATTACAGAAATACCCTCTAGTTTGTAA
Found at i:57774525 original size:27 final size:27
Alignment explanation
Indices: 57774464--57774527 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
57774454 ACCCCTAACA
*
57774464 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
57774491 GGTAAAATGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
57774518 GGTAAAATGA
1 GGTAAAATGA
57774528 TGAATACGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:57775160 original size:25 final size:25
Alignment explanation
Indices: 57775132--57775179 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57775122 TTACAGTATG
* * *
57775132 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
57775157 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
57775180 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:57775240 original size:20 final size:20
Alignment explanation
Indices: 57775215--57775281 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
57775205 GATATGATAT
*
57775215 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
57775235 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
57775255 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
57775275 ACATGAT
1 ACATGAT
57775282 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:57775393 original size:52 final size:51
Alignment explanation
Indices: 57775331--57775466 Score: 206
Period size: 52 Copynumber: 2.7 Consensus size: 51
57775321 GAGGAACTGC
*
57775331 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCA
57775383 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCA
* *
57775434 AAAAAGGCTT-TGCCCTAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
57775467 AGGCCTCCAG
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 7 0.09
51 23 0.29
52 36 0.45
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCA
Found at i:57775428 original size:25 final size:26
Alignment explanation
Indices: 57775331--57775430 Score: 175
Period size: 26 Copynumber: 3.9 Consensus size: 26
57775321 GAGGAACTGC
57775331 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
57775357 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
57775383 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
57775409 AAAAGGGCTT-TGCCCCAGTTTA
1 AAAAGGGCTTATGCCCCAGTTTA
57775431 CCAAAAAAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
25 12 0.17
26 58 0.83
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:57775438 original size:26 final size:26
Alignment explanation
Indices: 57775326--57775453 Score: 170
Period size: 26 Copynumber: 5.0 Consensus size: 26
57775316 GGATGGAGGA
57775326 ACTGCAAAAGGGCTTATGCCCCAGTTT
1 ACTG-AAAAGGGCTTATGCCCCAGTTT
*
57775353 ATTGAAAAGGGCTTATGCCCCAGTTT
1 ACTGAAAAGGGCTTATGCCCCAGTTT
*
57775379 ACCGAAAAGGGCTTATGCCCCAGTTT
1 ACTGAAAAGGGCTTATGCCCCAGTTT
*
57775405 ATTGAAAAGGGCTT-TGCCCCAGTTT
1 ACTGAAAAGGGCTTATGCCCCAGTTT
** * *
57775430 ACCAAAAAAGGCTT-TGCCCTAGTT
1 ACTGAAAAGGGCTTATGCCCCAGTT
57775454 ATTAAAAGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 30 0.33
26 58 0.64
27 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
ACTGAAAAGGGCTTATGCCCCAGTTT
Found at i:57775664 original size:42 final size:42
Alignment explanation
Indices: 57775600--57775692 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
57775590 AGTCTCCCCC
* ** *
57775600 AATGGGCTTGCATACATTCATTGGTATTTCATATGATATTGA
1 AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
*
57775642 AATGGGCTTGCATACATCCATTGACATTACATGTGATATTGA
1 AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
57775684 AATGGGCTT
1 AATGGGCTT
57775693 ATGGGCCATA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (42 bp):
AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
Found at i:57775821 original size:31 final size:31
Alignment explanation
Indices: 57775714--57775823 Score: 166
Period size: 31 Copynumber: 3.5 Consensus size: 31
57775704 CGTTTACAGT
* *
57775714 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
* **
57775745 AAATGCTTCAGCATAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
57775776 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
57775807 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCAGCCCAGT
57775824 AACCGTTAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:57777313 original size:56 final size:56
Alignment explanation
Indices: 57777253--57777459 Score: 252
Period size: 56 Copynumber: 3.7 Consensus size: 56
57777243 ATACAGGGTA
* * *
57777253 TTACTCATACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTC
1 TTACTCACACACATATATCAGAATCACATATCGATGCCAACGTATCAAACGTGGAC
*** * * *
57777309 TTACTTGTACACATATATCAAAATCACATATCGATGCCAACATATGAAACGTGGAC
1 TTACTCACACACATATATCAGAATCACATATCGATGCCAACGTATCAAACGTGGAC
* * * *
57777365 TTACTCACACACATATATCGGAATCACATATCGATGCTAATGTATCAAACGTCGAC
1 TTACTCACACACATATATCAGAATCACATATCGATGCCAACGTATCAAACGTGGAC
** * * *
57777421 TTACTTGCACACTTATATCAGAGTCACATATCAATGCCA
1 TTACTCACACACATATATCAGAATCACATATCGATGCCA
57777460 CATATACATC
Statistics
Matches: 128, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 128 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (56 bp):
TTACTCACACACATATATCAGAATCACATATCGATGCCAACGTATCAAACGTGGAC
Found at i:57777415 original size:112 final size:111
Alignment explanation
Indices: 57777253--57777464 Score: 307
Period size: 112 Copynumber: 1.9 Consensus size: 111
57777243 ATACAGGGTA
* * * * *
57777253 TTACTCATACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTTGTA
1 TTACTCACACACATATATCAGAATCACATATCGATGCCAACGTATCAAACGTCGACTTACTTGCA
*
57777318 CACATATATCAAAATCACATATCGATGCCAACATATGAAACGTGGAC
66 CACATATATCAAAATCACATATCAATGCC-ACATATGAAACGTGGAC
* * *
57777365 TTACTCACACACATATATCGGAATCACATATCGATGCTAATGTATCAAACGTCGACTTACTTGCA
1 TTACTCACACACATATATCAGAATCACATATCGATGCCAACGTATCAAACGTCGACTTACTTGCA
* * *
57777430 CACTTATATCAGAGTCACATATCAATGCCACATAT
66 CACATATATCAAAATCACATATCAATGCCACATAT
57777465 ACATCCAGGT
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
111 6 0.07
112 82 0.93
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (111 bp):
TTACTCACACACATATATCAGAATCACATATCGATGCCAACGTATCAAACGTCGACTTACTTGCA
CACATATATCAAAATCACATATCAATGCCACATATGAAACGTGGAC
Found at i:57783480 original size:56 final size:56
Alignment explanation
Indices: 57783420--57783626 Score: 272
Period size: 56 Copynumber: 3.7 Consensus size: 56
57783410 ATACAGGGTA
* * * * * * *
57783420 TTACTCGTACACAAATATCGGAAACACATATCGATGCTAATGTATTAAACGTGGTC
1 TTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGAC
* * * *
57783476 TTACTCGCACACATATATCAGATTCACATATCGATGCCAACATATGAAACGTAGAC
1 TTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGAC
*
57783532 TTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGAC
1 TTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGAC
* *
57783588 TTACTTGCACAC-TCATATCAGAGTCACATATCGATGCCA
1 TTACTCGCACACAT-ATATCAGAATCACATATCGATGCCA
57783627 CATATACATC
Statistics
Matches: 131, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
55 1 0.01
56 130 0.99
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (56 bp):
TTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGAC
Found at i:57783584 original size:112 final size:111
Alignment explanation
Indices: 57783420--57783631 Score: 327
Period size: 112 Copynumber: 1.9 Consensus size: 111
57783410 ATACAGGGTA
* * * *
57783420 TTACTCGTACACAAATATCGGAAACACATATCGATGCTAATGTATTAAACGTGGTCTTACTCGCA
1 TTACTCGCACACAAATATCGGAAACACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
*
57783485 CACAT-ATATCAGATTCACATATCGATGCCAACATATGAAACGTAGAC
66 CAC-TCATATCAGAGTCACATATCGATGCC-ACATATGAAACGTAGAC
* * *
57783532 TTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGACTTACTTGCA
1 TTACTCGCACACAAATATCGGAAACACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
57783597 CACTCATATCAGAGTCACATATCGATGCCACATAT
66 CACTCATATCAGAGTCACATATCGATGCCACATAT
57783632 ACATCCAGGT
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
111 7 0.08
112 84 0.92
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (111 bp):
TTACTCGCACACAAATATCGGAAACACATATCGATGCCAACGTATTAAACGTGGACTTACTCGCA
CACTCATATCAGAGTCACATATCGATGCCACATATGAAACGTAGAC
Found at i:57787985 original size:29 final size:29
Alignment explanation
Indices: 57787934--57787996 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
57787924 ATGAATCGGA
57787934 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
57787964 AGCTTTGGCAC-AAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
57787992 AGCTT
1 AGCTT
57787997 CAACTACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 9 0.27
29 13 0.39
30 11 0.33
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:57794744 original size:39 final size:40
Alignment explanation
Indices: 57794660--57794744 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
57794650 ACTTGATTCA
* * *
57794660 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
57794700 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
57794739 TCAGCA
1 CCAGCA
57794745 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:57794869 original size:45 final size:47
Alignment explanation
Indices: 57794815--57794922 Score: 150
Period size: 47 Copynumber: 2.3 Consensus size: 47
57794805 TGCACACTTT
*
57794815 TCACAATTGGTCATTCAGCCTTATCACATAT-C-CACTTACACATAT-A
1 TCAC-ATTGGCCATTCAGCCTTATCACATATACACACTTACACAT-TCA
* *
57794861 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCAGCCTTATCACATATACACACTTACACATTCA
57794908 TCACATTGGCCATTC
1 TCACATTGGCCATTC
57794923 GATCTTAAGC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 24 0.43
46 6 0.11
47 26 0.46
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCAGCCTTATCACATATACACACTTACACATTCA
Found at i:57797515 original size:22 final size:20
Alignment explanation
Indices: 57797475--57797515 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
57797465 AGTCCTATTA
*
57797475 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
57797495 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
57797516 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:57809525 original size:80 final size:79
Alignment explanation
Indices: 57809441--57809612 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
57809431 GGACTAAGAT
*
57809441 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
57809505 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
57809521 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
57809586 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
57809600 CCGAAGGCATTTG
1 CCGAAGGCATTTG
57809613 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:57809592 original size:39 final size:39
Alignment explanation
Indices: 57809388--57809610 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
57809378 TTGAATGCTG
* * * * *
57809388 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
57809428 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
57809467 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
57809508 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
57809548 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
57809587 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57809611 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:57809630 original size:79 final size:80
Alignment explanation
Indices: 57809468--57809645 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
57809458 AGATACAAAT
* * * *
57809468 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
57809533 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
57809548 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
57809612 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
57809627 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
57809646 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:57817048 original size:22 final size:22
Alignment explanation
Indices: 57816974--57817048 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
57816964 CATGCGTATG
*
57816974 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATAGCCAA
* * * *
57816996 TGTGATGAATG-TGAACATGCGCATG
1 TGTGAT-AAGGCCGAATA-GC-CA-A
57817021 TGTGATAAGGCCGAATAGCCAA
1 TGTGATAAGGCCGAATAGCCAA
57817043 TGTGAT
1 TGTGAT
57817049 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 15 0.38
23 7 0.18
24 7 0.18
25 10 0.26
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (22 bp):
TGTGATAAGGCCGAATAGCCAA
Found at i:57817231 original size:47 final size:47
Alignment explanation
Indices: 57816569--57817206 Score: 1026
Period size: 47 Copynumber: 13.5 Consensus size: 47
57816559 GATTTAGGAT
57816569 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
57816616 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
57816663 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
57816710 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
57816757 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
57816804 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
57816851 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
57816898 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
* **
57816945 CCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
* * ** *
57816992 CCAATGTGATGAATGTGAACATGCGCATGTGTGATAAGGCCGAATAG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
** * * *
57817039 CCAATGTGATGAATGTGAACATGTATATATATGCGTGATAAAG-CCGAATGG
1 CCAATGTGATGAATGTGAACATG----CGTATGTGTTAT-AAGTTCGAATGG
* **
57817090 CCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
* * ** **
57817137 CCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGG
1 CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
57817184 CCAATGTGATGAATGTGAACATG
1 CCAATGTGATGAATGTGAACATG
57817207 TATATATGTG
Statistics
Matches: 569, Mismatches: 16, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
46 3 0.01
47 525 0.92
51 38 0.07
52 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (47 bp):
CCAATGTGATGAATGTGAACATGCGTATGTGTTATAAGTTCGAATGG
Found at i:57817346 original size:46 final size:46
Alignment explanation
Indices: 57817210--57817346 Score: 186
Period size: 46 Copynumber: 3.0 Consensus size: 46
57817200 GAACATGTAT
*
57817210 ATATGTGGT-AAGCCTGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCC-GAATGGCTAATGCGAAATGTGTATGAGATGG
* *
57817256 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
57817302 ATCTGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
57817347 TGTATATATA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 75 0.94
47 5 0.06
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:57831321 original size:6 final size:6
Alignment explanation
Indices: 57831310--57831338 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
57831300 CTATTCAAGA
57831310 ATGCAT ATGCAT ATGCAT ATGCAT ATGCA
1 ATGCAT ATGCAT ATGCAT ATGCAT ATGCA
57831339 AAGAGTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (6 bp):
ATGCAT
Found at i:57832729 original size:20 final size:20
Alignment explanation
Indices: 57832704--57832743 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
57832694 TTGATAATAC
57832704 AATTATAATCT-TTAATATAT
1 AATTAT-ATCTATTAATATAT
*
57832724 AATTATATCTATTTATATAT
1 AATTATATCTATTAATATAT
57832744 TAATCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTATATCTATTAATATAT
Found at i:57844561 original size:50 final size:50
Alignment explanation
Indices: 57844354--57844575 Score: 178
Period size: 50 Copynumber: 4.4 Consensus size: 50
57844344 ACGCATGGTT
* * *
57844354 GCCTGCACTTACTACCACACATGCAACCTAACAATCCTG-TACACGTAGTA
1 GCCTGCACTTAGTACTACACATGCGACCTAACAAT-CTGATACACGTAGTA
* *** *
57844404 GCCTGCACTTAGTATTACACACATGACCTAACCATCTGATACACGTAGTA
1 GCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACACGTAGTA
* * * * * * * ** * * ** *
57844454 GCCTACATTTTGTACTACAAACGTC-ATCGAAGCTGTCGGGTATGCATAGTA
1 GCCTGCACTTAGTACTACACATG-CGACCTAA-CAATCTGATACACGTAGTA
*
57844505 GCCTGCACTTAGTACTACACGTGCGACCTAACAATCTGATACACGTAGTA
1 GCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACACGTAGTA
* *
57844555 GGCTGCACTTAGTAGTACACA
1 GCCTGCACTTAGTACTACACA
57844576 CGTGACTAAA
Statistics
Matches: 126, Mismatches: 42, Indels: 8
0.72 0.24 0.05
Matches are distributed among these distances:
49 3 0.02
50 90 0.71
51 33 0.26
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
GCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACACGTAGTA
Found at i:57850804 original size:105 final size:105
Alignment explanation
Indices: 57850601--57850817 Score: 303
Period size: 105 Copynumber: 2.1 Consensus size: 105
57850591 CTAGAGCACA
*
57850601 GGCGTGTGACTTGGTCGTGTGTCTTCAATTTGTTCTTAGGTGACAAACAAAGAGTTACACGGGGT
1 GGCGTGTGACTTGCTCGTGTGTCTTCAATTTGTTCTTAGGTGACAAACAAAGAGTTACACGGGGT
* ** *
57850666 CGGGACACGGGCGTGTGTGACTACACAGGCTGCCCACACG
66 CGGGACACGAGCGTGTGACACCACACAGGCTGCCCACACG
* * *
57850706 GGCGTGTGACTTCGCT-GTGTGTCTTCACTTTGTTCTTGGGTGACAAACAGAGAGTTACACGGGG
1 GGCGTGTGACTT-GCTCGTGTGTCTTCAATTTGTTCTTAGGTGACAAACAAAGAGTTACACGGGG
* *
57850770 TTGGGACACGAGCGTGTGACACCACAC-GGCCTGCCCACATG
65 TCGGGACACGAGCGTGTGACACCACACAGG-CTGCCCACACG
*
57850811 GTCGTGT
1 GGCGTGT
57850818 CCCATATCCA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
104 2 0.02
105 95 0.96
106 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.25
Consensus pattern (105 bp):
GGCGTGTGACTTGCTCGTGTGTCTTCAATTTGTTCTTAGGTGACAAACAAAGAGTTACACGGGGT
CGGGACACGAGCGTGTGACACCACACAGGCTGCCCACACG
Found at i:57856890 original size:21 final size:21
Alignment explanation
Indices: 57856861--57856927 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 21
57856851 TAAACCGAGC
*
57856861 TCATACCAAAACATACCAAAA
1 TCATGCCAAAACATACCAAAA
* * *
57856882 TCATGCCAAAATA-ATGCTAAA
1 TCATGCCAAAACATA-CCAAAA
57856903 TCATAAGCCAAAACAATACCAAAA
1 TCAT--GCCAAAAC-ATACCAAAA
57856927 T
1 T
57856928 ATATGTTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
20 1 0.03
21 19 0.56
23 7 0.21
24 6 0.18
25 1 0.03
ACGTcount: A:0.54, C:0.24, G:0.04, T:0.18
Consensus pattern (21 bp):
TCATGCCAAAACATACCAAAA
Found at i:57856892 original size:11 final size:11
Alignment explanation
Indices: 57856861--57856893 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
57856851 TAAACCGAGC
57856861 TCATACCAAAA
1 TCATACCAAAA
57856872 -CATACCAAAA
1 TCATACCAAAA
*
57856882 TCATGCCAAAA
1 TCATACCAAAA
57856893 T
1 T
57856894 AATGCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.52, C:0.27, G:0.03, T:0.18
Consensus pattern (11 bp):
TCATACCAAAA
Found at i:57858059 original size:42 final size:43
Alignment explanation
Indices: 57857982--57858108 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 43
57857972 TCTCAAATGT
* * * *
57857982 GGTCGTACATGTAATCAAATATCGATGCCACTGTCCCATACAG
1 GGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAGACAG
* *
57858025 GGTCTTACATGAAATCATATAT-GATGCCAATGTCCCAGACAT
1 GGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAGACAG
* * *
57858067 GGTTTTACACAT-AAATCACAA-ATCGATGCCGACGTCCCAGAC
1 GGTCTT--ACATGAAATCA-AATATCGATGCCAATGTCCCAGAC
57858109 GAGAACTAGA
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
42 22 0.31
43 27 0.39
44 21 0.30
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAGACAG
Found at i:57862072 original size:40 final size:40
Alignment explanation
Indices: 57862028--57862289 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
57862018 GCTCCTCGTT
* *
57862028 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
57862068 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57862108 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57862147 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57862186 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
57862225 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
57862266 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57862290 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:57872330 original size:16 final size:16
Alignment explanation
Indices: 57872309--57872353 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
57872299 GTAGATCGAC
57872309 AAATCCCGAAAAGTCG
1 AAATCCCGAAAAGTCG
57872325 AAATCCCGAAAAGTCG
1 AAATCCCGAAAAGTCG
57872341 AAA-CGCCGAAAAG
1 AAATC-CCGAAAAG
57872354 CTGAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 1 0.04
16 27 0.96
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (16 bp):
AAATCCCGAAAAGTCG
Found at i:57872613 original size:28 final size:28
Alignment explanation
Indices: 57872581--57872684 Score: 129
Period size: 28 Copynumber: 3.7 Consensus size: 28
57872571 GTAATGCGAT
*
57872581 TTGGGCCTAGT-GGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* *
57872608 TTTGGGCCTAATGGGCCACATAAATGTGA
1 -TTGGGCCTAATGGGCCATATGAATGTGA
* * *
57872637 ATGGGCCTAATGGGCCATATGAAAGAGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
*
57872665 TTGGGCCTAGTGGGCCATAT
1 TTGGGCCTAATGGGCCATAT
57872685 CTATAGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 51 0.78
29 14 0.22
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGTGA
Found at i:57876290 original size:40 final size:40
Alignment explanation
Indices: 57876209--57876389 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
57876199 AAACCAAGTA
** * *
57876209 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
57876248 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
57876288 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
57876328 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
57876368 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
57876390 CAATCCGAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 26 0.20
40 102 0.80
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:57892649 original size:12 final size:12
Alignment explanation
Indices: 57892632--57892664 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
57892622 TTTAGCACTT
57892632 CCTCGGCCTCTA
1 CCTCGGCCTCTA
57892644 CCTCGGCCTCTA
1 CCTCGGCCTCTA
*
57892656 TCTCGGCCT
1 CCTCGGCCT
57892665 TATGTACCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.48, G:0.18, T:0.27
Consensus pattern (12 bp):
CCTCGGCCTCTA
Found at i:57900915 original size:23 final size:22
Alignment explanation
Indices: 57900881--57900923 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
57900871 TTTATGTTTT
57900881 TACTTTTATTTTAT-TTTAAGAC
1 TACTTTTATTTT-TCTTTAAGAC
57900903 TACTCTTTATTTTTCTTTAAG
1 TACT-TTTATTTTTCTTTAAG
57900924 CTTATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (22 bp):
TACTTTTATTTTTCTTTAAGAC
Found at i:57906892 original size:21 final size:21
Alignment explanation
Indices: 57906868--57906919 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
57906858 CAATGTCTAC
57906868 TACCATTTAAAATGGTTTATT
1 TACCATTTAAAATGGTTTATT
*
57906889 TACCATTTAAAATTGTTTATT
1 TACCATTTAAAATGGTTTATT
57906910 TACCATTTAA
1 TACCATTTAA
57906920 GGCCTTCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.48
Consensus pattern (21 bp):
TACCATTTAAAATGGTTTATT
Found at i:57910887 original size:43 final size:42
Alignment explanation
Indices: 57910816--57910938 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
57910806 TCATAAGCTC
*
57910816 ATACAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAA
1 ATACGATGCC-ACTGTCCCAGACAG-GGTCTTACATGTAATCAA
* *
57910858 ATATCGATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAT
1 ATA-CGATGCCACTGTCCCAGACAGGGTCTTACATGTAATCAA
* * * *
57910901 ATACGATGCCAATGTCCCAGACATGGCCTTACACGTAA
1 ATACGATGCCACTGTCCCAGACAGGGTCTTACATGTAA
57910939 ATTACAAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 35 0.50
43 34 0.49
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATACGATGCCACTGTCCCAGACAGGGTCTTACATGTAATCAA
Found at i:57910921 original size:42 final size:42
Alignment explanation
Indices: 57910816--57910933 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
57910806 TCATAAGCTC
* * *
57910816 ATACAATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACAG-GGTCTTACATGAAATCAA
* *
57910858 ATATCGATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAT
1 ATA-CGATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAA
* *
57910901 ATACGATGCCAATGTCCCAGACATGGCCTTACA
1 ATACGATGCCAATGTCCCAGACAGGGTCTTACA
57910934 CGTAAATTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.45
43 35 0.53
44 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAA
Done.