Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 101 of 255
Found at i:31540136 original size:27 final size:27
Alignment explanation
Indices: 31540106--31540294 Score: 243
Period size: 27 Copynumber: 7.0 Consensus size: 27
31540096 GGGGCAAAAT
* * *
31540106 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31540133 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31540160 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31540187 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31540214 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31540241 AGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31540268 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
31540295 AATAATTTCA
Statistics
Matches: 141, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31540342 original size:27 final size:27
Alignment explanation
Indices: 31540311--31540552 Score: 258
Period size: 27 Copynumber: 9.0 Consensus size: 27
31540301 TTCACAGTCA
*
31540311 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
31540338 AGGGTAGAAC-GATAATTTTGTAAA-CTG
1 AGGGTAAAACAG-TAATTCTGTAAATC-G
* *
31540365 AGGGTAAACCAGTAATTCTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * **
31540392 AGGGTAAAACGGTAATTTTACAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * * *
31540419 AAGGTAAAACGGTAATTCTATAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
31540446 AGGGTAAAACAGTAATTCTGTAAA-CTA
1 AGGGTAAAACAGTAATTCTGTAAATC-G
*
31540473 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
31540500 AGGGTAAAATAGTAATTCTGTAAA-CTA
1 AGGGTAAAACAGTAATTCTGTAAATC-G
*
31540527 AGGGTAAAACAGTAATTCTATAAATC
1 AGGGTAAAACAGTAATTCTGTAAATC
31540553 AGGAGTACTT
Statistics
Matches: 179, Mismatches: 28, Indels: 15
0.81 0.13 0.07
Matches are distributed among these distances:
26 3 0.02
27 172 0.96
28 4 0.02
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.27
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTCTGTAAATCG
Found at i:31540382 original size:54 final size:55
Alignment explanation
Indices: 31540310--31540552 Score: 307
Period size: 54 Copynumber: 4.5 Consensus size: 55
31540300 TTTCACAGTC
* * * *
31540310 AAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAGAACGA-TAATTTTGTAAACT
1 AAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAACT
* * * * * ** *
31540364 GAGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACG-GTAATTTTACAAATCG
1 AAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAA-CT
* *
31540419 AA-GGTAAAACGGTAATTCTATAAATTGAGGGTAAAAC-AGTAATTCTGTAAACT
1 AAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAACT
*
31540472 AAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA-TAGTAATTCTGTAAACT
1 AAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAACT
31540526 AAGGGTAAAACAGTAATTCTATAAATC
1 AAGGGTAAAACAGTAATTCTATAAATC
31540553 AGGAGTACTT
Statistics
Matches: 164, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
53 3 0.02
54 159 0.97
55 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.27
Consensus pattern (55 bp):
AAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAACT
Found at i:31540417 original size:81 final size:80
Alignment explanation
Indices: 31540308--31540553 Score: 314
Period size: 81 Copynumber: 3.0 Consensus size: 80
31540298 AATTTCACAG
** *
31540308 TCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAGAACGATAATTTTGTAAACTGAGGGTAAA
1 TCAAGGGTAAAACGGTAATTCTACAAATCGAGGGTA-AACGATAATTCTGTAAACTGAGGGTAAA
*
31540373 CCAGTAATTCTGTAAA
65 ACAGTAATTCTGTAAA
* * * * *
31540389 TCAAGGGTAAAACGGTAATTTTACAAATCGAAGGTAAAACGGTAATTCTATAAATTGAGGGTAAA
1 TCAAGGGTAAAACGGTAATTCTACAAATCGAGGGT-AAACGATAATTCTGTAAACTGAGGGTAAA
31540454 ACAGTAATTCTGTAAA
65 ACAGTAATTCTGTAAA
* * ** *
31540470 -CTAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTAAGGGTAA
1 TC-AAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAACGA-TAATTCTGTAAACTGAGGGTAA
*
31540534 AACAGTAATTCTATAAA
64 AACAGTAATTCTGTAAA
31540551 TCA
1 TCA
31540554 GGAGTACTTT
Statistics
Matches: 141, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
80 4 0.03
81 135 0.96
82 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (80 bp):
TCAAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAACGATAATTCTGTAAACTGAGGGTAAAA
CAGTAATTCTGTAAA
Found at i:31540582 original size:81 final size:80
Alignment explanation
Indices: 31540311--31540584 Score: 307
Period size: 81 Copynumber: 3.4 Consensus size: 80
31540301 TTCACAGTCA
* ** * * *
31540311 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAGAAC-GATAATTTTGTAAACTGAGGGTAAACC
1 AGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAG-TAATTCTGTAAACTGAGGGTAAAAC
31540375 AGTAATTCTGTAAATC
65 AGTAATTCTGTAAATC
* * * *
31540391 AAGGGTAAAACGGTAATTTTACAAATCGAAGGTAAAACGGTAATTCTATAAATTGAGGGTAAAAC
1 -AGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAAC
*
31540456 AGTAATTCTGTAAACTA
65 AGTAATTCTGTAAA-TC
* * * * *
31540473 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTAAGGGTAAAACA
1 AGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACA
*
31540538 GTAATTCTATAAATC
66 GTAATTCTGTAAATC
**** *
31540553 AGGAGTACTTTGGTAATTTTACAAGTCGAGGG
1 AGG-GTAAAACGGTAATTTTACAAATCGAGGG
31540585 CATTTCAGTA
Statistics
Matches: 161, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
80 4 0.02
81 155 0.96
82 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (80 bp):
AGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACA
GTAATTCTGTAAATC
Found at i:31541977 original size:25 final size:25
Alignment explanation
Indices: 31541949--31541998 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
31541939 TAAAGGGGGG
*
31541949 TAAGGCATTTCACATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
*
31541974 TAAGCCATTTCCCATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
31541999 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (25 bp):
TAAGCCATTTCACATGAATTTTTAA
Found at i:31543309 original size:7 final size:7
Alignment explanation
Indices: 31543297--31543365 Score: 75
Period size: 7 Copynumber: 9.3 Consensus size: 7
31543287 TTAGCATGTC
31543297 TAGGGTT
1 TAGGGTT
31543304 TAGGGTT
1 TAGGGTT
31543311 TAGGGTTT
1 TAGGG-TT
31543319 TAGGGTTT
1 TAGGG-TT
*
31543327 TAGTGTTT
1 TAG-GGTT
31543335 TAGGGTTT
1 TAGGG-TT
*
31543343 TAGGTTT
1 TAGGGTT
31543350 TAGGGTT
1 TAGGGTT
*
31543357 TAGGTTT
1 TAGGGTT
31543364 TA
1 TA
31543366 CTGTTGCCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
7 29 0.54
8 24 0.44
9 1 0.02
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (7 bp):
TAGGGTT
Found at i:31543322 original size:8 final size:8
Alignment explanation
Indices: 31543297--31543365 Score: 94
Period size: 8 Copynumber: 9.2 Consensus size: 8
31543287 TTAGCATGTC
31543297 TAGGG-TT
1 TAGGGTTT
31543304 TAGGG-TT
1 TAGGGTTT
31543311 TAGGGTTT
1 TAGGGTTT
31543319 TAGGGTTT
1 TAGGGTTT
*
31543327 TAGTGTTT
1 TAGGGTTT
31543335 TAGGGTTT
1 TAGGGTTT
31543343 TA-GGTTT
1 TAGGGTTT
31543350 TAGGG-TT
1 TAGGGTTT
31543357 TA-GGTTT
1 TAGGGTTT
31543364 TA
1 TA
31543366 CTGTTGCCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
6 2 0.04
7 27 0.47
8 28 0.49
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (8 bp):
TAGGGTTT
Found at i:31544048 original size:25 final size:25
Alignment explanation
Indices: 31544020--31544069 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
31544010 TAATGTGGGG
*
31544020 TAAGGCATTTCACATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
*
31544045 TAAGCCATTTCCCATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
31544070 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (25 bp):
TAAGCCATTTCACATGAATTTTTAA
Found at i:31549807 original size:18 final size:19
Alignment explanation
Indices: 31549781--31549817 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
31549771 AATTATTTTC
31549781 TTAAAAATTTAA-AAATTA
1 TTAAAAATTTAATAAATTA
*
31549799 TTAATAATTTAATAAATTA
1 TTAAAAATTTAATAAATTA
31549818 AATAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAAAAATTTAATAAATTA
Found at i:31549823 original size:17 final size:17
Alignment explanation
Indices: 31549781--31549830 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
31549771 AATTATTTTC
31549781 TTAAA-AATTTAA-AAA
1 TTAAATAATTTAATAAA
31549796 TTATTAATAATTTAATAAA
1 TTA--AATAATTTAATAAA
*
31549815 TTAAATAATTAAATAA
1 TTAAATAATTTAATAA
31549831 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 3 0.10
17 14 0.47
18 7 0.23
19 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAATAATTTAATAAA
Found at i:31550756 original size:29 final size:29
Alignment explanation
Indices: 31550701--31550757 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
31550691 CTTTTGAAAA
* * **
31550701 TATTTACAAAAAGAGCATCTAGTTTTTAT
1 TATTTACAAAAAGAGCAACCAAATTTTAT
*
31550730 TATTTACGAAAAGAGCAACCAAATTTTA
1 TATTTACAAAAAGAGCAACCAAATTTTA
31550758 AATCCCTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (29 bp):
TATTTACAAAAAGAGCAACCAAATTTTAT
Found at i:31555053 original size:39 final size:39
Alignment explanation
Indices: 31554999--31555259 Score: 300
Period size: 39 Copynumber: 6.7 Consensus size: 39
31554989 TATCTGAACA
*
31554999 TAGAGTCCACAGGCTATGTGCTGGAATTATATCCGGACT
1 TAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
31555038 TAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
1 TAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
*
31555077 AAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
1 TAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
* *
31555116 TA-AGGTCTGCAGGCTATGTGCTGGAATTATAACCGGACT
1 TAGA-GTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
* * *
31555155 TA-AGGTCCGCAGGCTACGTGCTGGAAATATGTCCAGG-C-
1 TAGA-GTCCGCAGGCTATGTGCTGGAATTATATCC-GGACT
* * * * **
31555193 TAAAGTCCCGCAGGCTTTGAGCTGGTATTATA-CCGGGTT
1 TAGAGT-CCGCAGGCTATGTGCTGGAATTATATCCGGACT
* *
31555232 TAAATTCCGCAGGCT-TGTGCTGGTAATT
1 TAGAGTCCGCAGGCTATGTGCTGG-AATT
31555260 GGTTTCAAGT
Statistics
Matches: 195, Mismatches: 20, Indels: 15
0.85 0.09 0.07
Matches are distributed among these distances:
37 9 0.05
38 19 0.10
39 165 0.85
40 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
TAGAGTCCGCAGGCTATGTGCTGGAATTATATCCGGACT
Found at i:31563378 original size:79 final size:78
Alignment explanation
Indices: 31563276--31563439 Score: 222
Period size: 79 Copynumber: 2.1 Consensus size: 78
31563266 CAGTGATGTT
* * ** *
31563276 TATCCGGACTTAGAGTCCGCAGGCTATGTGTTGGAATTATATTCGGACTTAAGAGTCTGCAGGCT
1 TATCCGGACTTAGAGTCCACAGGCTATGTGCTGGAATTATAACCGGACTTAAG-GTCCGCAGGCT
* *
31563341 ATGTACTGGAATTA
65 ACGTACTGGAAATA
*
31563355 TATCCGGACTTA-AGGTCCACAGGCTATGTGCTGGAGTTATAACCGGACTTAAGGTCCGCAGGCT
1 TATCCGGACTTAGA-GTCCACAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCT
31563419 ACGTACTGGAAATA
65 ACGTACTGGAAATA
*
31563433 TGTCCGG
1 TATCCGG
31563440 GCTAAAGTCC
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
78 29 0.39
79 46 0.61
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (78 bp):
TATCCGGACTTAGAGTCCACAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
CGTACTGGAAATA
Found at i:31563389 original size:39 final size:40
Alignment explanation
Indices: 31563276--31563439 Score: 208
Period size: 39 Copynumber: 4.2 Consensus size: 40
31563266 CAGTGATGTT
**
31563276 TATCCGGACTT-AGAGTCCGCAGGCTATGTGTTGGAATTA
1 TATCCGGACTTAAGAGTCCGCAGGCTATGTACTGGAATTA
* *
31563315 TATTCGGACTTAAGAGTCTGCAGGCTATGTACTGGAATTA
1 TATCCGGACTTAAGAGTCCGCAGGCTATGTACTGGAATTA
* * *
31563355 TATCCGGACTTAAG-GTCCACAGGCTATGTGCTGGAGTTA
1 TATCCGGACTTAAGAGTCCGCAGGCTATGTACTGGAATTA
* * *
31563394 TAACCGGACTTAAG-GTCCGCAGGCTACGTACTGGAAATA
1 TATCCGGACTTAAGAGTCCGCAGGCTATGTACTGGAATTA
*
31563433 TGTCCGG
1 TATCCGG
31563440 GCTAAAGTCC
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 69 0.64
40 38 0.36
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGACTTAAGAGTCCGCAGGCTATGTACTGGAATTA
Found at i:31569544 original size:37 final size:37
Alignment explanation
Indices: 31569494--31569572 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
31569484 TTATTACGAA
* *
31569494 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
31569531 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
31569568 GTCTT
1 GTCTT
31569573 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:31569769 original size:47 final size:47
Alignment explanation
Indices: 31569691--31570483 Score: 1172
Period size: 47 Copynumber: 16.4 Consensus size: 47
31569681 CCCTTCGGGA
* * * * * * *
31569691 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31569738 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31569785 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * ** **
31569832 CTTATCACGTATATACACTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCAC--AT-T-CA---TCACA-TCGGC-CAT---TA----GGC
*
31569895 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31569942 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31569991 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31570038 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31570087 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31570136 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31570183 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31570230 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31570277 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31570324 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31570371 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31570418 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31570465 CTTATCACATATATACACT
1 CTTATCACATATATACACT
31570484 GTCTTGGCTG
Statistics
Matches: 685, Mismatches: 41, Indels: 40
0.89 0.05 0.05
Matches are distributed among these distances:
47 491 0.72
49 140 0.20
50 1 0.00
51 2 0.00
54 8 0.01
55 6 0.01
56 8 0.01
59 2 0.00
60 1 0.00
61 2 0.00
63 24 0.04
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31569855 original size:16 final size:16
Alignment explanation
Indices: 31569834--31569871 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
31569824 CATTAGGCCT
31569834 TATCACGTATATACAC
1 TATCACGTATATACAC
31569850 TATCACGTATATACAC
1 TATCACGTATATACAC
*
31569866 TTTCAC
1 TATCAC
31569872 ATTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.34
Consensus pattern (16 bp):
TATCACGTATATACAC
Found at i:31569863 original size:63 final size:63
Alignment explanation
Indices: 31569787--31569920 Score: 232
Period size: 63 Copynumber: 2.1 Consensus size: 63
31569777 CATTAGGCCT
*
31569787 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
31569850 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
31569913 TTTCACAT
1 TATCACAT
31569921 TCATCACATC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (63 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
Found at i:31569888 original size:110 final size:110
Alignment explanation
Indices: 31569742--31569956 Score: 394
Period size: 110 Copynumber: 2.0 Consensus size: 110
31569732 CTCGGCCCTG
31569742 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
* *
31569807 ACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTA
66 ACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTA
* *
31569852 TCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
31569917 ACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
66 ACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
31569957 TACACTTTCA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 101 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (110 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTA
Found at i:31573076 original size:20 final size:18
Alignment explanation
Indices: 31573051--31573096 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
31573041 ACCATGTTCA
31573051 TATTTTTTACATGACTTAAT
1 TATTTTTTA-AT-ACTTAAT
* *
31573071 TATTTTATAATATTTAAT
1 TATTTTTTAATACTTAAT
31573089 TATTTTTT
1 TATTTTTT
31573097 GACAAGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 13 0.57
19 2 0.09
20 8 0.35
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTTTTAATACTTAAT
Found at i:31574636 original size:18 final size:18
Alignment explanation
Indices: 31574609--31574653 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
31574599 TGCACTCTTA
*
31574609 TCACAAGTCCATTTCATT
1 TCACATGTCCATTTCATT
31574627 TCACATGTCCATTTCATT
1 TCACATGTCCATTTCATT
31574645 TCACATGTC
1 TCACATGTC
31574654 AAACACACAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.07, T:0.40
Consensus pattern (18 bp):
TCACATGTCCATTTCATT
Found at i:31581047 original size:26 final size:26
Alignment explanation
Indices: 31581016--31581147 Score: 73
Period size: 26 Copynumber: 5.2 Consensus size: 26
31581006 AGCTCTCTAG
31581016 TACACATAGTAGCTTGCACTTAGTAC
1 TACACATAGTAGCTTGCACTTAGTAC
* * ** * *
31581042 TACACAT-GCGACCTAACAATCTGGT--
1 TACACATAG-TAGCTTGCACT-TAGTAC
31581067 -ACACATAGTAGCTTGCACTTAGTAC
1 TACACATAGTAGCTTGCACTTAGTAC
* * **
31581092 TACACA-CGTGACCTAAC-CATTAG-A-
1 TACACATAGT-AGCTTGCAC-TTAGTAC
*
31581116 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCTTGCACTTAGTAC
31581142 TACACA
1 TACACA
31581148 CATGATCGAA
Statistics
Matches: 73, Mismatches: 21, Indels: 24
0.62 0.18 0.20
Matches are distributed among these distances:
23 3 0.04
24 25 0.34
25 10 0.14
26 32 0.44
27 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCTTGCACTTAGTAC
Found at i:31581090 original size:50 final size:50
Alignment explanation
Indices: 31581015--31581300 Score: 288
Period size: 50 Copynumber: 5.7 Consensus size: 50
31581005 AAGCTCTCTA
* * *
31581015 GTACACATAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTG
* *
31581065 GTACACATAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCAT-TAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCT-G
* * * * * **
31581115 ATACACATAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCTATCAA
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTG
*** * **
31581166 GTATGTATAGTAGCCTACACTTAGTACTACACTTGTGACCTAACAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTG
* * * * *
31581216 GCACACATAGTAGCCTGCACTTAGTACTACACACGTAACCCAA-AACCATT
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC-TG
* *
31581266 TTAAACACATAGTAGCCTGCACATAGTACTACACA
1 GT--ACACATAGTAGCCTGCACTTAGTACTACACA
31581301 TGTGTTCTCA
Statistics
Matches: 192, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
49 4 0.02
50 122 0.64
51 36 0.19
52 30 0.16
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.25
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTG
Found at i:31581250 original size:151 final size:153
Alignment explanation
Indices: 31581021--31581300 Score: 438
Period size: 151 Copynumber: 1.8 Consensus size: 153
31581011 TCTAGTACAC
* * * *
31581021 ATAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACATAGTAGCTTGCACT
1 ATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGCACACATAGTAGCCTGCACT
* * * *
31581086 TAGTACTACACACGTGA-CC-TAACCATTAGATACACATAGTAGCCTGCACTTAGTACTACACAC
66 TAGTACTACACACGTAACCCAAAACCATTAGAAACACATAGTAGCCTGCACATAGTACTACACAC
31581149 ATGATCGAAGCTATCAAGTATGT
131 ATGATCGAAGCTATCAAGTATGT
* *
31581172 ATAGTAGCCTACACTTAGTACTACACTTGTGACCTAACAATCTGGCACACATAGTAGCCTGCACT
1 ATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGCACACATAGTAGCCTGCACT
**
31581237 TAGTACTACACACGTAACCCAAAACCATTTTAAACACATAGTAGCCTGCACATAGTACTACACA
66 TAGTACTACACACGTAACCCAAAACCATTAGAAACACATAGTAGCCTGCACATAGTACTACACA
31581301 TGTGTTCTCA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
151 75 0.65
152 2 0.02
153 38 0.33
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.25
Consensus pattern (153 bp):
ATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGCACACATAGTAGCCTGCACT
TAGTACTACACACGTAACCCAAAACCATTAGAAACACATAGTAGCCTGCACATAGTACTACACAC
ATGATCGAAGCTATCAAGTATGT
Found at i:31588519 original size:30 final size:30
Alignment explanation
Indices: 31588474--31588533 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
31588464 ATTTAATACG
* *
31588474 AACTTTGGCAAAATTATATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
31588504 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
31588534 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:31592999 original size:65 final size:65
Alignment explanation
Indices: 31592893--31593023 Score: 226
Period size: 65 Copynumber: 2.0 Consensus size: 65
31592883 CCCCTAGGGT
*
31592893 TAAGGTTGACCTGAATACATGTTTGACTGTTACTATCTACTACATGCCATGTTATTATTATCTGA
1 TAAGGTTGACATGAATACATGTTTGACTGTTACTATCTACTACATGCCATGTTATTATTATCTGA
* * *
31592958 TAAGGTTGACATGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTTTTATCTGA
1 TAAGGTTGACATGAATACATGTTTGACTGTTACTATCTACTACATGCCATGTTATTATTATCTGA
31593023 T
1 T
31593024 GCATGGGACT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (65 bp):
TAAGGTTGACATGAATACATGTTTGACTGTTACTATCTACTACATGCCATGTTATTATTATCTGA
Found at i:31596577 original size:24 final size:23
Alignment explanation
Indices: 31596542--31596586 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
31596532 ATGTTCCCCT
31596542 GCTTTAATTCAAGAAACTCTTTGC
1 GCTTTAATTCAAGAAA-TCTTTGC
*
31596566 GCTTCTAA-TCAATAAATCTTT
1 GCTT-TAATTCAAGAAATCTTT
31596587 CACGGATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 11 0.58
25 3 0.16
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (23 bp):
GCTTTAATTCAAGAAATCTTTGC
Found at i:31599193 original size:30 final size:30
Alignment explanation
Indices: 31599148--31599207 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
31599138 ATTTAATACG
31599148 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
31599178 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
31599208 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:31602675 original size:40 final size:40
Alignment explanation
Indices: 31602614--31602837 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
31602604 CATTTGAATG
* * * *
31602614 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
31602654 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
31602694 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
31602734 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * *
31602774 TTATCCAGGCTAAGACCTGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
31602814 ATATCTGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
31602838 TGTAACACCC
Statistics
Matches: 157, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.01
40 149 0.95
41 6 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:31604318 original size:79 final size:81
Alignment explanation
Indices: 31604218--31604402 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
31604208 GCTACTCGTT
* *
31604218 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
31604281 GGATTTAGTAACTT-GCC
64 GGATATAGTAACTTAGCA
* * **
31604298 CAAATGCCTTCGAG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
31604362 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
31604378 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31604403 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.62
80 31 0.34
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:31604402 original size:40 final size:41
Alignment explanation
Indices: 31604218--31604402 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
31604208 GCTACTCGTT
* *
31604218 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * *
31604258 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTT-GCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
31604298 CAAATGCCTTCGAG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * *
31604337 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
31604378 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31604403 CATCATTCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 76 0.63
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:31612300 original size:79 final size:82
Alignment explanation
Indices: 31612183--31612367 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
31612173 GCTACTCGTT
* * *
31612183 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCC-TTCGGATCTTAACCC
*
31612246 GGATTTAGTAACTT-GCA
65 GGATATAGTAACTTAGCA
* **
31612263 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
31612326 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
31612343 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31612368 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 5 0.05
79 54 0.59
80 33 0.36
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:31612367 original size:40 final size:41
Alignment explanation
Indices: 31612183--31612367 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
31612173 GCTACTCGTT
* *
31612183 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * *
31612223 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
*
31612263 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * *
31612302 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
31612343 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31612368 CATCATTCAA
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 3 0.02
39 30 0.25
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:31617660 original size:45 final size:45
Alignment explanation
Indices: 31617609--31617698 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
31617599 ACTTAATTGG
*
31617609 TTAATTATTGTTATTACATGCCAAGCATACCATATACAGTCCTAA
1 TTAATTATTGTTATTACATGCCAAGCATACCATATACAATCCTAA
*
31617654 TTAATTATTGTTCTTACATGCCAAGCATACCATATACAATCCTAA
1 TTAATTATTGTTATTACATGCCAAGCATACCATATACAATCCTAA
31617699 AAATAAGTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (45 bp):
TTAATTATTGTTATTACATGCCAAGCATACCATATACAATCCTAA
Found at i:31622620 original size:20 final size:20
Alignment explanation
Indices: 31622597--31622675 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
31622587 TACTTTCGTA
*
31622597 CTCCTAATAGCACTACGGTG
1 CTCCTGATAGCACTACGGTG
* * *
31622617 CTCCTGATAGTACTTTC-GTA
1 CTCCTGATAGCAC-TACGGTG
* * *
31622637 CTCCTGTTAGTAGTACGGTG
1 CTCCTGATAGCACTACGGTG
*
31622657 CTCTTGATAGCACTACGGT
1 CTCCTGATAGCACTACGGT
31622676 ACCCCTAATT
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
19 2 0.04
20 41 0.91
21 2 0.04
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (20 bp):
CTCCTGATAGCACTACGGTG
Found at i:31622640 original size:40 final size:40
Alignment explanation
Indices: 31622477--31622659 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
31622467 CGAATAAGTG
* * *
31622477 CTCCTCATAGCACTACGGTGCTCCTGGCAGTACTTCCGTA
1 CTCCTAATAGCACTACGGTGCTCCTGACAGTACTTTCGTA
* * * *
31622517 CTCTTGAA-AGCACTACGATGCTCCTAAC-GATACTTTTGTA
1 CTCCT-AATAGCACTACGGTGCTCCTGACAG-TACTTTCGTA
* * ** * *
31622557 CTCTTGATAGCACTATAGTGCTACTAACAGTACTTTCGTA
1 CTCCTAATAGCACTACGGTGCTCCTGACAGTACTTTCGTA
*
31622597 CTCCTAATAGCACTACGGTGCTCCTGATAGTACTTTCGTA
1 CTCCTAATAGCACTACGGTGCTCCTGACAGTACTTTCGTA
** * *
31622637 CTCCTGTTAGTAGTACGGTGCTC
1 CTCCTAATAGCACTACGGTGCTC
31622660 TTGATAGCAC
Statistics
Matches: 115, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 111 0.97
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.32
Consensus pattern (40 bp):
CTCCTAATAGCACTACGGTGCTCCTGACAGTACTTTCGTA
Found at i:31622658 original size:80 final size:80
Alignment explanation
Indices: 31622477--31622658 Score: 190
Period size: 80 Copynumber: 2.3 Consensus size: 80
31622467 CGAATAAGTG
* * ** *
31622477 CTCCTCATAGCACTACGGTGCTCCTGGCAGTACTTCCGTACTCTTGAAAGCACTACGATGCTCCT
1 CTCCTGATAGCACTACGGTGCTACTAACAGTACTTCCGTACTCCTGAAAGCACTACGATGCTCCT
*
31622542 AACGATACTTTTGTA
66 AACGATACTTTCGTA
* ** * *
31622557 CTCTTGATAGCACTATAGTGCTACTAACAGTACTTTCGTACTCCT-AATAGCACTACGGTGCTCC
1 CTCCTGATAGCACTACGGTGCTACTAACAGTACTTCCGTACTCCTGAA-AGCACTACGATGCTCC
31622621 TGATA-G-TACTTTCGTA
65 T-A-ACGATACTTTCGTA
* * *
31622637 CTCCTGTTAGTAGTACGGTGCT
1 CTCCTGATAGCACTACGGTGCT
31622659 CTTGATAGCA
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
79 2 0.02
80 77 0.94
81 2 0.02
82 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (80 bp):
CTCCTGATAGCACTACGGTGCTACTAACAGTACTTCCGTACTCCTGAAAGCACTACGATGCTCCT
AACGATACTTTCGTA
Found at i:31623703 original size:27 final size:26
Alignment explanation
Indices: 31623673--31623770 Score: 72
Period size: 27 Copynumber: 3.6 Consensus size: 26
31623663 GTAAATCTAC
*
31623673 AAACCAAGGGTGTTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTT-T
*
31623700 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAGGGTATTTCTATAATTTTT
* * *
31623726 AAAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTT-T
* *
31623756 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
31623771 TGGTAATTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.02
27 32 0.54
28 7 0.12
29 18 0.31
30 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (26 bp):
AAACCAAGGGTATTTCTATAATTTTT
Found at i:31623776 original size:27 final size:26
Alignment explanation
Indices: 31623736--31623886 Score: 176
Period size: 27 Copynumber: 5.6 Consensus size: 26
31623726 AAAAAGTCAA
* **
31623736 GGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAA-CAG
**
31623763 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTACAAACAG
*
31623789 AGGGTATTTCGGTAATTTTACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAA-CAG
* *
31623817 TGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAAC-AG
*
31623844 GGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
31623871 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
31623887 CTATCCTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 104 0.97
28 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAG
Found at i:31623822 original size:54 final size:54
Alignment explanation
Indices: 31623653--31623886 Score: 236
Period size: 54 Copynumber: 4.3 Consensus size: 54
31623643 CATCCTACAA
* * * * * ** * *
31623653 GGGTGTTTTGGTAAATCTACAAACCAAGGGTGTTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACCAG
* * * * * * *
31623707 TGGTATTTCT-ATAATTTTTAAAAAGTCAAGGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTTGGTAATTTTATAAACCAG
* * * *
31623763 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACCAG
* *
31623817 TGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACCAG
31623871 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
31623887 CTATCCTACA
Statistics
Matches: 146, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
54 95 0.65
55 17 0.12
56 34 0.23
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACCAG
Found at i:31623850 original size:81 final size:81
Alignment explanation
Indices: 31623737--31623886 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
31623727 AAAAGTCAAG
* ** * *
31623737 GGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGG
31623801 TAATTTTACAAACCAGT
65 TAATTTTACAAACCAGT
* *
31623818 GGTATTTTGGTAATTTTACAAA-CTAAGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGG
1 GGTATTTTGGTAATTTTACAAATC-AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGG
31623882 TAATT
65 TAATT
31623887 CTATCCTACA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
80 1 0.02
81 57 0.95
82 2 0.03
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTTACAAACCAGT
Found at i:31623905 original size:54 final size:53
Alignment explanation
Indices: 31623653--31623916 Score: 208
Period size: 54 Copynumber: 4.8 Consensus size: 53
31623643 CATCCTACAA
* * * * * * * *
31623653 GGGTGTTTTGGTAAATCTACAAACCAAGGGTGTTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTCGGTAATTTTATAAACTAG
* * * ** *
31623707 TGGTATTTCT-ATAATTTTTAAAAAGTCAAGGGTATTTTTGTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAA-TTTTACAAA--CAAGGGTATTTCGGTAATTTTATAAACT-AG
** * *
31623763 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTCGGTAATTTTATAAACTAG
* *
31623817 TGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTCGGTAATTTTATAAACTAG
* ** * *
31623871 GGGTATTTTGGTAATTCTATCCTACAAGGATATTTCAGTAATTTTA
1 GGGTATTTTGGTAATTTTA-CAAACAAGGGTATTTCGGTAATTTTA
31623917 CAATCGAGGG
Statistics
Matches: 167, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
54 114 0.68
55 19 0.11
56 34 0.20
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACAAGGGTATTTCGGTAATTTTATAAACTAG
Found at i:31623905 original size:81 final size:81
Alignment explanation
Indices: 31623763--31623919 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
31623753 TGTAAATCAG
* * * * **
31623763 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTCTACAAACAAGTGATATTTCAG
31623828 TAATTTTACAAACTAA
66 TAATTTTACAAACTAA
* * **
31623844 GGGTATTTTGGTAATTTTATAAACTAG-GGGTATTTTGGTAATTCTATCCTACAAG-GATATTTC
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTCTA-CAAACAAGTGATATTTC
31623907 AGTAATTTTACAA
64 AGTAATTTTACAA
31623920 TCGAGGGTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
81 57 0.89
82 7 0.11
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTCTACAAACAAGTGATATTTCAG
TAATTTTACAAACTAA
Found at i:31623952 original size:27 final size:26
Alignment explanation
Indices: 31623908--31624115 Score: 195
Period size: 27 Copynumber: 7.7 Consensus size: 26
31623898 GGATATTTCA
31623908 GTAATTT-TACAATCGAGGGTAAAACG
1 GTAATTTATA-AATCGAGGGTAAAACG
* * *
31623934 ATAATATTGTAAA-CTGAGGGTAAAATG
1 GTAAT-TTATAAATC-GAGGGTAAAACG
* *
31623961 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAA-TTTATAAATCGAGGGTAAAACG
* *
31623988 GTAAATCTATAAATCGAGGGTAAAATG
1 GT-AATTTATAAATCGAGGGTAAAACG
*
31624015 GTAATCTATAAATCGAGGGTAAAACG
1 GTAATTTATAAATCGAGGGTAAAACG
* * *
31624041 GTAATTTTGTAAATCGAGGATGAAACG
1 GTAA-TTTATAAATCGAGGGTAAAACG
* *
31624068 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATT-TATAAATCGAGGGTAAAACG
*
31624095 GTAATTCTACAAAATCGAGGG
1 GTAATT-TA-TAAATCGAGGG
31624116 CATTTCAGTA
Statistics
Matches: 152, Mismatches: 21, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
26 34 0.22
27 103 0.68
28 15 0.10
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (26 bp):
GTAATTTATAAATCGAGGGTAAAACG
Found at i:31623990 original size:80 final size:78
Alignment explanation
Indices: 31623906--31624115 Score: 215
Period size: 80 Copynumber: 2.6 Consensus size: 78
31623896 AAGGATATTT
* * *
31623906 CAGTAATTTTACAATCGAGGGTAAAACGATAATATTGTAAA-CTGAGGGTAAAATGGTAATTTTG
1 CAGTAATTTTA-AATCGAGGGTAAAACGATAAT-CTATAAATC-GAGGGTAAAACGGTAATTTTG
*
31623970 TAAATCGAGGGTAAAA
63 TAAATCGAGGATAAAA
* * *
31623986 CAGTAAATCTATAAATCGAGGGTAAAATGGTAATCTATAAATCGAGGGTAAAACGGTAATTTTGT
1 CAGT-AAT-TTTAAATCGAGGGTAAAACGATAATCTATAAATCGAGGGTAAAACGGTAATTTTGT
*
31624051 AAATCGAGGATGAAA
64 AAATCGAGGATAAAA
* * * * *
31624066 CGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTACAAAATCGAGGG
1 CAGTAATT-T-TAAATCGAGGGTAAAACGATAA-TCTA-TAAATCGAGGG
31624116 CATTTCAGTA
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 3 0.03
80 67 0.60
81 27 0.24
82 13 0.12
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (78 bp):
CAGTAATTTTAAATCGAGGGTAAAACGATAATCTATAAATCGAGGGTAAAACGGTAATTTTGTAA
ATCGAGGATAAAA
Found at i:31627135 original size:46 final size:46
Alignment explanation
Indices: 31627082--31627210 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
31627072 TGTAACCCGC
* * * * *
31627082 CCATAAGTGAACTCGGACACAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31627128 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31627174 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31627211 TGCCCAAATA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31629624 original size:15 final size:15
Alignment explanation
Indices: 31629604--31629644 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
31629594 CAAGAAAATC
31629604 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
31629619 GAATAAA-AAGATCCA
1 GAATAAAGAA-ATCCA
31629634 -AGATAAAGAAA
1 GA-ATAAAGAAA
31629645 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.13
15 18 0.78
16 2 0.09
ACGTcount: A:0.63, C:0.10, G:0.15, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:31632715 original size:93 final size:93
Alignment explanation
Indices: 31632587--31632755 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
31632577 GCCCATAAGT
* * *
31632587 GAACACGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACACGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31632652 CGAGCTCGGATACCTAGTTACATCTCTC
66 CGAGCTCGGATACCTAGTTACATCTCTC
* *
31632680 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACACGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
31632745 CTAGTTCGGAT
66 CGAGCTCGGAT
31632756 GCCCAAATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACACGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATACCTAGTTACATCTCTC
Found at i:31632751 original size:46 final size:46
Alignment explanation
Indices: 31632579--31632754 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
31632569 TGTAACCCGC
* * *
31632579 CCATAAGTGAACACGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * * * *
31632625 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATACCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACA-TTCGCAT
* *** *
31632671 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
31632718 CCATAAGTGAACTCGGACTCAACTCAACTAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
31632755 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 35 0.34
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:31644804 original size:16 final size:16
Alignment explanation
Indices: 31644757--31644805 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
31644747 CAATAAATCC
*
31644757 CGAAATGCTGAAAAGC
1 CGAAATGCTGAAAAGT
* **
31644773 CGAAACGCAAAAAAGT
1 CGAAATGCTGAAAAGT
*
31644789 TGAAATGCTGAAAAGT
1 CGAAATGCTGAAAAGT
31644805 C
1 C
31644806 AAAAGTTTGG
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.14
Consensus pattern (16 bp):
CGAAATGCTGAAAAGT
Found at i:31646983 original size:24 final size:24
Alignment explanation
Indices: 31646940--31646991 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
31646930 CACAAACGCA
31646940 GCTCTTCATGAGCATCCTGATATAG
1 GCTCTTCATGAGCATCCTGATAT-G
* *
31646965 GCTCTT-ATGGGCTTCCTGATATG
1 GCTCTTCATGAGCATCCTGATATG
31646988 GCTC
1 GCTC
31646992 GCTTGAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
GCTCTTCATGAGCATCCTGATATG
Found at i:31658355 original size:28 final size:28
Alignment explanation
Indices: 31658297--31658366 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
31658287 AATGAGATTG
31658297 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATA
* *
31658325 GCATTAAGTGTGCGAGTTTGACTAT-TA-A
1 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
31658353 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31658367 GACTTACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTGTATA
Found at i:31670509 original size:50 final size:49
Alignment explanation
Indices: 31670378--31670560 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 49
31670368 TCTATTGTCA
* * * * *
31670378 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT-GT
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTA-CC--AGACTGGT
* * **
31670429 GATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATTAGA-TGGT
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACTGGT
* * *
31670477 GAAGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACTGTT
1 G--GTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACTGGT
*
31670528 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTA
31670561 TGCGTACTAG
Statistics
Matches: 109, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 1 0.01
48 5 0.05
49 29 0.27
50 37 0.34
51 37 0.34
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACTGGT
Found at i:31677656 original size:56 final size:56
Alignment explanation
Indices: 31677596--31677827 Score: 383
Period size: 56 Copynumber: 4.1 Consensus size: 56
31677586 GTGATTATGT
31677596 GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
1 GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* * *
31677652 GTAAGACTACGTTTAATACGTTGGCATCGATATGTGATTCCGATATATGTGTACGA
1 GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* *
31677708 GTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCTGATATATGGGTGCGA
1 GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* * * *
31677764 GTAAGACCACATTTAATACGTTGGCATCGATATGTGACTCTGATATGTGTATGCGA
1 GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
31677820 GTAAGACC
1 GTAAGACC
31677828 CTATCTAGGA
Statistics
Matches: 162, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 162 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (56 bp):
GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
Found at i:31677732 original size:112 final size:112
Alignment explanation
Indices: 31677596--31677858 Score: 386
Period size: 112 Copynumber: 2.3 Consensus size: 112
31677586 GTGATTATGT
* * *
31677596 GTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACTA
1 GTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCTGATATATGGGTGCGAGTAAGACCA
* * *
31677661 CGTTTAATACGTTGGCATCGATATGTGATTCCGATATATGTGTACGA
66 CATTTAATACGTTGGCATCGATATGTGACTCCGATATATGTATACGA
31677708 GTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCTGATATATGGGTGCGAGTAAGACCA
1 GTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCTGATATATGGGTGCGAGTAAGACCA
* * *
31677773 CATTTAATACGTTGGCATCGATATGTGACTCTGATATGTGTATGCGA
66 CATTTAATACGTTGGCATCGATATGTGACTCCGATATATGTATACGA
** *
31677820 GTAAGACC-C-TATCTAGGACAGTGGCATCGATATGTGATT
1 GTAAGACCACGT-T-TAATACATTGGCATCGATATGTGATT
31677859 ACATGTAAGA
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
110 1 0.01
111 2 0.01
112 134 0.98
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (112 bp):
GTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCTGATATATGGGTGCGAGTAAGACCA
CATTTAATACGTTGGCATCGATATGTGACTCCGATATATGTATACGA
Found at i:31677845 original size:56 final size:57
Alignment explanation
Indices: 31677596--31677858 Score: 349
Period size: 56 Copynumber: 4.7 Consensus size: 57
31677586 GTGATTATGT
*
31677596 GTAAGACCAC-GTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
1 GTAAGACCACTATTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* * * *
31677652 GTAAGACTAC-GTTTAATACGTTGGCATCGATATGTGATTCCGATATATGTGTACGA
1 GTAAGACCACTATTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* * *
31677708 GTAAGACCAC-GTTTAATACATTGGCATCGATATGTGATTCTGATATATGGGTGCGA
1 GTAAGACCACTATTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* * *
31677764 GTAAGACCAC-ATTTAATACGTTGGCATCGATATGTGACTCTGATATGTGTATGCGA
1 GTAAGACCACTATTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
* **
31677820 GTAAGACC-CTATCTAGGACAG-TGGCATCGATATGTGATT
1 GTAAGACCACTATTTAATAC-GTTGGCATCGATATGTGATT
31677859 ACATGTAAGA
Statistics
Matches: 187, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
55 1 0.01
56 185 0.99
57 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (57 bp):
GTAAGACCACTATTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGA
Found at i:31680337 original size:37 final size:37
Alignment explanation
Indices: 31680278--31680386 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
31680268 AGCTCAGACG
* * *
31680278 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
31680315 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
31680352 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
31680387 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:31680649 original size:98 final size:96
Alignment explanation
Indices: 31680533--31680716 Score: 282
Period size: 98 Copynumber: 1.9 Consensus size: 96
31680523 GCACATCGCC
*
31680533 TACATATTTCACACTAGCCATTCGGATTTACCACATATACATATCTCATATATATATTTCAG-AT
1 TACATATTTCACACTAGCCATTCGGATTTACCACATATACATATCTC--ATACATATTTC-GCAT
31680597 T-GACCATTCGGCTTTACCACATATGCATATCTCA
63 TAG-CCATTCGGCTTTACCACATATGCATATCTCA
* * *
31680631 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCGCATTAG
1 TACATATTTCACACTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCGCATTAG
31680696 CCATTCGGCTTTACCACATAT
66 CCATTCGGCTTTACCACATAT
31680717 ATACATGTTC
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
95 1 0.01
96 34 0.43
97 1 0.01
98 44 0.55
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCGCATTAG
CCATTCGGCTTTACCACATATGCATATCTCA
Found at i:31680719 original size:48 final size:48
Alignment explanation
Indices: 31680533--31680717 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
31680523 GCACATCGCC
* *
31680533 TACATATTTCACACTAGCCATTCGGATTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
31680583 TATATATTTCAGATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
31680631 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
31680679 TACATATTTCGCATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
31680718 TACATGTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
48 81 0.66
49 2 0.02
50 40 0.33
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:31680760 original size:22 final size:22
Alignment explanation
Indices: 31680735--31680808 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
31680725 TCATATTCAC
31680735 CACATTGGCCATTCAGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
** *
31680757 CACACAGATG-CATGCTCA-CATTCAT
1 CACATTG--GCCAT--TCAGCCTT-AT
*
31680782 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
31680804 CACAT
1 CACAT
31680809 ATATGCATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 14 0.37
23 7 0.18
24 7 0.18
25 10 0.26
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (22 bp):
CACATTGGCCATTCAGCCTTAT
Found at i:31680786 original size:47 final size:47
Alignment explanation
Indices: 31680690--31680880 Score: 211
Period size: 47 Copynumber: 4.1 Consensus size: 47
31680680 ACATATTTCG
* * * * * * * *
31680690 CATTAGCCATTCGGCTTTACCACATATATACATGTTCATATTCACCA
1 CATTGGCCATTCGGCCTTATCACACAGATGCATGTTCACATTCATCA
* *
31680737 CATTGGCCATTCAGCCTTATCACACAGATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACAGATGCATGTTCACATTCATCA
* * *
31680784 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACAGATGCATGTTCACATTCATCA
* * * * **
31680831 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACAGATGCATGTTCACATTCATCA
31680878 CAT
1 CAT
31680881 AAAATCCTAA
Statistics
Matches: 124, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 124 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACAGATGCATGTTCACATTCATCA
Found at i:31680870 original size:94 final size:94
Alignment explanation
Indices: 31680690--31680880 Score: 247
Period size: 94 Copynumber: 2.0 Consensus size: 94
31680680 ACATATTTCG
* * *
31680690 CATTAGCCATTCGGCTTTACCACATATATACATGTTCATATTCACCACATTGGCCATTCAGCCTT
1 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATCCACCACATTGGCCATTCAGCCTT
* **
31680755 ATCACACAGATGCATGCTCACATTCATCA
66 ATCACACAGATACACACTCACATTCATCA
* * * * *
31680784 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATCCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATCCACCACATTGGCCATTCAGCCTT
* * * *
31680849 ATCTCATATATACACATTCACATTCATCA
66 ATCACACAGATACACACTCACATTCATCA
31680878 CAT
1 CAT
31680881 AAAATCCTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 82 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (94 bp):
CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATCCACCACATTGGCCATTCAGCCTT
ATCACACAGATACACACTCACATTCATCA
Found at i:31685058 original size:40 final size:40
Alignment explanation
Indices: 31685026--31685377 Score: 542
Period size: 40 Copynumber: 8.8 Consensus size: 40
31685016 CCAGCATGAT
* * * *
31685026 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** * *
31685066 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
31685106 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
31685146 TGCTCTTCGGGACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
31685186 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
31685226 TGCTCTTCGGGACTTAGCTCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
31685266 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
31685306 TGCTCTTCGGGACTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
31685346 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
31685378 CTCAATTCTC
Statistics
Matches: 282, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 282 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:31685283 original size:23 final size:23
Alignment explanation
Indices: 31685217--31685283 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
31685207 GATACATCAC
31685217 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
31685240 TAGCTCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
31685257 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
31685280 TAGC
1 TAGC
31685284 CCGGATACAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 3 0.10
23 12 0.40
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:31686705 original size:37 final size:37
Alignment explanation
Indices: 31686646--31686754 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
31686636 AGCTCAGACG
** *
31686646 AAATCTCCACACAAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
31686683 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
31686720 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
31686755 ATATATTTCG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:31687013 original size:48 final size:48
Alignment explanation
Indices: 31686901--31687091 Score: 240
Period size: 48 Copynumber: 3.8 Consensus size: 48
31686891 GCACATCACC
* *
31686901 TACATATTTCACACTAGCCATTCGGCTTTACAACATATACATATCTCATATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--------A
* * *
31686957 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
31687005 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
31687053 TACATATTTCGCATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
31687092 TACATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
48 82 0.66
49 1 0.01
55 1 0.01
56 40 0.32
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:31687154 original size:47 final size:47
Alignment explanation
Indices: 31687064--31687254 Score: 265
Period size: 47 Copynumber: 4.1 Consensus size: 47
31687054 ACATATTTCG
* * * * * *
31687064 CATTAGCCATTCGGCTTTACCACATATATACATGTTCATATTCACCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
31687111 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
31687158 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * **
31687205 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31687252 CAT
1 CAT
31687255 AAAATCCTAA
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:31689903 original size:47 final size:47
Alignment explanation
Indices: 31689851--31690256 Score: 614
Period size: 47 Copynumber: 8.6 Consensus size: 47
31689841 GATAATTGTG
* *
31689851 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
31689898 ATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
31689945 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
31689994 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
31690041 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
31690090 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
31690137 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
31690184 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
31690231 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
31690257 TCCCGAAGGG
Statistics
Matches: 327, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
47 239 0.73
49 88 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:31689958 original size:96 final size:96
Alignment explanation
Indices: 31689851--31690256 Score: 671
Period size: 96 Copynumber: 4.3 Consensus size: 96
31689841 GATAATTGTG
31689851 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
31689914 ATGTGATAAGGTCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
31689945 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
31690010 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
31690041 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
31690106 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
31690137 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * *
31690200 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
31690231 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
31690257 TCCCGAAGGG
Statistics
Matches: 292, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
94 99 0.34
95 3 0.01
96 190 0.65
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:31689998 original size:143 final size:143
Alignment explanation
Indices: 31689851--31690256 Score: 633
Period size: 143 Copynumber: 2.9 Consensus size: 143
31689841 GATAATTGTG
* *
31689851 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
31689916 GTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATA
31689980 GACCGATGTGATGA
131 G-CCGATGTGATGA
* *
31689994 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
* *
31690059 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
31690122 TAGCCGATGTGATGA
129 TAGCCGATGTGATGA
*
31690137 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
31690202 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
31690257 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 17, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
141 50 0.21
142 1 0.00
143 145 0.60
144 1 0.00
145 44 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATA
GCCGATGTGATGA
Found at i:31693949 original size:28 final size:27
Alignment explanation
Indices: 31693906--31694011 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
31693896 GAAATTAGAG
31693906 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
31693933 TTAATCTGGGCCATAGCCCCTTACAATATC-ATA
1 TTAATCTGGGCC-TAG--CC---C-ATATCAATA
*
31693966 TTATAT-TGGGCCTAGCCCATATCAGTA
1 TTA-ATCTGGGCCTAGCCCATATCAATA
* *
31693993 TCAATTTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
31694012 TATTACAAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 21
0.73 0.03 0.24
Matches are distributed among these distances:
26 7 0.11
27 15 0.23
28 16 0.25
30 4 0.06
32 3 0.05
33 13 0.20
34 7 0.11
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:31694031 original size:60 final size:60
Alignment explanation
Indices: 31693911--31694047 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 60
31693901 TAGAGTTAAC
* * *
31693911 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAATATCATATTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAATATCAGATTATAT
* * * *
31693972 TGGGCCTAGCCCATATCAGTATCAATTTGGGCCGTAGCCCTATTACAA-GTCGAGA-TATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAATATC-AGATTATAT
* *
31694032 TAGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
31694048 TAACACAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
60 51 0.78
61 14 0.22
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAATATCAGATTATAT
Found at i:31695589 original size:18 final size:18
Alignment explanation
Indices: 31695533--31695589 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
31695523 GGCTATAGAG
31695533 GAAAAGAAGAAGAAGAGAA
1 GAAAAGAAGAAG-AGAGAA
* * *
31695552 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGAA
*
31695569 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
31695587 GAA
1 GAA
31695590 TTTTCAGAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:31709523 original size:28 final size:27
Alignment explanation
Indices: 31709468--31709583 Score: 119
Period size: 28 Copynumber: 4.3 Consensus size: 27
31709458 AGCATGGCTG
* *
31709468 CCAGAACAGAT-ATTGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
31709494 CCAGATACAGATAATTGTGGCAGGGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
*
31709522 CCAGAAACA-AAAATTTGTGGCAGAGCCA
1 CCAG-AACAGATAA-TTGTGGCAGAGCCA
* * * *
31709550 CTAGAACAGATATTTATGGTAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
31709577 CCAGAAC
1 CCAGAAC
31709584 GCTTCCTCCA
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
26 5 0.07
27 31 0.42
28 37 0.50
29 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:31711533 original size:12 final size:12
Alignment explanation
Indices: 31711498--31711534 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
31711488 AAACCTACGA
*
31711498 AATAATAATAAA
1 AATAATAATAAC
31711510 AATAATAATAAC
1 AATAATAATAAC
*
31711522 AATAACAATAAC
1 AATAATAATAAC
31711534 A
1 A
31711535 TCCAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:31724917 original size:21 final size:20
Alignment explanation
Indices: 31724893--31724932 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
31724883 ACTTGTACAG
31724893 CTATCATCAAA-CATTCAAAAT
1 CTATCAT-AAATCA-TCAAAAT
31724914 CTATCATAAATCATCAAAA
1 CTATCATAAATCATCAAAA
31724933 CACACATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (20 bp):
CTATCATAAATCATCAAAAT
Found at i:31729355 original size:49 final size:49
Alignment explanation
Indices: 31729283--31729426 Score: 191
Period size: 49 Copynumber: 2.9 Consensus size: 49
31729273 GCCGAAGTTA
31729283 TCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT
* * * *
31729332 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T
** *
31729383 TCAAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACC
31729427 TCACAATAGA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
48 4 0.05
49 40 0.49
51 37 0.46
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (49 bp):
TCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT
Found at i:31729417 original size:51 final size:49
Alignment explanation
Indices: 31729287--31729426 Score: 174
Period size: 51 Copynumber: 2.8 Consensus size: 49
31729277 AAGTTATCTG
* **
31729287 GTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTG
1 GTACGCGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCAA
* * *
31729336 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCAA
1 GTACGCGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCAA
* *
31729387 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GTACGCGTAGTAGCCTGCACTTAGTACTACACACGCGACC
31729427 TCACAATAGA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
48 4 0.05
49 36 0.47
51 37 0.48
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (49 bp):
GTACGCGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCAA
Found at i:31733324 original size:48 final size:48
Alignment explanation
Indices: 31733253--31733429 Score: 178
Period size: 48 Copynumber: 3.7 Consensus size: 48
31733243 AGGGTAATTT
* ** * *
31733253 GCCAACGCCATGTCTGAGACATGGTCTTACACTGGCTCACATGTTGAA
1 GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTTGAA
* ** *
31733301 GCCAATGGCATGTCCCAAACATGGTCTTACACTACCTCTC--GTCTCAA
1 GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGT-TGAA
* * * **
31733348 TGTCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 -GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTTGAA
* *
31733397 GCCGATGCCATGACCCAAACATGGTCTTACACT
1 GCCAATGCCATGTCCCAAACATGGTCTTACACT
31733430 CGCACATATC
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 2 0.02
47 3 0.03
48 98 0.94
50 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTTGAA
Found at i:31737199 original size:28 final size:28
Alignment explanation
Indices: 31737175--31737271 Score: 126
Period size: 28 Copynumber: 3.4 Consensus size: 28
31737165 AAATGGGCTC
*
31737175 GATGGGCCATATAAATGAGATTGGGCCT
1 GATGGGCCATATAAATGAGATTGGGCCA
*
31737203 GATGGGCCATATGAACGTGA-ATTGGGCCA
1 GATGGGCCATAT-AA-ATGAGATTGGGCCA
*
31737232 TATGGGCCATATAAATGAGATTGGGCCTA
1 GATGGGCCATATAAATGAGATTGGGCC-A
31737261 G-TGGGCCATAT
1 GATGGGCCATAT
31737272 GCATGTGTGT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.05
28 32 0.53
29 22 0.37
30 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (28 bp):
GATGGGCCATATAAATGAGATTGGGCCA
Found at i:31744512 original size:40 final size:40
Alignment explanation
Indices: 31744452--31744714 Score: 393
Period size: 40 Copynumber: 6.6 Consensus size: 40
31744442 GGATGATAAC
31744452 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
* * *
31744492 CGGGATAAGTCCCGAAGGCATTTGTGTGAGTTACTATTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
*
31744532 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
*
31744572 CGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
*
31744611 CTGGGCTAAGTCCCTAAGGCATTTGTGCGAGTTACTATTTT
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
* ****
31744652 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
**
31744692 CGGGCTAAGTCTAGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTT
31744715 AAGCGAGTAG
Statistics
Matches: 204, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
39 3 0.01
40 197 0.97
41 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTT
Found at i:31750192 original size:16 final size:16
Alignment explanation
Indices: 31750150--31750192 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
31750140 GTAGATCGGC
*
31750150 AAAAGCCGAAATGCCG
1 AAAAGCCAAAATGCCG
* *
31750166 AAATGCCAAAATGTCG
1 AAAAGCCAAAATGCCG
*
31750182 AAAAGCTAAAA
1 AAAAGCCAAAA
31750193 GTTTGGCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.19, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAAGCCAAAATGCCG
Found at i:31750488 original size:29 final size:29
Alignment explanation
Indices: 31750416--31750518 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
31750406 GCATGTGATG
* *
31750416 TGGGCCATATGAATCTAAATTGGGCCTGA
1 TGGGCCATATGAATGTAAATTAGGCCTGA
* *
31750445 TGGGCAATATGAATGTGAATTAGGCCTGA
1 TGGGCCATATGAATGTAAATTAGGCCTGA
* * * *
31750474 TGGGCCATATAAATG-AGATTGGGCC-AA
1 TGGGCCATATGAATGTAAATTAGGCCTGA
*
31750501 GTGGGCCATATGCATGTA
1 -TGGGCCATATGAATGTA
31750519 TGTAGGGGTT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.02
28 20 0.33
29 39 0.65
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGGCCATATGAATGTAAATTAGGCCTGA
Found at i:31753796 original size:25 final size:28
Alignment explanation
Indices: 31753758--31753812 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 28
31753748 TTTCATCATG
* *
31753758 TATTATTCATAATC-AT-ATTCAAC-CA
1 TATTATTAAAAATCAATCATTCAACACA
31753783 TATTATTAAAAATCAATCATTCAACACA
1 TATTATTAAAAATCAATCATTCAACACA
31753811 TA
1 TA
31753813 ATAGCGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.48
26 2 0.08
27 7 0.28
28 4 0.16
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (28 bp):
TATTATTAAAAATCAATCATTCAACACA
Found at i:31756151 original size:12 final size:12
Alignment explanation
Indices: 31756134--31756160 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31756124 ATTCCTCAAA
31756134 GATAGCTACACT
1 GATAGCTACACT
31756146 GATAGCTACACT
1 GATAGCTACACT
31756158 GAT
1 GAT
31756161 GGAGCAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (12 bp):
GATAGCTACACT
Found at i:31757593 original size:53 final size:52
Alignment explanation
Indices: 31757399--31757605 Score: 184
Period size: 53 Copynumber: 3.8 Consensus size: 52
31757389 ATTAGGGTTT
*
31757399 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTT-ATACAAGGC
1 AAGGATACC-AGTAAGACCATGCCAAGACATGGCAA-TGGTAAGTTCAT--AAGGC
* * * * * * *
31757453 AAGGAAATCAGATAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCAG-TAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
31757508 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAACGC
1 AAGGATACCA-GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
31757561 AAGGATACCACGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
1 AAGGATACCA-GTAAGACCATGCCAAGACATGGCAATGGTAAGTT
31757606 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
53 46 0.38
54 32 0.27
55 39 0.32
56 1 0.01
57 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (52 bp):
AAGGATACCAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:31761823 original size:46 final size:46
Alignment explanation
Indices: 31761773--31761948 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
31761763 TGGTTGAGCA
31761773 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31761819 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
31761864 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31761912 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31761949 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31761929 original size:93 final size:93
Alignment explanation
Indices: 31761770--31761941 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31761760 GGATGGTTGA
* *
31761770 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31761835 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
31761863 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31761928 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
31761942 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31769393 original size:46 final size:46
Alignment explanation
Indices: 31769343--31769518 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
31769333 TGGTTGAGCA
31769343 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31769389 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
31769434 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31769482 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31769519 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31769499 original size:93 final size:93
Alignment explanation
Indices: 31769340--31769511 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31769330 GGATGGTTGA
* *
31769340 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31769405 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
31769433 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31769498 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
31769512 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31774436 original size:27 final size:27
Alignment explanation
Indices: 31774385--31774484 Score: 76
Period size: 27 Copynumber: 3.7 Consensus size: 27
31774375 GTTGTTAAAA
* * ** *
31774385 CCCTGATTTGTAAAATTTCTGAAATAT
1 CCCTAATTTGTAAAATTACAAAAATAC
*
31774412 CTCTAATTTGTAAAATTACAAAAATAC
1 CCCTAATTTGTAAAATTACAAAAATAC
* * ***
31774439 CCCTGATTTGTAAATTTATTGAAATAC
1 CCCTAATTTGTAAAATTACAAAAATAC
*
31774466 CCTCAAATTT-TAAAATTAC
1 CC-CTAATTTGTAAAATTAC
31774485 CGTGTAATAT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
27 51 0.91
28 5 0.09
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTAATTTGTAAAATTACAAAAATAC
Found at i:31775829 original size:46 final size:45
Alignment explanation
Indices: 31775780--31775951 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 45
31775770 TTGAGCATCC
31775780 GAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGT-T
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTCT
* *
31775825 CGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA-GATG-TAACTAGGCATCT
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G--TCT
* *
31775873 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTCT
*
31775919 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
31775952 GGCAGGTTAC
Statistics
Matches: 109, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.54
47 28 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGTCT
Found at i:31775933 original size:93 final size:93
Alignment explanation
Indices: 31775774--31775945 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
31775764 GGATGGTTGA
* *
31775774 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGT
31775839 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * *
31775867 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTC-GAACTCGTTGAG
31775931 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
31775946 CTTAGGGGCA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:31778797 original size:23 final size:22
Alignment explanation
Indices: 31778745--31778797 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
31778735 TCCACGTCTT
*
31778745 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
31778767 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
31778790 TTTCTTTT
1 TTTCTTTT
31778798 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:31782515 original size:27 final size:27
Alignment explanation
Indices: 31782485--31782556 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
31782475 CCCCAGTTTT
*
31782485 TAAAATTACCAAAATACCCTTGTAGTG
1 TAAAATTACCAAAATACCCTTATAGTG
****
31782512 TAAAATTGTTGAAATACCCTTATAGTG
1 TAAAATTACCAAAATACCCTTATAGTG
31782539 TAAAATTACCAAAATACC
1 TAAAATTACCAAAATACC
31782557 TCTGTAGGTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTATAGTG
Found at i:31782569 original size:27 final size:26
Alignment explanation
Indices: 31782485--31782571 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 26
31782475 CCCCAGTTTT
31782485 TAAAATTACCAAAATACCCTTGTAGTG
1 TAAAATTACCAAAATACCC-TGTAGTG
**** *
31782512 TAAAATTGTTGAAATACCCTTATAGTG
1 TAAAATTACCAAAATACCC-TGTAGTG
31782539 TAAAATTACCAAAATACCTCTGTAG-G
1 TAAAATTACCAAAATACC-CTGTAGTG
31782565 TTAAAAT
1 -TAAAAT
31782572 GACTGTTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.32
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCTGTAGTG
Found at i:31783087 original size:32 final size:31
Alignment explanation
Indices: 31782985--31783086 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 31
31782975 ATATTTACCC
* *
31782985 AAGGCTATGTGCCGATTATATTACCGTCACTG
1 AAGGCTATGTGCCAATTATAATACCGT-ACTG
* * ** *
31783017 ATGGCTATGTGTCAAACATAATACAGTTACTG
1 AAGGCTATGTGCCAATTATAATACCG-TACTG
* *
31783049 ATGGCTTTGTGCCAATTATAATACCGCTACTG
1 AAGGCTATGTGCCAATTATAATACCG-TACTG
31783081 AAGGCT
1 AAGGCT
31783087 TAGAGCCGCA
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
32 54 0.98
33 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (31 bp):
AAGGCTATGTGCCAATTATAATACCGTACTG
Found at i:31783874 original size:19 final size:19
Alignment explanation
Indices: 31783850--31783888 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31783840 TAACTTTTCA
31783850 ATGTACCACTTTATAAAAT
1 ATGTACCACTTTATAAAAT
31783869 ATGTACCACTTTATAAAAT
1 ATGTACCACTTTATAAAAT
31783888 A
1 A
31783889 AACTAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (19 bp):
ATGTACCACTTTATAAAAT
Found at i:31785530 original size:61 final size:61
Alignment explanation
Indices: 31785455--31785577 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
31785445 AAAAATAACC
*
31785455 ATAGGTGAAATGTGGTTATTTTGATGTTTTATGGTATAATATGAAGCCTGAAGTTATGTTA
1 ATAGGTGAAATGTGGTTATTTTGATGTTTTATGGTATAATATGAAGCCTGAAGTTATATTA
*
31785516 ATAGGTGAAATGTGGTTATTTTGATGTTTTATGGTATAATATGAAGCTTGAAGTTATATTA
1 ATAGGTGAAATGTGGTTATTTTGATGTTTTATGGTATAATATGAAGCCTGAAGTTATATTA
31785577 A
1 A
31785578 ATGACTTGAG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (61 bp):
ATAGGTGAAATGTGGTTATTTTGATGTTTTATGGTATAATATGAAGCCTGAAGTTATATTA
Found at i:31795530 original size:56 final size:56
Alignment explanation
Indices: 31795378--31795571 Score: 235
Period size: 57 Copynumber: 3.4 Consensus size: 56
31795368 ATAGGATTCC
* * * *
31795378 GATATGTGATGTACGAGTAAGACCACATTTAATACGTTGGCATCGATATATGAATCC
1 GATATGTG-TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAATCT
* *
31795435 GTTATGTAATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAATCT
1 GATATGT-GTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAATCT
* * * * **
31795492 GATATATGTGTGCGAGTAAGACCATGTTTAATATGTTGGCATTGATATGTGACCCAT
1 GATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAATC-T
* *
31795549 TATATGTGTGTGTGAGTAAGACC
1 GATATGTGTGTGCGAGTAAGACC
31795572 CTATCTGGGA
Statistics
Matches: 118, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
56 42 0.36
57 76 0.64
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.33
Consensus pattern (56 bp):
GATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAATCT
Found at i:31798993 original size:26 final size:26
Alignment explanation
Indices: 31798953--31799020 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
31798943 ACATTTCGAC
* *
31798953 TCACAGCTCGTGTGAGTAGACTTACT
1 TCACAGCTAGTGTGAGTAGAATTACT
* *
31798979 TCATAGCTTA-TGTGAGTAGAATTATT
1 TCACAGC-TAGTGTGAGTAGAATTACT
31799005 TCACAGCTAGTGTGAG
1 TCACAGCTAGTGTGAG
31799021 CAATGATGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 2 0.06
26 32 0.91
27 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (26 bp):
TCACAGCTAGTGTGAGTAGAATTACT
Found at i:31802962 original size:31 final size:31
Alignment explanation
Indices: 31802921--31802984 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
31802911 CCTTTTCATA
* *
31802921 TTTCATATTTCATAACATTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
31802952 TTTCAAATTTCATATTACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
31802983 TT
1 TT
31802985 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:31803252 original size:23 final size:23
Alignment explanation
Indices: 31803198--31803315 Score: 184
Period size: 23 Copynumber: 5.1 Consensus size: 23
31803188 CCTAGCCTCT
* *
31803198 TTTAATAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
31803221 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
31803245 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
31803268 TTTAATAA-TTGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
31803290 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
31803313 TTT
1 TTT
31803316 TTCATTTCCT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
22 20 0.23
23 46 0.53
24 21 0.24
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:31803297 original size:45 final size:46
Alignment explanation
Indices: 31803198--31803315 Score: 184
Period size: 45 Copynumber: 2.6 Consensus size: 46
31803188 CCTAGCCTCT
* * *
31803198 TTTAATAACTAGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCACAAGCCC
*
31803245 TTTAATAACTGGGGCATAAGCCCTTTAATAA-TTGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCACAAGCCC
31803290 TTTAATAACTGGGGCATAAGCCCTTT
1 TTTAATAACTGGGGCATAAGCCCTTT
31803316 TTCATTTCCT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 38 0.57
46 8 0.12
47 21 0.31
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCACAAGCCC
Found at i:31803394 original size:20 final size:20
Alignment explanation
Indices: 31803366--31803432 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
31803356 TTATGATTAC
*
31803366 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
31803386 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
31803406 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
31803426 ACCATGT
1 ATCATGT
31803433 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31811320 original size:16 final size:18
Alignment explanation
Indices: 31811299--31811354 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
31811289 CATTTATGAT
31811299 TACATCACGTG-AT-TCA
1 TACATCACGTGCATATCA
*
31811315 TACATCATGTGCATATCA
1 TACATCACGTGCATATCA
*
31811333 TACATGTCATGTGCATATCA
1 TACA--TCACGTGCATATCA
31811353 TA
1 TA
31811355 TACCATGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 10 0.29
17 2 0.06
18 7 0.20
20 16 0.46
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (18 bp):
TACATCACGTGCATATCA
Found at i:31823567 original size:37 final size:37
Alignment explanation
Indices: 31823517--31823589 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
31823507 CGCAATGAGT
31823517 ATGGAAACAATTTTAACCTCAGTGCATCTTCAGTCAA
1 ATGGAAACAATTTTAACCTCAGTGCATCTTCAGTCAA
* *
31823554 ATGGAAACAATTTTAACCTCATTGCATTTTCAGTCA
1 ATGGAAACAATTTTAACCTCAGTGCATCTTCAGTCA
31823590 CACTAGCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (37 bp):
ATGGAAACAATTTTAACCTCAGTGCATCTTCAGTCAA
Found at i:31825835 original size:39 final size:40
Alignment explanation
Indices: 31825734--31825957 Score: 255
Period size: 39 Copynumber: 5.7 Consensus size: 40
31825724 TTGAATGATG
* *
31825734 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
31825773 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
31825814 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
31825853 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
31825892 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
31825931 AACCGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
31825958 AATGAGTAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 75 0.46
40 75 0.46
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:31825979 original size:79 final size:79
Alignment explanation
Indices: 31825787--31825990 Score: 209
Period size: 79 Copynumber: 2.6 Consensus size: 79
31825777 GGACTAAGAT
** * * * *
31825787 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
31825851 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** *
31825865 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
31825929 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * * * *
31825945 CCGAAGGCGTTTGAATGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
31825991 TACGTGGTTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 37 0.34
79 48 0.44
80 23 0.21
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:31834062 original size:38 final size:39
Alignment explanation
Indices: 31834013--31834181 Score: 218
Period size: 38 Copynumber: 4.3 Consensus size: 39
31834003 GGACTAAGAT
31834013 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
31834051 CCGAAGGCATTTGTGCGAGATACTAATTCC-GGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
31834089 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * * *
31834129 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-C
*
31834169 CCGAAGGCGTTTG
1 CCGAAGGCATTTG
31834182 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
37 7 0.06
38 58 0.50
39 7 0.06
40 45 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:31834188 original size:40 final size:40
Alignment explanation
Indices: 31833961--31834181 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
31833951 TTGAATGATG
* * * *
31833961 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31834001 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31834040 TCCGGGCTAAG--CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
31834078 TCC-GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31834116 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
31834157 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31834182 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 16, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
37 7 0.04
38 58 0.37
39 28 0.18
40 63 0.40
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31834211 original size:78 final size:78
Alignment explanation
Indices: 31834013--31834213 Score: 180
Period size: 78 Copynumber: 2.6 Consensus size: 78
31834003 GGACTAAGAT
** * * * * *
31834013 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AA-GCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
31834076 ATTCCGGCTAAGC
66 ATACCGGCTAAGC
** * *
31834089 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
*
31834153 ATAACCGGGCTATGTC
66 AT-ACC-GGCTAAG-C
* * *
31834169 CCGAAGGCGTTTGAACGAG-TAGCTATATCC-GG-TAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
31834214 TACGTGGTTT
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
76 32 0.31
77 3 0.03
78 35 0.34
79 10 0.10
80 24 0.23
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGCTAAGC
Found at i:31843279 original size:29 final size:29
Alignment explanation
Indices: 31843207--31843307 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
31843197 AATCCCTACA
* * *
31843207 TACATGCATATGGCCCA-CTTGGCTCAATT
1 TACATTCATATGGCCCATC-AGGCCCAATT
*
31843236 T-CATTTATATGGCCCATCAGGCCCAATT
1 TACATTCATATGGCCCATCAGGCCCAATT
31843264 TACATTCATATGGCCCATCAGGCCCAATT
1 TACATTCATATGGCCCATCAGGCCCAATT
* *
31843293 CATATTCATATGGCC
1 TACATTCATATGGCC
31843308 TGTTAGGCCC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
28 22 0.35
29 41 0.65
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (29 bp):
TACATTCATATGGCCCATCAGGCCCAATT
Found at i:31843315 original size:29 final size:29
Alignment explanation
Indices: 31843237--31843326 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
31843227 GGCTCAATTT
* *
31843237 CATTTATATGGCCCATCAGGCCCAATTTA
1 CATTCATATGGCCCATCAGGCCCAATTCA
31843266 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* ** * *
31843295 TATTCATATGGCCTGTTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
31843324 CAT
1 CAT
31843327 GTATATTCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:31848101 original size:66 final size:66
Alignment explanation
Indices: 31848017--31848199 Score: 298
Period size: 66 Copynumber: 2.8 Consensus size: 66
31848007 CGGGATGTAT
31848017 ACCATGTAGACAAGAGAGCTACGGGATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
1 ACCATGTAGACAAGAGAGCTACGGGATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
31848082 C
66 C
*
31848083 ACCATGTAGACAAAAGAGCTACGGGATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
1 ACCATGTAGACAAGAGAGCTACGGGATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
31848148 C
66 C
* * * *
31848149 ACCATGTAGACAAGAGAGCTATGAGATAAAATG--GCTAGGTCACATGGGTGT
1 ACCATGTAGACAAGAGAGCTACGGGAT-AAATGTAGCTAGGTCGCATGTGTGT
31848200 ACTAAGTGTT
Statistics
Matches: 110, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
65 16 0.15
66 89 0.81
67 5 0.05
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (66 bp):
ACCATGTAGACAAGAGAGCTACGGGATAAATGTAGCTAGGTCGCATGTGTGTTCTAGATGAAGGA
C
Found at i:31853644 original size:16 final size:16
Alignment explanation
Indices: 31853623--31853671 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
31853613 ATAATATACT
31853623 TTTAAATATAA-ACATA
1 TTTAAATA-AATACATA
31853639 TTTAAATAAATACATA
1 TTTAAATAAATACATA
*
31853655 TAATAAACTAAATACAT
1 T-TTAAA-TAAATACAT
31853672 CCTGAGCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 14 0.48
17 4 0.14
18 9 0.31
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTAAATAAATACATA
Found at i:31855156 original size:41 final size:41
Alignment explanation
Indices: 31855092--31855275 Score: 246
Period size: 41 Copynumber: 4.5 Consensus size: 41
31855082 ACATAAAATT
* * *
31855092 TGCTAGGC-ATAAAGCCT-AGTATAATACACCAGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCATAAAGCC
* * *
31855133 TGCTAGACAATAGGCCAGATATAATACACCGGCATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
** *
31855174 TGCTAGGCAATAAGCCTGATATAATACACCGATATAAAGCT
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
31855215 TGCTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
31855256 TGCTAGGCAATGAAGCCTGA
1 TGCTAGGCAAT-AAGCCTGA
31855276 ATATCACTGA
Statistics
Matches: 125, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
41 114 0.91
42 11 0.09
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
Found at i:31856219 original size:24 final size:25
Alignment explanation
Indices: 31856172--31856219 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
31856162 TTTTATTTTA
* *
31856172 ACATATATTAACCTTTAATCTAATT
1 ACATATATTAACCATTAATATAATT
*
31856197 ACATA-ATTAACCATTATTATAAT
1 ACATATATTAACCATTAATATAAT
31856220 ATTATTCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (25 bp):
ACATATATTAACCATTAATATAATT
Found at i:31863512 original size:49 final size:47
Alignment explanation
Indices: 31863284--31863513 Score: 183
Period size: 49 Copynumber: 4.7 Consensus size: 47
31863274 TACACGTGTT
* * * * *
31863284 TAGTACTAAGTGAAGG-TACTACGTGTACCATACTGTTAAGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTATCAT--TGTT-GGTCACATGTG
* * * **
31863333 TAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCATGTGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTA-TCATTG--TT-GGTCACATGTG
* * * * *
31863384 TAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTGAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTATC--ATTGT-TGGTCACATGTG
* *
31863434 TAGTACTAAGTGCAGGCTACTACGTGTATCGGATTGTTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTATC--ATTGTTGGTCACATGTG
*
31863483 TAGTACTAAGTGCAGGCTACTATGCGTATCA
1 TAGTACTAAGTGCAGGCTACTACGCGTATCA
31863514 GATAGCTTCG
Statistics
Matches: 146, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
49 54 0.37
50 54 0.37
51 35 0.24
52 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (47 bp):
TAGTACTAAGTGCAGGCTACTACGCGTATCATTGTTGGTCACATGTG
Done.