Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 90 of 131
Found at i:30183318 original size:15 final size:15
Alignment explanation
Indices: 30183298--30183332 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
30183288 CCATGATTGT
30183298 ATGACTATAA-TTTGA
1 ATGACT-TAACTTTGA
30183313 ATGACTTAACTTTGA
1 ATGACTTAACTTTGA
30183328 ATGAC
1 ATGAC
30183333 CTATCAGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (15 bp):
ATGACTTAACTTTGA
Found at i:30185213 original size:86 final size:87
Alignment explanation
Indices: 30185068--30185246 Score: 342
Period size: 86 Copynumber: 2.1 Consensus size: 87
30185058 CACCCTATGG
*
30185068 TTAAAACAAACAAAATTGAAACACAATTGGTATTGCGTTTAGCTGTCACATGAATTAAATTAATT
1 TTAAATCAAACAAAATTGAAACACAATTGGTATTGCGTTTAGCTGTCACATGAATTAAATTAATT
30185133 TGATAGTTAAATATT-AACGAA
66 TGATAGTTAAATATTAAACGAA
30185154 TTAAATCAAACAAAATTGAAACACAATTGGTATTGCGTTTAGCTGTCACATGAATTAAATTAATT
1 TTAAATCAAACAAAATTGAAACACAATTGGTATTGCGTTTAGCTGTCACATGAATTAAATTAATT
30185219 TGATAGTTAAATATTAAACGAA
66 TGATAGTTAAATATTAAACGAA
30185241 TTAAAT
1 TTAAAT
30185247 GTACAAGCTT
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 79 0.87
87 12 0.13
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (87 bp):
TTAAATCAAACAAAATTGAAACACAATTGGTATTGCGTTTAGCTGTCACATGAATTAAATTAATT
TGATAGTTAAATATTAAACGAA
Found at i:30197610 original size:10 final size:9
Alignment explanation
Indices: 30197594--30197638 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
30197584 TATTTAAATC
30197594 GAAAGAAAA
1 GAAAGAAAA
30197603 GAAAAGAAAA
1 G-AAAGAAAA
30197613 GAAA-AAAA
1 GAAAGAAAA
*
30197621 TAAGAGAAAA
1 GAA-AGAAAA
30197631 GAAAGAAA
1 GAAAGAAA
30197639 TAATAGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 6 0.19
9 10 0.32
10 15 0.48
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (9 bp):
GAAAGAAAA
Found at i:30197650 original size:18 final size:18
Alignment explanation
Indices: 30197607--30197641 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30197597 AGAAAAGAAA
30197607 AGAAAAGAAAAAAATAAG
1 AGAAAAGAAAAAAATAAG
*
30197625 AGAAAAGAAAGAAATAA
1 AGAAAAGAAAAAAATAA
30197642 TAGATAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
AGAAAAGAAAAAAATAAG
Found at i:30198897 original size:41 final size:41
Alignment explanation
Indices: 30198836--30199113 Score: 279
Period size: 41 Copynumber: 6.5 Consensus size: 41
30198826 TTTTGACCTT
* * *
30198836 TCGGGGCTTTAGCGACGTTTTTTCAAAAAG-GCCGCTAATGC
1 TCGGGTCTTTAGCGGCG-TTTTTGAAAAAGAGCCGCTAATGC
* * ** *
30198877 TCGGGTCTTTCGCGGTGTTTTTGAAAAATCGCAGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGC
*
30198918 TCGGGTCTTCTTAGGTCTTTAGCAGCGTTTTTGAAAAAGATCCGCTAATGC
1 TCGGGTC-T-TTA-G-C----G--GCGTTTTTGAAAAAGAGCCGCTAATGC
* *
30198969 TCGGGTCTTTAGCGGTGTTTTTGAAAAAGAGCCGCTAATTC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGC
* * *
30199010 TCGGGTCTTTAGCAGCGATTTTGAAAAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGC
* * * *
30199051 TCAGGTCTTTAGCGGCGTTTTTGAAAAGGCGCGGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGC
*
30199092 TCGTGTCTTTAGCGGCGTTTTT
1 TCGGGTCTTTAGCGGCGTTTTT
30199114 ATAAAAAACG
Statistics
Matches: 198, Mismatches: 28, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
40 10 0.05
41 146 0.74
42 1 0.01
43 3 0.02
44 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 4 0.02
50 1 0.01
51 29 0.15
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAAAAGAGCCGCTAATGC
Found at i:30202040 original size:23 final size:23
Alignment explanation
Indices: 30201991--30202717 Score: 456
Period size: 23 Copynumber: 31.8 Consensus size: 23
30201981 GTGGATTTGT
* * *
30201991 AAATTTAAGTGTTTCAA-TGTTGT
1 AAATTGAAGTGTTT-AAGTGCTGC
*
30202014 AAATTTAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
* *
30202037 AAATTGAAGTATTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGC
*
30202060 AAATTG-AGATGTTTTA-TCGCTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * * *
30202082 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
30202105 TAATTGATA-TGTTTAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* * *
30202128 AAATTTAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
30202151 AAATTGACGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
30202174 AAATTGAAGTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGC
30202197 AAATTG-AGATGCTTT-A-TCGCTG-
1 AAATTGAAG-TG-TTTAAGT-GCTGC
* * * * * *
30202219 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* *
30202242 TAATTGATA-TGTTTAAGTGATGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* * * **
30202265 AAATTTAAGTTTTTAAATGCTAT
1 AAATTGAAGTGTTTAAGTGCTGC
30202288 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
* *
30202311 AAATTGAAGTGTTTAAGTGTTGG
1 AAATTGAAGTGTTTAAGTGCTGC
* *
30202334 AAATTG-AGATGTTTTATTGCTG-
1 AAATTGAAG-TGTTTAAGTGCTGC
* * * * * *
30202356 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* *
30202379 TAATTGATA-TGTTTAACTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* * * **
30202402 AAATTTAAGTTTTTAAATGCTAT
1 AAATTGAAGTGTTTAAGTGCTGC
30202425 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
30202448 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
30202471 AAATTG-AGATGTTTTA-TCGCTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * * *
30202493 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* *
30202516 TAATTGATA-TGTTTAAGTGTTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* * *
30202539 AAATTTAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGC
30202562 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
30202585 AAATTGAAGTGTTTAAGTGCTAC
1 AAATTGAAGTGTTTAAGTGCTGC
* *
30202608 AAAGTG-AGATGTTTTA-TCGCTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * * *
30202630 TAATTGATGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* *
30202653 TAATTGATA-TGTTAAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* *
30202676 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
30202699 AAATTGAAGTGTTAAAGTG
1 AAATTGAAGTGTTTAAGTG
30202718 TTACTTTCCA
Statistics
Matches: 551, Mismatches: 114, Indels: 78
0.74 0.15 0.10
Matches are distributed among these distances:
21 2 0.00
22 88 0.16
23 456 0.83
24 5 0.01
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.41
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAGTGCTGC
Found at i:30202237 original size:137 final size:137
Alignment explanation
Indices: 30201991--30202717 Score: 1215
Period size: 137 Copynumber: 5.3 Consensus size: 137
30201981 GTGGATTTGT
* * * *
30201991 AAATTTAAGTGTTTCAATGTTGTAAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTATTT-AGTT
1 AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-T
30202055 GCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTA
65 GCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTA
30202120 AGTGCTGC
130 AGTGCTGC
*
30202128 AAATTTAAGTGTTTAAATGCTGTAAATTGACGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AGTT
1 AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-T
*
30202192 GCTGGAAATTGAGATGCTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTA
65 GCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTA
*
30202257 AGTGATGC
130 AGTGCTGC
* *
30202265 AAATTTAAGTTTTTAAATGCTATAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTG
1 AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTG
* *
30202330 TTGGAAATTGAGATGTTTTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAA
66 CTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAA
*
30202395 CTGCTGC
131 GTGCTGC
* *
30202402 AAATTTAAGTTTTTAAATGCTATAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTG
1 AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTG
*
30202467 CTGCAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAA
66 CTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAA
*
30202532 GTGTTGC
131 GTGCTGC
30202539 AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTG
1 AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTG
** * * *
30202604 CTACAAAGTGAGATGTTTTATCGCTGTAATTGATGTGTATAAATGTTGTTAATTGATATGTTAAA
66 CTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAA
30202669 GTGCTGC
131 GTGCTGC
* *
30202676 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTG
1 AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTG
30202718 TTACTTTCCA
Statistics
Matches: 560, Mismatches: 29, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
137 558 1.00
138 2 0.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.41
Consensus pattern (137 bp):
AAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTG
CTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAA
GTGCTGC
Found at i:30202394 original size:114 final size:114
Alignment explanation
Indices: 30202106--30202714 Score: 360
Period size: 114 Copynumber: 5.3 Consensus size: 114
30202096 AAATGTTGTT
*
30202106 AATTGATA-TGTTTAAGTGCTGCAAATTTA-AGTGTTTAAAT-GCTGTAAATTGACG-TGTTTAA
1 AATTGA-AGTGTTTAAGTGCTGCAAATTGAGA-TG-TTAAATCGCTGT-AATTGA-GATGTTTAA
* * * *
30202167 GTGCTGCAAATTGAAGTGTTT-AGTTGCTGGAAATTG-AGATGCTTT-A-TCGCTG-T
61 ATGCTGTAAATTGAAGTGTTTAAG-TGCTGCAAATTGAAG-TG-TTTAAGT-GCTGCA
* * * * ** * * * * * *
30202220 AATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGT-GATGCAAATTTA-AGTTTTTAAAT
1 AATTGAAGTGTTTAAGTGCTGCAAATTGAGATG-TTAAATCGCTG-TAATTGAGA-TGTTTAAAT
* * *
30202283 GCTATAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGTTGGA
63 GCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCA
* * * * * * *
30202335 AATTG-AGATGTTTTATTGCTG-TAATTGAGGTGTATAAAT-GTTGTTAATTGATATGTTTAACT
1 AATTGAAG-TGTTTAAGTGCTGCAAATTGAGATGT-TAAATCGCTG-TAATTGAGATGTTTAAAT
* * * * **
30202397 GCTGCAAATTTAAGTTTTTAAATGCTATAAATTGAAGTGTTTAAGTGCTGCA
63 GCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCA
** * * *
30202449 AATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTT
1 AATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTTAAATCGCTGTAATTGAGATGTTTAAATGCT
* * * * *
30202514 GTTAATTGATA-TGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTA
66 GTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCA
* ** * *
30202563 AATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTGTTTAAGT-GCTACAAAGTGAGATGTTT-TAT
1 AATTGAAGTGTTTAAGTGCTGCAAATTGAGA-TG-TTAAATCGCT-GTAATTGAGATGTTTAAAT
* * * * ** *
30202625 CGCTGT-AATTGATGTGTATAAATGTTGTTAATTGATA-TGTTAAAGTGCTGCA
63 -GCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTGTTTAAGTGCTGCA
* *
30202677 AATTGAAGTGTTTAAATGCTGTAAATTGA-AGTGTTAAA
1 AATTGAAGTGTTTAAGTGCTGCAAATTGAGA-TGTTAAA
30202715 GTGTTACTTT
Statistics
Matches: 386, Mismatches: 86, Indels: 47
0.74 0.17 0.09
Matches are distributed among these distances:
113 9 0.02
114 322 0.83
115 55 0.14
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (114 bp):
AATTGAAGTGTTTAAGTGCTGCAAATTGAGATGTTAAATCGCTGTAATTGAGATGTTTAAATGCT
GTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCA
Found at i:30202799 original size:23 final size:23
Alignment explanation
Indices: 30202769--30202946 Score: 148
Period size: 23 Copynumber: 7.8 Consensus size: 23
30202759 TAACTATATT
*
30202769 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAATGCTGC
* ** *
30202792 AAATTGAAGTATTTAGTTGCTGG
1 AAATTGAAGTGTTTAAATGCTGC
* *
30202815 AAATTG-AGATGTTT-TATCTCTG-
1 AAATTGAAG-TGTTTAAAT-GCTGC
* * * * *
30202837 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGC
* *
30202860 TAATTTATA-TGTTTAAATGCTGC
1 AAATTGA-AGTGTTTAAATGCTGC
* *
30202883 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGC
*
30202906 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAATGCTGC
30202929 AAATTGAAGTGTTTAAAT
1 AAATTGAAGTGTTTAAAT
30202947 TTAACTTGTT
Statistics
Matches: 121, Mismatches: 27, Indels: 14
0.75 0.17 0.09
Matches are distributed among these distances:
22 15 0.12
23 106 0.88
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGCTGC
Found at i:30202900 original size:46 final size:46
Alignment explanation
Indices: 30202768--30202946 Score: 177
Period size: 46 Copynumber: 3.9 Consensus size: 46
30202758 ATAACTATAT
* * ** *
30202768 TAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTG
1 TAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGTTG
* * * * * *
30202814 GAAATTG-AGATGTTT-TATCTCTG-TAATTGAGGTGTATAAATGTTG
1 TAAATTGAAG-TGTTTAAAT-GCTGCAAATTGAAGTGTTTAAATGTTG
* *
30202859 TTAATTTATA-TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGTTG
1 TAAATTGA-AGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGTTG
*
30202905 TAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAAT
1 TAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAAT
30202947 TTAACTTGTT
Statistics
Matches: 104, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
45 31 0.30
46 72 0.69
47 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (46 bp):
TAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGTTG
Found at i:30202927 original size:114 final size:114
Alignment explanation
Indices: 30202289--30202944 Score: 364
Period size: 114 Copynumber: 5.7 Consensus size: 114
30202279 AAATGCTATA
* * * * * *
30202289 AATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGTTGGAAATTG-AGATGTTTTATT
1 AATTGATA-TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG-TGTTTAAGT
* * * * * * * * **
30202352 GCTG-TAATTGAGGTGTATAAATGT-TGTTAATTGATATGTTTAACTGCTGCA
64 GCTGCAAATTGAGATGT-TTAATCTCTG-TAATTGAGATGTATAAATGTTGTT
* * ** *
30202403 AATTTA-AGTTTTTAAATGCTATAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTG
1 AATTGATA-TGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTG
* * *
30202467 CTGCAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
65 CTGCAAATTGAGATGTTTAATCTCTGTAATTGAGATGTATAAATGTTGTT
* * * *
30202517 AATTGATATGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGC
1 AATTGATATGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGC
* * ** *
30202582 TGCAAATTGA-AGTGTTTAAGTGCTAC--AAAGTGAGATGT-TTTATCGCTG-T
66 TGCAAATTGAGA-TGTTTAA-T-CT-CTGTAATTGAGATGTATAAAT-GTTGTT
* * * ** *
30202631 AATTGATGTGTATAAATGTTGTTAATTGATA-TG-TTAAAGTGCTGCAAATTGAAGTGTTTAAAT
1 AATTGATATGTTTAAATGCTGCAAATTGA-AGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAGT
* * * * * ** ** **** *
30202694 GCTGTAAATTGA-AGTGTTAAAGTGTTACTTTCCATTGTCACCTCCCCCAT-TTCTT
64 GCTGCAAATTGAGA-TGTTTAA-T-CT-CTGT-AATTGAGATGT-ATAAATGTTGTT
* ** * * * *
30202749 TA-TGCATA--AATAACTAT-AT-TAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTT-AG
1 AATTG-ATATGTTTAA--ATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAG
* * *
30202808 TTGCTGGAAATTGAGATGTTTTATCTCTGTAATTGAGGTGTATAAATGTTGTT
63 -TGCTGCAAATTGAGATGTTTAATCTCTGTAATTGAGATGTATAAATGTTGTT
* * *
30202861 AATTTATATGTTTAAATGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGC
1 AATTGATATGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGC
30202926 TGCAAATTGA-AGTGTTTAA
66 TGCAAATTGAGA-TGTTTAA
30202945 ATTTAACTTG
Statistics
Matches: 412, Mismatches: 98, Indels: 64
0.72 0.17 0.11
Matches are distributed among these distances:
111 2 0.00
112 15 0.04
113 12 0.03
114 276 0.67
115 34 0.08
116 50 0.12
117 15 0.04
118 6 0.01
119 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (114 bp):
AATTGATATGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGC
TGCAAATTGAGATGTTTAATCTCTGTAATTGAGATGTATAAATGTTGTT
Found at i:30203667 original size:43 final size:43
Alignment explanation
Indices: 30203619--30203797 Score: 209
Period size: 43 Copynumber: 4.2 Consensus size: 43
30203609 TTTTCGTGAC
* * * *
30203619 CTTTAGTGGCATTTTTGG-AGAAAGCGCCGCTAAAGGTCTTGTT
1 CTTTAGCGGCATTTGTGGTA-AAAGCGCCGCTAAAGCTCTTGGT
* ** * *
30203662 CTTTAGCGGCGTTT-TGGGGGAAAGTGCCGCTAAAGCTCTTGTT
1 CTTTAGCGGCATTTGT-GGTAAAAGCGCCGCTAAAGCTCTTGGT
* *
30203705 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCATTTGTGGTAAAAGCGCCGCTAAAGCTCTTGGT
* *
30203748 CTTTAGCGGAATTTGTGGTAAAAACGCCGCTAAAGCTCTTGGT
1 CTTTAGCGGCATTTGTGGTAAAAGCGCCGCTAAAGCTCTTGGT
30203791 CTTTAGC
1 CTTTAGC
30203798 TGCTAAAGGT
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.01
43 117 0.98
44 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCATTTGTGGTAAAAGCGCCGCTAAAGCTCTTGGT
Found at i:30203777 original size:86 final size:86
Alignment explanation
Indices: 30203639--30203797 Score: 230
Period size: 86 Copynumber: 1.8 Consensus size: 86
30203629 ATTTTTGGAG
* ** * ** *
30203639 AAAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTGGGGGAAAGTGCCGCTAAAGCTCTTGT
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGAATTTTGGGGAAAAACGCCGCTAAAGCTCTTGG
30203704 TCTTTAGCGGCGTTTGTGGTA
66 TCTTTAGCGGCGTTTGTGGTA
*
30203725 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGAA-TTTGTGGTAAAAACGCCGCTAAAGCTCTTG
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGAATTTTG-GGGAAAAACGCCGCTAAAGCTCTTG
30203789 GTCTTTAGC
65 GTCTTTAGC
30203798 TGCTAAAGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
85 4 0.06
86 60 0.94
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGAATTTTGGGGAAAAACGCCGCTAAAGCTCTTGG
TCTTTAGCGGCGTTTGTGGTA
Found at i:30203802 original size:23 final size:23
Alignment explanation
Indices: 30203776--30203823 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
30203766 TAAAAACGCC
30203776 GCTAAAGC-TCTTGGTCTTTAGCT
1 GCTAAAGCTTC-TGGTCTTTAGCT
*
30203799 GCTAAAGGTTCTGGTCTTTAGCT
1 GCTAAAGCTTCTGGTCTTTAGCT
30203822 GC
1 GC
30203824 GTTTGTGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.38
Consensus pattern (23 bp):
GCTAAAGCTTCTGGTCTTTAGCT
Found at i:30203846 original size:66 final size:66
Alignment explanation
Indices: 30203733--30203863 Score: 176
Period size: 66 Copynumber: 2.0 Consensus size: 66
30203723 TAAAAGCGCC
*
30203733 GCTAAAGGTCTTGGTCTTTAGCGGAATTTGTGGTAAAAACGCCGCTAAA-GCTCTTGGTCTTTAG
1 GCTAAAGGTCTTGGTCTTTAGCGGAATTTGTGGGAAAAACGCCGCTAAATG-TCTTGGTCTTTAG
30203797 CT
65 CT
* ** * *
30203799 GCTAAAGGT-TCTGGTCTTTAGCTGCGTTTGTGGGAAAAGCGCTGCTAAATGTCTTGGTCTTTAG
1 GCTAAAGGTCT-TGGTCTTTAGCGGAATTTGTGGGAAAAACGCCGCTAAATGTCTTGGTCTTTAG
30203863 C
65 C
30203864 AGCGTTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 1 0.02
66 55 0.96
67 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (66 bp):
GCTAAAGGTCTTGGTCTTTAGCGGAATTTGTGGGAAAAACGCCGCTAAATGTCTTGGTCTTTAGC
T
Found at i:30214896 original size:23 final size:24
Alignment explanation
Indices: 30214870--30214914 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
30214860 GACCCTTACC
*
30214870 CGCTTACC-GCCTTATTTCTCCTT
1 CGCTCACCTGCCTTATTTCTCCTT
*
30214893 CGCTCACCTTCCTTATTTCTCC
1 CGCTCACCTGCCTTATTTCTCC
30214915 ACATAGGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.09, C:0.42, G:0.07, T:0.42
Consensus pattern (24 bp):
CGCTCACCTGCCTTATTTCTCCTT
Found at i:30222678 original size:30 final size:30
Alignment explanation
Indices: 30222644--30222775 Score: 97
Period size: 30 Copynumber: 4.4 Consensus size: 30
30222634 CAAAAAATAT
* * * *
30222644 AAATTATATTTTAGCCCCTGAACTTTTCAA
1 AAATTACATTTTAACCCCTAAAATTTTCAA
*
30222674 AAATTACATTTTAACCCCTAAAATTTTCTA
1 AAATTACATTTTAACCCCTAAAATTTTCAA
* * * * * **
30222704 AATTTACATCTTGACCCCTAATATTCT-GT
1 AAATTACATTTTAACCCCTAAAATTTTCAA
** *
30222733 AAATTACATTCGAGA-CCCTAAAATTTCCAA
1 AAATTACATTTTA-ACCCCTAAAATTTTCAA
*
30222763 AAATTGCATTTTA
1 AAATTACATTTTA
30222776 GCCCTGTATT
Statistics
Matches: 75, Mismatches: 25, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
29 17 0.23
30 58 0.77
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.38
Consensus pattern (30 bp):
AAATTACATTTTAACCCCTAAAATTTTCAA
Found at i:30223507 original size:7 final size:7
Alignment explanation
Indices: 30223468--30223516 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
30223458 GAATGAAGGA
30223468 AAAGAA-
1 AAAGAAG
*
30223474 AAAAAAG
1 AAAGAAG
30223481 AAAGAA-
1 AAAGAAG
30223487 AAA-AAG
1 AAAGAAG
30223493 AATA-AAG
1 AA-AGAAG
30223500 AAAGAAG
1 AAAGAAG
30223507 AAAGAAG
1 AAAGAAG
30223514 AAA
1 AAA
30223517 AGGCGAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
5 2 0.05
6 11 0.30
7 24 0.65
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (7 bp):
AAAGAAG
Found at i:30223848 original size:14 final size:14
Alignment explanation
Indices: 30223826--30223868 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
30223816 TCAGCAGGCC
*
30223826 AGAA-AAAAAAAAA
1 AGAAGAAAAAAGAA
30223839 GAGAAGAAAAAAGAA
1 -AGAAGAAAAAAGAA
*
30223854 AAAAGAAAAAAGAA
1 AGAAGAAAAAAGAA
30223868 A
1 A
30223869 AAAAAAGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AGAAGAAAAAAGAA
Found at i:30223852 original size:7 final size:7
Alignment explanation
Indices: 30223842--30223871 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
30223832 AAAAAAAGAG
30223842 AAGAAAA
1 AAGAAAA
30223849 AAGAAAA
1 AAGAAAA
30223856 AAGAAAA
1 AAGAAAA
30223863 AAGAAAA
1 AAGAAAA
30223870 AA
1 AA
30223872 AAAGGGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:30223862 original size:24 final size:24
Alignment explanation
Indices: 30223826--30223875 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
30223816 TCAGCAGGCC
* *
30223826 AGAAAAAAAAAAAGAGAAGAAAAA
1 AGAAAAAAAAAAAAAGAAAAAAAA
*
30223850 AGAAAAAAGAAAAAAGAAAAAAAA
1 AGAAAAAAAAAAAAAGAAAAAAAA
30223874 AG
1 AG
30223876 GGAGAAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (24 bp):
AGAAAAAAAAAAAAAGAAAAAAAA
Found at i:30224397 original size:19 final size:20
Alignment explanation
Indices: 30224373--30224419 Score: 73
Period size: 18 Copynumber: 2.5 Consensus size: 20
30224363 TAACAAAAAA
30224373 TTCGTG-TTTCAAAAATTTT
1 TTCGTGTTTTCAAAAATTTT
30224392 TTCGTGTTTTCAAAAA--TT
1 TTCGTGTTTTCAAAAATTTT
30224410 TTCGTGTTTT
1 TTCGTGTTTT
30224420 TTCCGTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.44
19 6 0.22
20 9 0.33
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (20 bp):
TTCGTGTTTTCAAAAATTTT
Found at i:30224429 original size:29 final size:28
Alignment explanation
Indices: 30224388--30224450 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
30224378 GTTTCAAAAA
30224388 TTTTTTCGTGTTTTCAAAAATTTTCGTG
1 TTTTTTCGTGTTTTCAAAAATTTTCGTG
* ** *
30224416 TTTTTTCCGTGTTTTCACAGTTTTTTGTG
1 TTTTTT-CGTGTTTTCAAAAATTTTCGTG
30224445 TTTTTT
1 TTTTTT
30224451 TTAAAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.11, C:0.11, G:0.14, T:0.63
Consensus pattern (28 bp):
TTTTTTCGTGTTTTCAAAAATTTTCGTG
Found at i:30224487 original size:18 final size:18
Alignment explanation
Indices: 30224464--30224724 Score: 187
Period size: 17 Copynumber: 14.5 Consensus size: 18
30224454 AAATTTCCCG
*
30224464 TTTCAAAAATCCTCGTGT
1 TTTCAAAAATTCTCGTGT
** *
30224482 TTTCAAATGTTTTCGTG-
1 TTTCAAAAATTCTCGTGT
* *
30224499 TTTCAAAAATCCTCATGT
1 TTTCAAAAATTCTCGTGT
*
30224517 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTCTCGTGT
*
30224534 TTTCAAAAA-TCTCTATGT
1 TTTCAAAAATTCTC-GTGT
*
30224552 TTTC-AAAATTCTAGT-T
1 TTTCAAAAATTCTCGTGT
* * *
30224568 TTTCAGAAATTTTCTTGT
1 TTTCAAAAATTCTCGTGT
*
30224586 TTTCAAAAAATTTCCCGTGT
1 TTTC-AAAAA-TTCTCGTGT
*
30224606 TTTCAAAAATTCTCGT-A
1 TTTCAAAAATTCTCGTGT
* *
30224623 TTTCAAAAATTTTCTTGT
1 TTTCAAAAATTCTCGTGT
*
30224641 TTTCAGAAAAAAATTTTCGTGT
1 TTTC----AAAAATTCTCGTGT
* *
30224663 TTT-ATAAATTTTCGTGT
1 TTTCAAAAATTCTCGTGT
* *
30224680 TTTCAAAAAATTCCCGT-C
1 TTTC-AAAAATTCTCGTGT
* *
30224698 TCTCAAAAATTTTCGTGT
1 TTTCAAAAATTCTCGTGT
30224716 TTTCAAAAA
1 TTTCAAAAA
30224725 AATTGATCGT
Statistics
Matches: 191, Mismatches: 36, Indels: 32
0.74 0.14 0.12
Matches are distributed among these distances:
16 9 0.05
17 76 0.40
18 62 0.32
19 18 0.09
20 10 0.05
22 16 0.08
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.45
Consensus pattern (18 bp):
TTTCAAAAATTCTCGTGT
Found at i:30224504 original size:35 final size:35
Alignment explanation
Indices: 30224463--30224642 Score: 136
Period size: 35 Copynumber: 5.1 Consensus size: 35
30224453 AAAATTTCCC
* ** * *
30224463 GTTTCAAAAATCCTCGTGTTTTCAAATGTTTTCGT
1 GTTTCAAAAATCCTCATGTTTTCAAAAATTCTCAT
30224498 GTTTCAAAAATCCTCATGTTTTCAAAAATTCTCAT
1 GTTTCAAAAATCCTCATGTTTTCAAAAATTCTCAT
30224533 GTTTCAAAAAT-CTCTATGTTTTC-AAAATTCT-AGT
1 GTTTCAAAAATCCTC-ATGTTTTCAAAAATTCTCA-T
* * ** * * *
30224567 TTTTCAGAAATTTTCTTGTTTTCAAAAAATTTCCCGT
1 GTTTCAAAAATCCTCATGTTTTC-AAAAA-TTCTCAT
* * *
30224604 GTTTTCAAAAATTCTC--GTATTTCAAAAATTTTCTT
1 G-TTTCAAAAATCCTCATGT-TTTCAAAAATTCTCAT
30224639 GTTT
1 GTTT
30224643 TCAGAAAAAA
Statistics
Matches: 119, Mismatches: 17, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
33 1 0.01
34 31 0.26
35 56 0.47
36 11 0.09
37 8 0.07
38 12 0.10
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (35 bp):
GTTTCAAAAATCCTCATGTTTTCAAAAATTCTCAT
Found at i:30224517 original size:17 final size:18
Alignment explanation
Indices: 30224464--30224559 Score: 99
Period size: 18 Copynumber: 5.4 Consensus size: 18
30224454 AAATTTCCCG
*
30224464 TTTCAAAAATCCTCGTGT
1 TTTCAAAAATCCTCATGT
** ** *
30224482 TTTCAAATGTTTTCGTG-
1 TTTCAAAAATCCTCATGT
30224499 TTTCAAAAATCCTCATGT
1 TTTCAAAAATCCTCATGT
*
30224517 TTTCAAAAATTCTCATG-
1 TTTCAAAAATCCTCATGT
30224534 TTTCAAAAAT-CTCTATGT
1 TTTCAAAAATCCTC-ATGT
30224552 TTTCAAAA
1 TTTCAAAA
30224560 TTCTAGTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
16 3 0.05
17 25 0.38
18 37 0.57
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (18 bp):
TTTCAAAAATCCTCATGT
Found at i:30224560 original size:17 final size:17
Alignment explanation
Indices: 30224499--30224633 Score: 100
Period size: 18 Copynumber: 7.6 Consensus size: 17
30224489 TGTTTTCGTG
*
30224499 TTTCAAAAATCCTCATGT
1 TTTCAAAAATTCT-ATGT
30224517 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTCT-ATGT
30224534 TTTCAAAAATCTCTATGT
1 TTTCAAAAAT-TCTATGT
30224552 TTTC-AAAATTCTA-GTT
1 TTTCAAAAATTCTATG-T
*
30224568 TTTCAGAAATTTTCT-TGT
1 TTTCA-AAA-ATTCTATGT
**
30224586 TTTCAAAAAATTTCCCGTGT
1 TTTC-AAAAA-TT-CTATGT
*
30224606 TTTCAAAAATTCT-CGT
1 TTTCAAAAATTCTATGT
30224622 ATTTCAAAAATT
1 -TTTCAAAAATT
30224634 TTCTTGTTTT
Statistics
Matches: 99, Mismatches: 6, Indels: 25
0.76 0.05 0.19
Matches are distributed among these distances:
15 1 0.01
16 11 0.11
17 30 0.30
18 38 0.38
19 12 0.12
20 7 0.07
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (17 bp):
TTTCAAAAATTCTATGT
Found at i:30224587 original size:19 final size:19
Alignment explanation
Indices: 30224560--30224643 Score: 75
Period size: 18 Copynumber: 4.5 Consensus size: 19
30224550 GTTTTCAAAA
* *
30224560 TTCTAGTTTTTCAGAAATT
1 TTCTCGTTTTTCAAAAATT
* *
30224579 TTCTTG-TTTTCAAAAAAT
1 TTCTCGTTTTTCAAAAATT
*
30224597 TTCCCGTGTTTTCAAAAA--
1 TTCTCGT-TTTTCAAAAATT
*
30224615 TTCTCGTATTTCAAAAATT
1 TTCTCGTTTTTCAAAAATT
*
30224634 TTCTTGTTTT
1 TTCTCGTTTT
30224644 CAGAAAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
17 9 0.17
18 20 0.38
19 13 0.25
20 10 0.19
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (19 bp):
TTCTCGTTTTTCAAAAATT
Found at i:30224631 original size:36 final size:36
Alignment explanation
Indices: 30224464--30224725 Score: 150
Period size: 36 Copynumber: 7.3 Consensus size: 36
30224454 AAATTTCCCG
* * **
30224464 TTTC-AAAAATCCTCGTGTTTTCAAATGTTTTCGTG-
1 TTTCAAAAAATTCTCGT-ATTTCAAAAATTTTCGTGT
* * *
30224499 TTTC-AAAAATCCTCATGT-TTTCAAAAATTCTCATG-
1 TTTCAAAAAATTCTC--GTATTTCAAAAATTTTCGTGT
* * *
30224534 TTTC-AAAAATCTCTATGT-TTTC-AAAATTCTAGT-T
1 TTTCAAAAAAT-TCT-CGTATTTCAAAAATTTTCGTGT
** * *
30224568 TTTCAGAAATTTTCTTGT-TTTCAAAAAATTTCCCGTGT
1 TTTCA-AAAAATTCTCGTATTTC-AAAAATTT-TCGTGT
*
30224606 TTTC-AAAAATTCTCGTATTTCAAAAATTTTCTTGT
1 TTTCAAAAAATTCTCGTATTTCAAAAATTTTCGTGT
* * * *
30224641 TTTCAGAAAAAAATTTTCGTGTTTTATAAATTTTCGTGT
1 TTTC---AAAAAATTCTCGTATTTCAAAAATTTTCGTGT
* * *
30224680 TTTCAAAAAATTCCCGTCTCTCAAAAATTTTCGTGT
1 TTTCAAAAAATTCTCGTATTTCAAAAATTTTCGTGT
30224716 TTTCAAAAAA
1 TTTCAAAAAA
30224726 ATTGATCGTG
Statistics
Matches: 182, Mismatches: 29, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
34 20 0.11
35 54 0.30
36 65 0.36
37 8 0.04
38 5 0.03
39 30 0.16
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.45
Consensus pattern (36 bp):
TTTCAAAAAATTCTCGTATTTCAAAAATTTTCGTGT
Found at i:30224831 original size:23 final size:22
Alignment explanation
Indices: 30224787--30224829 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30224777 GTAATTTATC
*
30224787 AAAATTTGTGTGTTTTCAAAAT
1 AAAATTTGTGTGTTTTAAAAAT
30224809 AAAATTTCGTGT-TTTTAAAAA
1 AAAATTT-GTGTGTTTTAAAAA
30224830 ATTTTCGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
AAAATTTGTGTGTTTTAAAAAT
Found at i:30224832 original size:18 final size:19
Alignment explanation
Indices: 30224809--30224847 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
30224799 TTTTCAAAAT
*
30224809 AAAA-TTTCGTGTTTTTAA
1 AAAATTTTCGTGTTTCTAA
30224827 AAAATTTTCGTGTTTCTAA
1 AAAATTTTCGTGTTTCTAA
30224846 AA
1 AA
30224848 TTTTGTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (19 bp):
AAAATTTTCGTGTTTCTAA
Found at i:30231570 original size:15 final size:15
Alignment explanation
Indices: 30231546--30231575 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30231536 TGGAAATTAG
*
30231546 AGATCGAGTGGCTGA
1 AGATCAAGTGGCTGA
30231561 AGATCAAGTGGCTGA
1 AGATCAAGTGGCTGA
30231576 TCACTTGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.37, T:0.20
Consensus pattern (15 bp):
AGATCAAGTGGCTGA
Found at i:30234858 original size:14 final size:14
Alignment explanation
Indices: 30234841--30234867 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30234831 TGCAAATCTA
30234841 TCGAAAATAATCAC
1 TCGAAAATAATCAC
30234855 TCGAAAATAATCA
1 TCGAAAATAATCA
30234868 AAATTAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (14 bp):
TCGAAAATAATCAC
Found at i:30234910 original size:22 final size:22
Alignment explanation
Indices: 30234867--30234910 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
30234857 GAAAATAATC
**
30234867 AAAATTAATCAAAATTTGACAT
1 AAAATTAATCAAAATTCAACAT
* *
30234889 AAAATTTATTAAAATTCAACAT
1 AAAATTAATCAAAATTCAACAT
30234911 GTTCATAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAATTAATCAAAATTCAACAT
Found at i:30235609 original size:11 final size:12
Alignment explanation
Indices: 30235593--30235627 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
30235583 GTACATATGC
30235593 TCTCTTTTTT-T
1 TCTCTTTTTTCT
30235604 TCTCTTTTTTCT
1 TCTCTTTTTTCT
30235616 TCT-TTTTTTCT
1 TCTCTTTTTTCT
30235627 T
1 T
30235628 TGTATTTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TCTCTTTTTTCT
Found at i:30237830 original size:19 final size:19
Alignment explanation
Indices: 30237808--30237845 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30237798 AACCAAATTA
30237808 AAATTTAGGAGAAAATTTT
1 AAATTTAGGAGAAAATTTT
30237827 AAATTTAGGAGAAAATTTT
1 AAATTTAGGAGAAAATTTT
30237846 GTCTTACCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (19 bp):
AAATTTAGGAGAAAATTTT
Found at i:30238402 original size:16 final size:15
Alignment explanation
Indices: 30238383--30238413 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
30238373 AATATAATGC
30238383 ATAAATATATATTATA
1 ATAAATATA-ATTATA
30238399 ATAAATATAATTATA
1 ATAAATATAATTATA
30238414 TATTATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATATAATTATA
Found at i:30238528 original size:29 final size:29
Alignment explanation
Indices: 30238473--30238530 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
30238463 GCCTTTTGAA
* * *
30238473 AATATTTATAAAAAGAGACATCTAATTTT
1 AATATTTACAAAAAGAGACACCAAATTTT
30238502 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
30238531 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAGAGACACCAAATTTT
Found at i:30250162 original size:3 final size:3
Alignment explanation
Indices: 30250154--30250182 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30250144 CTCTGTAGGA
30250154 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
30250183 AAGATCCTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:30254488 original size:12 final size:12
Alignment explanation
Indices: 30254471--30254495 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30254461 GTACGAGATT
30254471 TGTTTCTTCGCA
1 TGTTTCTTCGCA
30254483 TGTTTCTTCGCA
1 TGTTTCTTCGCA
30254495 T
1 T
30254496 CGACTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.16, T:0.52
Consensus pattern (12 bp):
TGTTTCTTCGCA
Found at i:30266731 original size:12 final size:13
Alignment explanation
Indices: 30266714--30266742 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
30266704 GTCATACACG
30266714 AATAAATAAA-GC
1 AATAAATAAATGC
30266726 AATAAATAAATGC
1 AATAAATAAATGC
30266739 AATA
1 AATA
30266743 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:30281287 original size:80 final size:80
Alignment explanation
Indices: 30281154--30281314 Score: 295
Period size: 80 Copynumber: 2.0 Consensus size: 80
30281144 TACAACTGCA
*
30281154 ACCATTGTAGATATTTGTCTATGATATTTTCCTGAAATTCAATAGATTGATTCATAATGCTATAT
1 ACCATTGTAGATATTTGTCTATGATATTTTCCTGAAATTCAATAGATGGATTCATAATGCTATAT
30281219 CAGAGTCTATGACTT
66 CAGAGTCTATGACTT
* *
30281234 ACCATTGTAGATATTTGTCTATGTTTTTTTCCTGAAATTCAATAGATGGATTCATAATGCTATAT
1 ACCATTGTAGATATTTGTCTATGATATTTTCCTGAAATTCAATAGATGGATTCATAATGCTATAT
30281299 CAGAGTCTATGACTT
66 CAGAGTCTATGACTT
30281314 A
1 A
30281315 TTCAAACCTG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (80 bp):
ACCATTGTAGATATTTGTCTATGATATTTTCCTGAAATTCAATAGATGGATTCATAATGCTATAT
CAGAGTCTATGACTT
Found at i:30287588 original size:34 final size:34
Alignment explanation
Indices: 30287550--30287618 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
30287540 AAATGATTGT
30287550 TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
1 TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
* *
30287584 TTCTTGTATGAATGTTTGTGTGATTTTATTGTTA
1 TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
30287618 T
1 T
30287619 AGACTCACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.19, C:0.04, G:0.20, T:0.57
Consensus pattern (34 bp):
TTCTTGTATGAATGTTTGTGTGATTATACTGTTA
Found at i:30288795 original size:184 final size:185
Alignment explanation
Indices: 30288485--30288817 Score: 632
Period size: 184 Copynumber: 1.8 Consensus size: 185
30288475 AAATGATATT
*
30288485 CTACAAAGAAAAACAAGTCCAAGACTCTGATGTCGGTTGCCATAAAAAAACTAATGTTAAATTAT
1 CTACAAAGAAAAACAAGTCCAAGACTCCGATGTCGGTTGCCATAAAAAAACTAATGTTAAATTAT
30288550 AGGTAAACATCATAGATGTATAACTATAGACATAAAACAAAAATATCTAGTATTTAATTTTCTTC
66 AGGTAAACATCATAGATGTATAACTATAGACATAAAACAAAAATATCTAGTATTTAATTTTCTTC
30288615 GAAACTGTAAGATAGGAAATTGAAAACTATATATCAAACTTAATATCGTAGGATA
131 GAAACTGTAAGATAGGAAATTGAAAACTATATATCAAACTTAATATCGTAGGATA
*
30288670 CTACAAAGAAAAACAAGTTCAAGACTCCGATGTCGGTTGCCAT-AAAAAACTAATGTTAAATTAT
1 CTACAAAGAAAAACAAGTCCAAGACTCCGATGTCGGTTGCCATAAAAAAACTAATGTTAAATTAT
*
30288734 AGGTAAACATCATAGATGTATAACTGTAGACATAAAACAAAAATATCTAGTATTTAATTTTCTTC
66 AGGTAAACATCATAGATGTATAACTATAGACATAAAACAAAAATATCTAGTATTTAATTTTCTTC
30288799 GAAACTGTAAGATAGGAAA
131 GAAACTGTAAGATAGGAAA
30288818 CTGTAAGATA
Statistics
Matches: 145, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
184 104 0.72
185 41 0.28
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (185 bp):
CTACAAAGAAAAACAAGTCCAAGACTCCGATGTCGGTTGCCATAAAAAAACTAATGTTAAATTAT
AGGTAAACATCATAGATGTATAACTATAGACATAAAACAAAAATATCTAGTATTTAATTTTCTTC
GAAACTGTAAGATAGGAAATTGAAAACTATATATCAAACTTAATATCGTAGGATA
Found at i:30288819 original size:15 final size:15
Alignment explanation
Indices: 30288799--30288835 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
30288789 AATTTTCTTC
30288799 GAAACTGTAAGATAG
1 GAAACTGTAAGATAG
30288814 GAAACTGTAAGATAG
1 GAAACTGTAAGATAG
30288829 GAAACTG
1 GAAACTG
30288836 AAAACTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.27, T:0.19
Consensus pattern (15 bp):
GAAACTGTAAGATAG
Found at i:30296130 original size:12 final size:12
Alignment explanation
Indices: 30296113--30296150 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
30296103 TCTCACACGC
*
30296113 CCGTGTGCCAGG
1 CCGTGTGCTAGG
30296125 CCGTGTGCTAGG
1 CCGTGTGCTAGG
30296137 CCGTGTGCTAGG
1 CCGTGTGCTAGG
30296149 CC
1 CC
30296151 ATGTAATTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.08, C:0.32, G:0.39, T:0.21
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:30301726 original size:21 final size:21
Alignment explanation
Indices: 30301666--30301726 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 21
30301656 TTCGGGTGTA
*
30301666 ATTTACAAATAATTTAAAGATCC
1 ATTTA-AAAT-ATTTAAAAATCC
* **
30301689 ATTAAAAATATAGAAAAATACC
1 ATTTAAAATATTTAAAAAT-CC
30301711 -TTTAAAATATTTAAAA
1 ATTTAAAATATTTAAAA
30301727 TTCCCCTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 20 0.67
22 6 0.20
23 4 0.13
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (21 bp):
ATTTAAAATATTTAAAAATCC
Found at i:30305408 original size:12 final size:13
Alignment explanation
Indices: 30305384--30305412 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
30305374 GGACTATAAC
30305384 TATTGCATTTATT
1 TATTGCATTTATT
30305397 TATTGC-TTTATT
1 TATTGCATTTATT
30305409 TATT
1 TATT
30305413 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:30315271 original size:41 final size:41
Alignment explanation
Indices: 30315226--30315431 Score: 270
Period size: 41 Copynumber: 5.0 Consensus size: 41
30315216 AAGTACATCT
* *
30315226 AGGGGTATCGAAGTACAAACAGGGGCACGTTTGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
* * * *
30315267 AGGGGTACCGAAGAACGAACAGGGACACGTATGAGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
** *
30315308 AATGGTACCGAAGTACAAACAGGTGCACGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
* *** *
30315349 AAGGGTAGTAAAGTACAAACAGGGGCACGTATGTGCAATTT
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
30315390 AGGGGTACCGAAGTAC-AACTAGGGGCACGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAAC-AGGGGCACGTATGTGCAATTC
30315431 A
1 A
30315432 TCATTATTCA
Statistics
Matches: 140, Mismatches: 24, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
40 3 0.02
41 137 0.98
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.19
Consensus pattern (41 bp):
AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTC
Found at i:30318297 original size:434 final size:434
Alignment explanation
Indices: 30317489--30318356 Score: 1682
Period size: 434 Copynumber: 2.0 Consensus size: 434
30317479 TTCTACCCTT
30317489 TCTCACTAAAATTCAAATATCTCATAATATAAAACTCGTTTACTTGTTTTGTCTCTTTTATGTGA
1 TCTCACTAAAATTCAAATATCTCATAATATAAAACTCGTTTACTTGTTTTGTCTCTTTTATGTGA
30317554 AAATAGACTCATTCATCTTTAATTTCATATCTTATTCACTCTCTAATTCAATTTCCACCATTTTT
66 AAATAGACTCATTCATCTTTAATTTCATATCTTATTCACTCTCTAATTCAATTTCCACCATTTTT
30317619 GGTGATTTTTCAAATTCACACGACTGCTGCTGTCCAAAACTGTTTTGTTGCTAAATTTACTCTTT
131 GGTGATTTTTCAAATTCACACGACTGCTGCTGTCCAAAACTGTTTTGTTGCTAAATTTACTCTTT
*
30317684 CATAATTTCACTTACTCCATTGCATCTTACCGATGGTTTGATCAAATATCGAGCACATTGTTCAT
196 CATAATTTCACTTACTCCATTGCATCTTACCGATGGTTTGATCAAATATCGAACACATTGTTCAT
* *
30317749 AAATTTTCACACTTATACCTACACTCATTCATCACATAGTCATATTCAATTACACTTAGTCGTTA
261 AAATTTTCACACTTATACCTACACTCATTAATCACATAGTCATATTCAATTACACTTAGACGTTA
30317814 CATGATCTCATGTATTTTCACTTAGTCAATTTCTCGATGAACACTTCGGAATAATAACAGATACA
326 CATGATCTCATGTATTTTCACTTAGTCAATTTCTCGATGAACACTTCGGAATAATAACAGATACA
*
30317879 CGGTGGATCAGCACATAGCACCACCCTAATATTCAATGATACTC
391 CGGTGGATCAGCACATAGCACCACCCTAATAGTCAATGATACTC
30317923 TCTCACTAAAATTCAAATATCTCATAATATAAAACTCGTTTACTTGTTTTGTCTCTTTTATGTGA
1 TCTCACTAAAATTCAAATATCTCATAATATAAAACTCGTTTACTTGTTTTGTCTCTTTTATGTGA
30317988 AAATAGACTCATTCATCTTTAATTTCATATCTTATTCACTCTCTAATTCAATTTCCACCATTTTT
66 AAATAGACTCATTCATCTTTAATTTCATATCTTATTCACTCTCTAATTCAATTTCCACCATTTTT
30318053 GGTGATTTTTCAAATTCACACGACTGCTGCTGTCCAAAACTGTTTTGTTGCTAAATTTACTCTTT
131 GGTGATTTTTCAAATTCACACGACTGCTGCTGTCCAAAACTGTTTTGTTGCTAAATTTACTCTTT
30318118 CATAATTTCACTTACTCCATTGCATCTTACCGATGGTTTGATCAAATATCGAACACATTGTTCAT
196 CATAATTTCACTTACTCCATTGCATCTTACCGATGGTTTGATCAAATATCGAACACATTGTTCAT
*
30318183 AAATTTTCACACTTATACCTGCACTCATTAATCACATAGTCATATTCAATTACACTTAGACGTTA
261 AAATTTTCACACTTATACCTACACTCATTAATCACATAGTCATATTCAATTACACTTAGACGTTA
30318248 CATGATCTCATGTATTTTCACTTAGTCAATTTCTCGATGAACACTTCGGAATAATAACAGATACA
326 CATGATCTCATGTATTTTCACTTAGTCAATTTCTCGATGAACACTTCGGAATAATAACAGATACA
*
30318313 CGGTGGATCAGCACATAGCACCACCCTTATAGTCAATGATACTC
391 CGGTGGATCAGCACATAGCACCACCCTAATAGTCAATGATACTC
30318357 GGTGGAATCA
Statistics
Matches: 428, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
434 428 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (434 bp):
TCTCACTAAAATTCAAATATCTCATAATATAAAACTCGTTTACTTGTTTTGTCTCTTTTATGTGA
AAATAGACTCATTCATCTTTAATTTCATATCTTATTCACTCTCTAATTCAATTTCCACCATTTTT
GGTGATTTTTCAAATTCACACGACTGCTGCTGTCCAAAACTGTTTTGTTGCTAAATTTACTCTTT
CATAATTTCACTTACTCCATTGCATCTTACCGATGGTTTGATCAAATATCGAACACATTGTTCAT
AAATTTTCACACTTATACCTACACTCATTAATCACATAGTCATATTCAATTACACTTAGACGTTA
CATGATCTCATGTATTTTCACTTAGTCAATTTCTCGATGAACACTTCGGAATAATAACAGATACA
CGGTGGATCAGCACATAGCACCACCCTAATAGTCAATGATACTC
Found at i:30318374 original size:44 final size:46
Alignment explanation
Indices: 30318307--30318426 Score: 151
Period size: 45 Copynumber: 2.7 Consensus size: 46
30318297 AATAATAACA
*
30318307 GATACACGGTGG-ATCAGCACATAGC-ACCACCCTT-ATAGTCAAT
1 GATACACGGTGGAATCAGCACATAGCAACCACCCTTCATAATCAAT
*
30318350 GATACTCGGTGGAATCAGCACATAGCAACCA-CCTTCATAATCAAT
1 GATACACGGTGGAATCAGCACATAGCAACCACCCTTCATAATCAAT
* * *
30318395 -AGTACCCGATGGAATCAGCACACAGCAACCAC
1 GA-TACACGGTGGAATCAGCACATAGCAACCAC
30318427 ACAGCAACCA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
43 11 0.16
44 18 0.27
45 38 0.57
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.18
Consensus pattern (46 bp):
GATACACGGTGGAATCAGCACATAGCAACCACCCTTCATAATCAAT
Found at i:30318429 original size:11 final size:11
Alignment explanation
Indices: 30318413--30318437 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30318403 ATGGAATCAG
30318413 CACACAGCAAC
1 CACACAGCAAC
30318424 CACACAGCAAC
1 CACACAGCAAC
30318435 CAC
1 CAC
30318438 CTTTATAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.48, G:0.08, T:0.00
Consensus pattern (11 bp):
CACACAGCAAC
Found at i:30318438 original size:56 final size:56
Alignment explanation
Indices: 30318368--30318483 Score: 180
Period size: 56 Copynumber: 2.1 Consensus size: 56
30318358 GTGGAATCAG
* *
30318368 CACATAGCAACCACCTTCATAATCAAT-AGTACCCGATGGAATCAGCACACAGCAAC
1 CACACAGCAACCACCTTCATAATCAATGA-TACCCGATGGAATCAACACACAGCAAC
* *
30318424 CACACAGCAACCACCTTTATAATCAATGATACCCGGTGGAATCAACACACAGCAAC
1 CACACAGCAACCACCTTCATAATCAATGATACCCGATGGAATCAACACACAGCAAC
30318480 CACA
1 CACA
30318484 TTTATAATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 54 0.98
57 1 0.02
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.16
Consensus pattern (56 bp):
CACACAGCAACCACCTTCATAATCAATGATACCCGATGGAATCAACACACAGCAAC
Found at i:30330082 original size:15 final size:15
Alignment explanation
Indices: 30330062--30330101 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
30330052 AAATTTCAAG
*
30330062 ATTTTTTTCATAAAT
1 ATTTTTTTCAAAAAT
30330077 ATTTTTTT-AAAAAT
1 ATTTTTTTCAAAAAT
*
30330091 AATTTTTTCAA
1 ATTTTTTTCAA
30330102 TAATGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTTTCAAAAAT
Found at i:30336102 original size:22 final size:22
Alignment explanation
Indices: 30336060--30336103 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30336050 ACAGAGATTT
*
30336060 GATCAAATTAGTTTCTCTATTG
1 GATCAAATTAGTTTCTATATTG
* *
30336082 GATCAATTTAGTTTTTATATTG
1 GATCAAATTAGTTTCTATATTG
30336104 TTGAAAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (22 bp):
GATCAAATTAGTTTCTATATTG
Found at i:30339640 original size:670 final size:670
Alignment explanation
Indices: 30338360--30339700 Score: 2619
Period size: 670 Copynumber: 2.0 Consensus size: 670
30338350 TATGTTTTGG
*
30338360 GACCAAAATGGGAAAACTTGCCTTTTGGAGCTTAACAGTTAAATTTGAGCTTGTGCATGAGGTGA
1 GACCAAAATGGGAAAACTTGCCTTTTGGAGCTTAACAGTTAAATTTGAGCTTGTGCAAGAGGTGA
30338425 CTAAAGCAAAAACCTGAAAAAATCTTCTTGTTGTCTTTTAGGTGGCGACACTAGACTCTTGGTGT
66 CTAAAGCAAAAACCTGAAAAAATCTTCTTGTTGTCTTTTAGGTGGCGACACTAGACTCTTGGTGT
30338490 CGTGGCAACAAAGCTTTTTGTCACCTTGGCAACTTGAAATTTCAACAATGAGACATTGAAGGTAA
131 CGTGGCAACAAAGCTTTTTGTCACCTTGGCAACTTGAAATTTCAACAATGAGACATTGAAGGTAA
30338555 ACTGGTGACAGAGACGCGACATTAAATGGTGGGAGTCATGACATCGACCTTCATGGTTGCGACAT
196 ACTGGTGACAGAGACGCGACATTAAATGGTGGGAGTCATGACATCGACCTTCATGGTTGCGACAT
30338620 TAAGATCGTAAGGTCGTGACATTTAGGGCAATCACCATGGTTAAGGAATCCTAGCCATCTAAGGG
261 TAAGATCGTAAGGTCGTGACATTTAGGGCAATCACCATGGTTAAGGAATCCTAGCCATCTAAGGG
*
30338685 GCCAGAGTTGCGACATCGAATCTGCTAAACATACCTAGGAGTAAGTTGTTGGCAAGGTCGTGACA
326 GCCAGAGTTGCGACATCGAATCTGCTAAACATACCTAGGAGTAAGTTGTTGGCAAGGTCGCGACA
*
30338750 CCAATGCCTGAGTTTCGTGACATCGAGGCTCAATGAGGTAATTGATGCAAGGGAATTTCTCAGCC
391 CCAATGCCTGAATTTCGTGACATCGAGGCTCAATGAGGTAATTGATGCAAGGGAATTTCTCAGCC
30338815 AAAACAAGCCAAACCAATTGTTAAGTAGGGGCAATTTTGTCCATTTTAGGTTAAGCTTGTTAAAA
456 AAAACAAGCCAAACCAATTGTTAAGTAGGGGCAATTTTGTCCATTTTAGGTTAAGCTTGTTAAAA
30338880 CTATATAAGTTAGGGGTGAGCGTTCGATTGAATCGAGTGAAAAAATTTCAAGTTATTCGAGTTGA
521 CTATATAAGTTAGGGGTGAGCGTTCGATTGAATCGAGTGAAAAAATTTCAAGTTATTCGAGTTGA
*
30338945 CGAGTCCTACTTTATCATCCTAACTCGATTTCAAATTTTTTCGAATCGATTCGAGTGAAATGAAA
586 CGAGTCCTACTTTATCATCCTAACTCAATTTCAAATTTTTTCGAATCGATTCGAGTGAAATGAAA
30339010 TTCGAGTTGAGTCGGATCGA
651 TTCGAGTTGAGTCGGATCGA
30339030 GACCAAAATGGGAAAACTTGCCTTTTGGAGCTTAACAGTTAAATTTGAGCTTGTGCAAGAGGTGA
1 GACCAAAATGGGAAAACTTGCCTTTTGGAGCTTAACAGTTAAATTTGAGCTTGTGCAAGAGGTGA
30339095 CTAAAGCAAAAACCTGAAAAAATCTTCTTGTTGTCTTTTAGGTGGCGACACTAGACTCTTGGTGT
66 CTAAAGCAAAAACCTGAAAAAATCTTCTTGTTGTCTTTTAGGTGGCGACACTAGACTCTTGGTGT
*
30339160 TGTGGCAACAAAGCTTTTTGTCACCTTGGCAACTTGAAATTTCAACAATGAGACATTGAAGGTAA
131 CGTGGCAACAAAGCTTTTTGTCACCTTGGCAACTTGAAATTTCAACAATGAGACATTGAAGGTAA
30339225 ACTGGTGACAGAGACGCGACATTAAATGGTGGGAGTCATGACATCGACCTTCATGGTTGCGACAT
196 ACTGGTGACAGAGACGCGACATTAAATGGTGGGAGTCATGACATCGACCTTCATGGTTGCGACAT
30339290 TAAGATCGTAAGGTCGTGACATTTAGGGCAATCACCATGGTTAAGGAATCCTAGCCATCTAAGGG
261 TAAGATCGTAAGGTCGTGACATTTAGGGCAATCACCATGGTTAAGGAATCCTAGCCATCTAAGGG
30339355 GCCAGAGTTGCGACATCGAATCTGCTAAACATACCTAGGAGTAAGTTGTTGGCAAGGTCGCGACA
326 GCCAGAGTTGCGACATCGAATCTGCTAAACATACCTAGGAGTAAGTTGTTGGCAAGGTCGCGACA
*
30339420 CCAATGCCTGAATTTCGTGACATCGAGGCTCAATGAGGTAATTGATGCAAGGGCATTTCTCAGCC
391 CCAATGCCTGAATTTCGTGACATCGAGGCTCAATGAGGTAATTGATGCAAGGGAATTTCTCAGCC
30339485 AAAACAAGCCAAACCAATTGTTAAGTAGGGGCAATTTTGTCCATTTTAGGTTAAGCTTGTTAAAA
456 AAAACAAGCCAAACCAATTGTTAAGTAGGGGCAATTTTGTCCATTTTAGGTTAAGCTTGTTAAAA
30339550 CTATATAAGTTAGGGGTGAGCGTTCGATTGAATCGAGTGAAAAAATTTCAAGTTATTCGAGTTGA
521 CTATATAAGTTAGGGGTGAGCGTTCGATTGAATCGAGTGAAAAAATTTCAAGTTATTCGAGTTGA
30339615 CGAGTCCTACTTTATCATCCTAACTCAATTTCAAATTTTTTCGAATCGATTCGAGTGAAATGAAA
586 CGAGTCCTACTTTATCATCCTAACTCAATTTCAAATTTTTTCGAATCGATTCGAGTGAAATGAAA
*
30339680 TTCTAGTTGAGTCGGATCGA
651 TTCGAGTTGAGTCGGATCGA
30339700 G
1 G
30339701 TGAAATTGTT
Statistics
Matches: 664, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
670 664 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (670 bp):
GACCAAAATGGGAAAACTTGCCTTTTGGAGCTTAACAGTTAAATTTGAGCTTGTGCAAGAGGTGA
CTAAAGCAAAAACCTGAAAAAATCTTCTTGTTGTCTTTTAGGTGGCGACACTAGACTCTTGGTGT
CGTGGCAACAAAGCTTTTTGTCACCTTGGCAACTTGAAATTTCAACAATGAGACATTGAAGGTAA
ACTGGTGACAGAGACGCGACATTAAATGGTGGGAGTCATGACATCGACCTTCATGGTTGCGACAT
TAAGATCGTAAGGTCGTGACATTTAGGGCAATCACCATGGTTAAGGAATCCTAGCCATCTAAGGG
GCCAGAGTTGCGACATCGAATCTGCTAAACATACCTAGGAGTAAGTTGTTGGCAAGGTCGCGACA
CCAATGCCTGAATTTCGTGACATCGAGGCTCAATGAGGTAATTGATGCAAGGGAATTTCTCAGCC
AAAACAAGCCAAACCAATTGTTAAGTAGGGGCAATTTTGTCCATTTTAGGTTAAGCTTGTTAAAA
CTATATAAGTTAGGGGTGAGCGTTCGATTGAATCGAGTGAAAAAATTTCAAGTTATTCGAGTTGA
CGAGTCCTACTTTATCATCCTAACTCAATTTCAAATTTTTTCGAATCGATTCGAGTGAAATGAAA
TTCGAGTTGAGTCGGATCGA
Found at i:30340009 original size:20 final size:20
Alignment explanation
Indices: 30339984--30340044 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
30339974 ATAAATCCTA
30339984 AAATTTTTATAAA-TATTTTG
1 AAATTTTTA-AAACTATTTTG
* *
30340004 AAA-TTTAAAAATTATTTTG
1 AAATTTTTAAAACTATTTTG
*
30340023 AATTTTTTAAAACTATTTTG
1 AAATTTTTAAAACTATTTTG
30340043 AA
1 AA
30340045 TTATTTTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 3 0.09
19 13 0.37
20 19 0.54
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (20 bp):
AAATTTTTAAAACTATTTTG
Found at i:30340045 original size:20 final size:19
Alignment explanation
Indices: 30339987--30340051 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
30339977 AATCCTAAAA
30339987 TTTTTATAAATATTTTGAA-
1 TTTTTA-AAATATTTTGAAT
* *
30340006 ATTTAAAAATTATTTTGAAT
1 TTTTTAAAA-TATTTTGAAT
30340026 TTTTTAAAACTATTTTGAAT
1 TTTTTAAAA-TATTTTGAAT
30340046 TATTTT
1 T-TTTT
30340052 GTAATTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 3 0.08
19 13 0.34
20 18 0.47
21 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTTAAAATATTTTGAAT
Found at i:30346180 original size:13 final size:13
Alignment explanation
Indices: 30346162--30346196 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
30346152 CTTCTGAAAT
30346162 AATTTTTTCAGAG
1 AATTTTTTCAGAG
30346175 AATTTTTTCAGAG
1 AATTTTTTCAGAG
30346188 AATTTTTTC
1 AATTTTTTC
30346197 TCTACAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (13 bp):
AATTTTTTCAGAG
Found at i:30349680 original size:50 final size:49
Alignment explanation
Indices: 30349622--30349807 Score: 214
Period size: 51 Copynumber: 3.7 Consensus size: 49
30349612 AAAGTGAAAG
*
30349622 TGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAA
* *
30349671 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCCG-A
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGAA
* * * * *
30349720 TAGTTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAA
1 T-G-ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
* *
30349771 TGGTAATGGTCACATGTGTAGTACTATGTGCAAGCTA
1 TGAT-A-GGTCACATGTGTAGTACTATGTGCAGGCTA
30349808 TTATGTGAAC
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 7 0.06
50 41 0.36
51 67 0.58
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
Found at i:30349745 original size:101 final size:102
Alignment explanation
Indices: 30349628--30349812 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
30349618 AAAGTGATGG
30349628 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
*
30349691 ACTATGTGCAGGCTACTATGCGTACCCGATAGTTTCGA
65 ACTATGTGCAAGCTACTATGCGTACCCGATAGTTTCGA
* *
30349729 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
*
30349794 CTATGTGCAAGCTATTATG
66 CTATGTGCAAGCTACTATG
30349813 TGAACTGAAC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 6 0.08
101 39 0.50
102 33 0.42
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAAGCTACTATGCGTACCCGATAGTTTCGA
Found at i:30349872 original size:45 final size:45
Alignment explanation
Indices: 30349821--30349909 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
30349811 TGTGAACTGA
* * * *
30349821 ACATCATTGATTAGTTAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
30349866 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCG
30349910 AGTATCTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
Found at i:30349994 original size:23 final size:20
Alignment explanation
Indices: 30349944--30349997 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
30349934 TTCATCGGAA
30349944 AATTGAATA-AGTGTAATTG
1 AATTGAATATAGTGTAATTG
30349963 AATAATGAATATAGGTGTGGAATTG
1 AAT--TGAATATA-GTGT--AATTG
30349988 AATTGAATAT
1 AATTGAATAT
30349998 CGACATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.10
21 6 0.21
22 1 0.03
23 11 0.38
25 8 0.28
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (20 bp):
AATTGAATATAGTGTAATTG
Found at i:30354644 original size:18 final size:18
Alignment explanation
Indices: 30354623--30354659 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
30354613 ATCACGATTC
30354623 ACTATTATACTA-TAATTA
1 ACTATTA-ACTATTAATTA
30354641 ACTATTAACTATTAATTA
1 ACTATTAACTATTAATTA
30354659 A
1 A
30354660 ATATATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
ACTATTAACTATTAATTA
Found at i:30357221 original size:15 final size:15
Alignment explanation
Indices: 30357201--30357230 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30357191 CACCCTAGTC
30357201 ACAGATACAGAAATA
1 ACAGATACAGAAATA
*
30357216 ACAGATACAGTAATA
1 ACAGATACAGAAATA
30357231 TCATGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (15 bp):
ACAGATACAGAAATA
Found at i:30362528 original size:46 final size:46
Alignment explanation
Indices: 30362478--30362640 Score: 177
Period size: 46 Copynumber: 3.5 Consensus size: 46
30362468 TCAAGTTCGT
* * *
30362478 AACATATGTAGGAGCACGAAACCTAAACCTGTATTCTCGAGTCCAC
1 AACATATGTAGGAGCTCGAAACCTATACCTGTATTCTTGAGTCCAC
* * **
30362524 AACATATGTAGGATCTCGAAACCTATTCCTGTATTCTTGAGTCTGC
1 AACATATGTAGGAGCTCGAAACCTATACCTGTATTCTTGAGTCCAC
** *
30362570 AACATATCCAGGAGCTCTG-AACCTATTA-TTGTATTCTTGAGTCCAC
1 AACATATGTAGGAGCTC-GAAACCTA-TACCTGTATTCTTGAGTCCAC
* **
30362616 AACATATGCAAAAGCTCGAAACCTA
1 AACATATGTAGGAGCTCGAAACCTA
30362641 GGCAAAACTC
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
45 1 0.01
46 94 0.97
47 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (46 bp):
AACATATGTAGGAGCTCGAAACCTATACCTGTATTCTTGAGTCCAC
Found at i:30365721 original size:25 final size:25
Alignment explanation
Indices: 30365675--30365731 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
30365665 CAGCTCATGT
* * *
30365675 GAGCAATTATAGTTACAACTTGTGC
1 GAGCATTTACAGTCACAACTTGTGC
* *
30365700 GAGCATTTACAGTCACAGCTTGTGT
1 GAGCATTTACAGTCACAACTTGTGC
30365725 GAGCATT
1 GAGCATT
30365732 GTTCCCAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCATTTACAGTCACAACTTGTGC
Found at i:30365894 original size:40 final size:39
Alignment explanation
Indices: 30365820--30365967 Score: 145
Period size: 40 Copynumber: 3.7 Consensus size: 39
30365810 TATGTGAAAA
** * *
30365820 AATAGATATATGAAATGGTTATAT-AGATCGATTATATGG
1 AATAGATATACAAAATGATTATATGA-ATCAATTATATGG
* *
30365859 AACTAGTTATACAAAATTATTATATGAATCAATTATATGG
1 AA-TAGATATACAAAATGATTATATGAATCAATTATATGG
* * * * *
30365899 AAATAGATATACGAAATGGTTATATTAATCAGTTGTATGG
1 -AATAGATATACAAAATGATTATATGAATCAATTATATGG
*
30365939 TAATAGATATACAGAATGATTATATGAAT
1 -AATAGATATACAAAATGATTATATGAAT
30365968 TAGTTAAACG
Statistics
Matches: 88, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 83 0.94
41 3 0.03
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (39 bp):
AATAGATATACAAAATGATTATATGAATCAATTATATGG
Found at i:30365938 original size:80 final size:80
Alignment explanation
Indices: 30365819--30365996 Score: 218
Period size: 80 Copynumber: 2.2 Consensus size: 80
30365809 TTATGTGAAA
* *
30365819 AAATAGATATATGAAATGGTTATATAGATCGATTATATGG-AACTAGTTATACAAAATTATTATA
1 AAATAGATATATGAAATGGTTATATAGATCGATTATATGGTAA-TAGATATACAAAATGATTATA
* *
30365883 TGAATCAATTATATGG
65 TGAATCAATTAAACGG
* * *
30365899 AAATAGATATACGAAATGGTTATATTA-ATC-AGTTGTATGGTAATAGATATACAGAATGATTAT
1 AAATAGATATATGAAATGGTTATA-TAGATCGA-TTATATGGTAATAGATATACAAAATGATTAT
* *
30365962 ATGAATTAGTTAAACGG
64 ATGAATCAATTAAACGG
*
30365979 AAATAGTTATATGAAATG
1 AAATAGATATATGAAATG
30365997 TTTAAACGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 1 0.01
80 79 0.94
81 4 0.05
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (80 bp):
AAATAGATATATGAAATGGTTATATAGATCGATTATATGGTAATAGATATACAAAATGATTATAT
GAATCAATTAAACGG
Found at i:30365984 original size:40 final size:40
Alignment explanation
Indices: 30365851--30365989 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
30365841 TATAGATCGA
* * * * *
30365851 TTATATGGAACTAGTTATACAAAATTATTATATGAATCAA
1 TTATATGGAAATAGATATACAGAATGATTATATGAATCAG
* *
30365891 TTATATGGAAATAGATATAC-GAAATGGTTATATTAATCAG
1 TTATATGGAAATAGATATACAG-AATGATTATATGAATCAG
* * *
30365931 TTGTATGGTAATAGATATACAGAATGATTATATGAATTAG
1 TTATATGGAAATAGATATACAGAATGATTATATGAATCAG
* * *
30365971 TTAAACGGAAATAGTTATA
1 TTATATGGAAATAGATATA
30365990 TGAAATGTTT
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
40 79 0.99
41 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (40 bp):
TTATATGGAAATAGATATACAGAATGATTATATGAATCAG
Found at i:30366001 original size:27 final size:26
Alignment explanation
Indices: 30365958--30366008 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
30365948 TACAGAATGA
*
30365958 TTATATGAATTAGTTAAACGGAAATAG
1 TTATATGAAATAGTTAAAC-GAAATAG
30365985 TTATATGAAAT-GTTTAAACGAAAT
1 TTATATGAAATAG-TTAAACGAAAT
30366009 GTTTTTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (26 bp):
TTATATGAAATAGTTAAACGAAATAG
Found at i:30366634 original size:14 final size:14
Alignment explanation
Indices: 30366612--30366645 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30366602 TTTTATATGC
*
30366612 ATTTTGAATGGTTG
1 ATTTGGAATGGTTG
30366626 ATTTGGAATGGTTG
1 ATTTGGAATGGTTG
*
30366640 ACTTGG
1 ATTTGG
30366646 TACAAATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.44
Consensus pattern (14 bp):
ATTTGGAATGGTTG
Found at i:30373029 original size:21 final size:21
Alignment explanation
Indices: 30373003--30373048 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
30372993 CTCAAAATCA
*
30373003 TCTTACTGAGGAACCCTTTTC
1 TCTTACTGAGGAACCCTTCTC
30373024 TCTTACTGAGGAACCCTTCTC
1 TCTTACTGAGGAACCCTTCTC
30373045 TCTT
1 TCTT
30373049 TGGTCTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.39
Consensus pattern (21 bp):
TCTTACTGAGGAACCCTTCTC
Found at i:30380116 original size:21 final size:21
Alignment explanation
Indices: 30380086--30380138 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
30380076 AAGCGAAAAT
30380086 GCCC-TCGATGTCGCGACACG
1 GCCCTTCGATGTCGCGACACG
30380106 GCCCTTCGATGTCGCGACACG
1 GCCCTTCGATGTCGCGACACG
30380127 GCCCTTCGATGT
1 GCCCTTCGATGT
30380139 TACAACACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
GCCCTTCGATGTCGCGACACG
Found at i:30380146 original size:21 final size:21
Alignment explanation
Indices: 30380086--30380146 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
30380076 AAGCGAAAAT
* *
30380086 GCCC-TCGATGTCGCGACACG
1 GCCCTTCGATGTCACAACACG
* *
30380106 GCCCTTCGATGTCGCGACACG
1 GCCCTTCGATGTCACAACACG
*
30380127 GCCCTTCGATGTTACAACAC
1 GCCCTTCGATGTCACAACAC
30380147 TGCAGGCCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.18, C:0.38, G:0.25, T:0.20
Consensus pattern (21 bp):
GCCCTTCGATGTCACAACACG
Found at i:30383827 original size:31 final size:31
Alignment explanation
Indices: 30383751--30383825 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
30383741 GTTATTGTTA
*
30383751 TTGTTTAGGGTTTATTAAATAGGGTTTTAGG
1 TTGTTTAGGTTTTATTAAATAGGGTTTTAGG
* *
30383782 TTTTTTAGGATTTTATT-ATTAGGGTTTTAGG
1 TTGTTTAGG-TTTTATTAAATAGGGTTTTAGG
30383813 TTGTTTAGGTTTT
1 TTGTTTAGGTTTT
30383826 TAGGGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 4 0.10
31 29 0.74
32 6 0.15
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (31 bp):
TTGTTTAGGTTTTATTAAATAGGGTTTTAGG
Found at i:30383838 original size:8 final size:8
Alignment explanation
Indices: 30383770--30383857 Score: 69
Period size: 8 Copynumber: 11.2 Consensus size: 8
30383760 GTTTATTAAA
30383770 TAGGGTTT
1 TAGGGTTT
*
30383778 TAGGTTTTT
1 TAGG-GTTT
*
30383787 TAGGATTT
1 TAGGGTTT
30383795 TA---TTAT
1 TAGGGTT-T
30383801 TAGGGTTT
1 TAGGGTTT
*
30383809 TAGGTTGTT
1 TAGGGT-TT
*
30383818 TAGGTTTT
1 TAGGGTTT
30383826 TAGGGTTT
1 TAGGGTTT
30383834 TAGGG--T
1 TAGGGTTT
*
30383840 TAGAGTTT
1 TAGGGTTT
30383848 TAGGGTTT
1 TAGGGTTT
30383856 TA
1 TA
30383858 AAACGATAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.03
6 8 0.12
8 39 0.59
9 17 0.26
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (8 bp):
TAGGGTTT
Found at i:30383847 original size:14 final size:14
Alignment explanation
Indices: 30383825--30383854 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30383815 GTTTAGGTTT
*
30383825 TTAGGGTTTTAGGG
1 TTAGAGTTTTAGGG
30383839 TTAGAGTTTTAGGG
1 TTAGAGTTTTAGGG
30383853 TT
1 TT
30383855 TTAAAACGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
TTAGAGTTTTAGGG
Found at i:30383848 original size:39 final size:40
Alignment explanation
Indices: 30383776--30383851 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 40
30383766 TAAATAGGGT
** *
30383776 TTTAGGTTTTTTAGGATTTTATTATTAGGGTTTTAGGTTG
1 TTTAGGTTTTTTAGGATTTTAGGATTAGAGTTTTAGGTTG
* *
30383816 TTTAGG-TTTTTAGGGTTTTAGGGTTAGAGTTTTAGG
1 TTTAGGTTTTTTAGGATTTTAGGATTAGAGTTTTAGG
30383852 GTTTTAAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 25 0.81
40 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (40 bp):
TTTAGGTTTTTTAGGATTTTAGGATTAGAGTTTTAGGTTG
Found at i:30385797 original size:22 final size:22
Alignment explanation
Indices: 30385771--30385815 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30385761 ATTATATGTA
30385771 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
30385793 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
30385815 T
1 T
30385816 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:30388077 original size:17 final size:17
Alignment explanation
Indices: 30388055--30388108 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
30388045 AATCGCGACA
30388055 AATATTCTTTGGTTTGT
1 AATATTCTTTGGTTTGT
30388072 AATATTTCATTT--TTT-T
1 AATA-TTC-TTTGGTTTGT
*
30388088 ATATATTCTTTGGTATGT
1 A-ATATTCTTTGGTTTGT
30388106 AAT
1 AAT
30388109 CTTCATTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
15 3 0.10
16 5 0.17
17 14 0.47
18 5 0.17
19 3 0.10
ACGTcount: A:0.24, C:0.06, G:0.11, T:0.59
Consensus pattern (17 bp):
AATATTCTTTGGTTTGT
Found at i:30389048 original size:33 final size:32
Alignment explanation
Indices: 30389011--30389100 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 32
30389001 CCGCGGGTTC
* *
30389011 TGTGAAATGATAACAAATATCAACTTTTCATTT
1 TGTGAAATGATAA-AAATATCAACTGTTAATTT
* *
30389044 TGTGAAATTATAAAAAAATACAA-TGTTAATTT
1 TGTGAAATGATAAAAATAT-CAACTGTTAATTT
*
30389076 TGTAAAATGATAATAAATATCAACT
1 TGTGAAATGATAA-AAATATCAACT
30389101 AGCAAATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 26 0.55
33 21 0.45
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.37
Consensus pattern (32 bp):
TGTGAAATGATAAAAATATCAACTGTTAATTT
Found at i:30391382 original size:18 final size:17
Alignment explanation
Indices: 30391342--30391382 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
30391332 AAAATATAAT
*
30391342 AAAAATAGAATTTAGAT
1 AAAAATAGAATTTAGAA
*
30391359 AGAAATAGAATTTTAGAA
1 AAAAATAGAA-TTTAGAA
30391377 AAAAAT
1 AAAAAT
30391383 TAAGAGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (17 bp):
AAAAATAGAATTTAGAA
Found at i:30400614 original size:59 final size:59
Alignment explanation
Indices: 30400522--30400639 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
30400512 CTTACATAGC
30400522 TTGAAACACGCTTACAAACTTGTCTTATCAGAAGGGTTGAGGAACATAAGATATGTTCT
1 TTGAAACACGCTTACAAACTTGTCTTATCAGAAGGGTTGAGGAACATAAGATATGTTCT
30400581 TTGAAACACGCTTACAAACTTGTCTTATCAGAAGGGTTGAGGAACATAAGATATGTTCT
1 TTGAAACACGCTTACAAACTTGTCTTATCAGAAGGGTTGAGGAACATAAGATATGTTCT
30400640 CGCCTACACT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (59 bp):
TTGAAACACGCTTACAAACTTGTCTTATCAGAAGGGTTGAGGAACATAAGATATGTTCT
Found at i:30404102 original size:20 final size:19
Alignment explanation
Indices: 30404052--30404106 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
30404042 ATTTTCCAAC
*
30404052 TTAGTTTAATTAATAGTTAAA
1 TTAG-TTAATTAA-ACTTAAA
*
30404073 TTAGTATAATTAAACTTTAA
1 TTAGT-TAATTAAACTTAAA
30404093 TTAAGTTAATTAAA
1 TT-AGTTAATTAAA
30404107 TAAGATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (19 bp):
TTAGTTAATTAAACTTAAA
Found at i:30415265 original size:10 final size:11
Alignment explanation
Indices: 30415250--30415311 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 11
30415240 CTGTACAAGG
30415250 TTAATA-ATAA
1 TTAATATATAA
30415260 TTAATATATAA
1 TTAATATATAA
*
30415271 TATAAAATATAA
1 T-TAATATATAA
*
30415283 --AATATAAAA
1 TTAATATATAA
*
30415292 TATAAAATAT-A
1 T-TAATATATAA
30415303 TTAATATAT
1 TTAATATAT
30415312 TATTTTTCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
9 7 0.17
10 13 0.32
11 7 0.17
12 14 0.34
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TTAATATATAA
Found at i:30415271 original size:7 final size:7
Alignment explanation
Indices: 30415262--30415302 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
30415252 AATAATAATT
*
30415262 AATATAT
1 AATATAA
30415269 AATATAA
1 AATATAA
30415276 AATATAA
1 AATATAA
30415283 AATATAA
1 AATATAA
30415290 AATATAA
1 AATATAA
30415297 AATATA
1 AATATA
30415303 TTAATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATATAA
Found at i:30415279 original size:21 final size:21
Alignment explanation
Indices: 30415255--30415311 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
30415245 CAAGGTTAAT
30415255 AATAATTAATATATAATATAA
1 AATAATTAATATATAATATAA
* *
30415276 AAT-ATAAAATATAAAATATAA
1 AATAAT-TAATATATAATATAA
30415297 AATATATTAATATAT
1 AATA-ATTAATATAT
30415312 TATTTTTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.07
21 19 0.66
22 6 0.21
23 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAATTAATATATAATATAA
Found at i:30425946 original size:24 final size:24
Alignment explanation
Indices: 30425918--30425966 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
30425908 AACCCACCAA
30425918 TTTTACACTTGTTTTAA-CCTATTT
1 TTTTACACTTGTTTTAAGCC-ATTT
30425942 TTTTACACTTGTTTTAAGCCATTT
1 TTTTACACTTGTTTTAAGCCATTT
30425966 T
1 T
30425967 AACATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.57
Consensus pattern (24 bp):
TTTTACACTTGTTTTAAGCCATTT
Found at i:30428556 original size:18 final size:18
Alignment explanation
Indices: 30428521--30428557 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30428511 ACAATATGCC
*
30428521 AAACTATTTTTATACTTG
1 AAACTATTTTGATACTTG
*
30428539 AAACTATTTTGATGCTTG
1 AAACTATTTTGATACTTG
30428557 A
1 A
30428558 CCACCTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (18 bp):
AAACTATTTTGATACTTG
Found at i:30433639 original size:21 final size:22
Alignment explanation
Indices: 30433598--30433640 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
30433588 TTCGGATCTA
30433598 TTCTGACTGATGCTCTCTTTTG
1 TTCTGACTGATGCTCTCTTTTG
30433620 TTCTG-CTCGATGCT-TCTTTTG
1 TTCTGACT-GATGCTCTCTTTTG
30433641 CTAAAGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.07, C:0.23, G:0.19, T:0.51
Consensus pattern (22 bp):
TTCTGACTGATGCTCTCTTTTG
Found at i:30450520 original size:10 final size:10
Alignment explanation
Indices: 30450505--30450531 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
30450495 TTAGAGGTCT
30450505 TGTTTTCAAG
1 TGTTTTCAAG
30450515 TGTTTTCAAG
1 TGTTTTCAAG
30450525 TGTTTTC
1 TGTTTTC
30450532 CTCATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.11, G:0.19, T:0.56
Consensus pattern (10 bp):
TGTTTTCAAG
Found at i:30450822 original size:22 final size:22
Alignment explanation
Indices: 30450796--30450837 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30450786 TTCTGACTAG
* *
30450796 GGTATCGCAATATCCTTACCTA
1 GGTATCCCAATATCCCTACCTA
*
30450818 GGTATCCCGATATCCCTACC
1 GGTATCCCAATATCCCTACC
30450838 GTGTGGGGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (22 bp):
GGTATCCCAATATCCCTACCTA
Found at i:30454820 original size:10 final size:11
Alignment explanation
Indices: 30454800--30454872 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
30454790 GATTCAATTG
30454800 AACTAAATAAT
1 AACTAAATAAT
30454811 AACT-AATAAT
1 AACTAAATAAT
30454821 -A--AAA-AAT
1 AACTAAATAAT
*
30454828 -TCTAAATAGACT
1 AACTAAATA-A-T
*
30454840 AAATATAAATAAT
1 AACTA-AA-TAAT
30454853 AACTAAATAAT
1 AACTAAATAAT
30454864 AACTAAATA
1 AACTAAATA
30454873 GAAATAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
7 3 0.06
8 2 0.04
9 4 0.08
10 7 0.14
11 18 0.37
12 3 0.06
13 7 0.14
14 3 0.06
15 2 0.04
ACGTcount: A:0.63, C:0.08, G:0.01, T:0.27
Consensus pattern (11 bp):
AACTAAATAAT
Found at i:30454864 original size:3 final size:3
Alignment explanation
Indices: 30454847--30454957 Score: 65
Period size: 3 Copynumber: 36.3 Consensus size: 3
30454837 ACTAAATATA
30454847 AAT AAT AACT AAAT AAT AACT AAAT AGA- AAT AAT AAT -AT ATAT AAT
1 AAT AAT AA-T -AAT AAT AA-T -AAT A-AT AAT AAT AAT AAT A-AT AAT
* *
30454893 AAT -AT TAT AAG AAT AAT -AT AAT AAT AGAT AAT -AT AAT AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT
*
30454937 -AG AAT AAT AA- AAT AAAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT A
30454958 TAGAAATATA
Statistics
Matches: 87, Mismatches: 5, Indels: 32
0.70 0.04 0.26
Matches are distributed among these distances:
2 12 0.14
3 55 0.63
4 16 0.18
5 4 0.05
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:30454891 original size:12 final size:12
Alignment explanation
Indices: 30454876--30454959 Score: 75
Period size: 12 Copynumber: 6.9 Consensus size: 12
30454866 CTAAATAGAA
30454876 ATAATAATATAT
1 ATAATAATATAT
30454888 ATAATAATAT-T
1 ATAATAATATAT
*
30454899 ATAAGAATA-AT
1 ATAATAATATAT
30454910 ATAATAATAGATAAT
1 ATAATAAT--AT-AT
*
30454925 ATAATAATAGAT
1 ATAATAATATAT
* *
30454937 AGAATAATA-AA
1 ATAATAATATAT
30454948 ATAAATAATATA
1 AT-AATAATATA
30454960 GAAATATAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
11 19 0.32
12 27 0.46
13 3 0.05
15 10 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:30454907 original size:11 final size:11
Alignment explanation
Indices: 30454876--30454918 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
30454866 CTAAATAGAA
30454876 ATAATAATATAT
1 ATAATAATAT-T
30454888 ATAATAATATT
1 ATAATAATATT
* *
30454899 ATAAGAATAAT
1 ATAATAATATT
30454910 ATAATAATA
1 ATAATAATA
30454919 GATAATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
ATAATAATATT
Found at i:30454907 original size:29 final size:29
Alignment explanation
Indices: 30454878--30454931 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
30454868 AAATAGAAAT
*
30454878 AATAATAT-AT-ATA-ATAATATTATAAG
1 AATAATATAATAATAGATAATATAATAAG
30454904 AATAATATAATAATAGATAATATAATAA
1 AATAATATAATAATAGATAATATAATAA
30454932 TAGATAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 2 0.08
28 3 0.12
29 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (29 bp):
AATAATATAATAATAGATAATATAATAAG
Found at i:30454927 original size:15 final size:14
Alignment explanation
Indices: 30454847--30454957 Score: 94
Period size: 15 Copynumber: 8.1 Consensus size: 14
30454837 ACTAAATATA
30454847 AATAATAACTA-AAT
1 AATAATAA-TATAAT
30454861 AATAACTAA-ATAGA-
1 AATAA-TAATATA-AT
30454875 AATAATAATAT-AT
1 AATAATAATATAAT
*
30454888 -ATAATAATATTAT
1 AATAATAATATAAT
*
30454901 AAGAATAATATAAT
1 AATAATAATATAAT
30454915 AATAGATAATATAAT
1 AATA-ATAATATAAT
30454930 AATAGATAGA-ATAAT
1 AATA-ATA-ATATAAT
30454945 AA-AATAA-ATAAT
1 AATAATAATATAAT
30454957 A
1 A
30454958 TAGAAATATA
Statistics
Matches: 85, Mismatches: 3, Indels: 20
0.79 0.03 0.19
Matches are distributed among these distances:
12 18 0.21
13 9 0.11
14 28 0.33
15 29 0.34
16 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (14 bp):
AATAATAATATAAT
Found at i:30454956 original size:32 final size:37
Alignment explanation
Indices: 30454875--30454959 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
30454865 ACTAAATAGA
*
30454875 AATAAT-AATATATATAATAATATTATAAGAATAATAT
1 AATAATAAATA-ATATAATAATATGATAAGAATAATAT
*
30454912 AATAATAGATAATATAATAATA-GAT-AGAAT-A-AT
1 AATAATAAATAATATAATAATATGATAAGAATAATAT
30454945 AA-AATAAATAATATA
1 AATAATAAATAATATA
30454960 GAAATATAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 12 0.27
33 4 0.09
34 1 0.02
35 5 0.11
36 2 0.05
37 17 0.39
38 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (37 bp):
AATAATAAATAATATAATAATATGATAAGAATAATAT
Found at i:30455000 original size:14 final size:14
Alignment explanation
Indices: 30454981--30455021 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
30454971 TTATAAATCG
30454981 AAATATATTAATAT
1 AAATATATTAATAT
*
30454995 AAATATAATAATAT
1 AAATATATTAATAT
30455009 AAATATTATTAAT
1 AAATA-TATTAAT
30455022 TACTTAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATATTAATAT
Found at i:30459823 original size:18 final size:18
Alignment explanation
Indices: 30459783--30459825 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30459773 ACCGCCCTGC
*
30459783 CATAGTCGCGACTCTTTT
1 CATAGTCGCGACTCTTGT
* *
30459801 TATAGTCGCGACTGTTGT
1 CATAGTCGCGACTCTTGT
30459819 CATAGTC
1 CATAGTC
30459826 AACAAGGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (18 bp):
CATAGTCGCGACTCTTGT
Found at i:30468715 original size:26 final size:27
Alignment explanation
Indices: 30468685--30468745 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
30468675 AAATTTCTCG
30468685 AAATTTTACCAAGG-GTAAAATCATCA
1 AAATTTTACCAAGGAGTAAAATCATCA
*** *
30468711 AAATTTTA-TTGGGAGTAAAATCGTCA
1 AAATTTTACCAAGGAGTAAAATCATCA
30468737 AAATTTTAC
1 AAATTTTAC
30468746 TGAAGTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (27 bp):
AAATTTTACCAAGGAGTAAAATCATCA
Found at i:30479321 original size:66 final size:65
Alignment explanation
Indices: 30479224--30479357 Score: 164
Period size: 66 Copynumber: 2.0 Consensus size: 65
30479214 ACAAATTGCT
** * **
30479224 CAACTTAAAGTGGAGGTAGCATCGAGAGAAGCAGAGGC-TCAAGGAAAATATGATGAACTCCAGC
1 CAACTTAAAGCAGAGGTAGCATCGAGAGAAGCAAAGGCAT-AA-GAAAATATGACAAACTCCAGC
30479288 TA
64 TA
*
30479290 CAACTTAAAGCAGAGGTAGCAGT-GAGGGAAGCAAAGGCAATAAGAAAATATGACAAACTCCAGC
1 CAACTTAAAGCAGAGGTAGCA-TCGAGAGAAGCAAAGGC-ATAAGAAAATATGACAAACTCCAGC
30479354 TA
64 TA
30479356 CA
1 CA
30479358 GCTTCAGAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
66 55 0.93
67 3 0.05
68 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (65 bp):
CAACTTAAAGCAGAGGTAGCATCGAGAGAAGCAAAGGCATAAGAAAATATGACAAACTCCAGCTA
Found at i:30479745 original size:43 final size:42
Alignment explanation
Indices: 30479625--30479808 Score: 179
Period size: 43 Copynumber: 4.3 Consensus size: 42
30479615 TCTGCTAAAG
* * * * *
30479625 TTAGTGGCGTTTTCCCACAAATGCAGCTAAAGAACATAACCT
1 TTAGCGGCGTTTTCCCACAAACGCCGCTAAAGAACATGATCT
* * * * * * **
30479667 TTAGTGGCGTTTTTACTAAAAATGTCATTAAAGAACATGATCT
1 TTAGCGGCG-TTTTCCCACAAACGCCGCTAAAGAACATGATCT
*
30479710 TTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACATGATCT
1 TTAGCGGCG-TTTTCCCACAAACGCCGCTAAAGAACATGATCT
** *
30479753 TTAGCGGCGTTCTTCCCACAAACTTCGCTAAAGAACATGACCT
1 TTAGCGGCGTT-TTCCCACAAACGCCGCTAAAGAACATGATCT
*
30479796 TTAGCAGCGTTTT
1 TTAGCGGCGTTTT
30479809 TTTATGAGAA
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
42 13 0.11
43 103 0.89
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
TTAGCGGCGTTTTCCCACAAACGCCGCTAAAGAACATGATCT
Found at i:30479785 original size:86 final size:85
Alignment explanation
Indices: 30479625--30479808 Score: 208
Period size: 86 Copynumber: 2.2 Consensus size: 85
30479615 TCTGCTAAAG
* * * * *
30479625 TTAGTGGCGTTTTCCCACAAATGCAGCTAAAGAACATAACCTTTAGTGGCGTTTTTACTAAAAAT
1 TTAGCGGCGTTTTCCCACAAACGCAGCTAAAGAACATAACCTTTAGCGGCGTTCTTACCAAAAAT
* *
30479690 GTCATTAAAGAACATGATCT
66 GTCACTAAAGAACATGACCT
* * * * *
30479710 TTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACATGATCTTTAGCGGCGTTCTTCCCACAAA
1 TTAGCGGCG-TTTTCCCACAAACGCAGCTAAAGAACATAACCTTTAGCGGCGTTCTTACCA-AAA
* *
30479775 CT-TCGCTAAAGAACATGACCT
64 ATGTCACTAAAGAACATGACCT
*
30479796 TTAGCAGCGTTTT
1 TTAGCGGCGTTTT
30479809 TTTATGAGAA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
85 12 0.15
86 66 0.80
87 4 0.05
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (85 bp):
TTAGCGGCGTTTTCCCACAAACGCAGCTAAAGAACATAACCTTTAGCGGCGTTCTTACCAAAAAT
GTCACTAAAGAACATGACCT
Found at i:30482363 original size:35 final size:35
Alignment explanation
Indices: 30482317--30482390 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
30482307 GTGTTTTTAA
30482317 GTTGTAACATCTGATATACGAGTTTGGTAATTCAG
1 GTTGTAACATCTGATATACGAGTTTGGTAATTCAG
*
30482352 GTTGTAACATCTGATATACGGGTTTGGTAATTCAG
1 GTTGTAACATCTGATATACGAGTTTGGTAATTCAG
30482387 GTTG
1 GTTG
30482391 GGTAAAAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.38
Consensus pattern (35 bp):
GTTGTAACATCTGATATACGAGTTTGGTAATTCAG
Found at i:30484235 original size:19 final size:19
Alignment explanation
Indices: 30484194--30484236 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
30484184 ATTGAACTTG
* *
30484194 AAAATTGGACCTGAAATCG
1 AAAATTGAACCTGAAATCC
30484213 AAAATTGAACCTGAGAA-CC
1 AAAATTGAACCTGA-AATCC
30484232 AAAAT
1 AAAAT
30484237 CCGAGACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (19 bp):
AAAATTGAACCTGAAATCC
Found at i:30484643 original size:31 final size:31
Alignment explanation
Indices: 30484595--30484670 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
30484585 TAATATGAGA
* * *
30484595 TATTAAATTAAATATTTATTTAGATAGTATTT
1 TATT-AATTTAATATTTATCTAGATAATATTT
*
30484627 TCTTAATTTAATATTTATCTAGATAATATTT
1 TATTAATTTAATATTTATCTAGATAATATTT
30484658 TATTAATTTAATA
1 TATTAATTTAATA
30484671 CTAATGTGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 36 0.92
32 3 0.08
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (31 bp):
TATTAATTTAATATTTATCTAGATAATATTT
Found at i:30484669 original size:16 final size:16
Alignment explanation
Indices: 30484622--30484670 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
30484612 ATTTAGATAG
*
30484622 TATTTTCTTAATTTAA
1 TATTTTATTAATTTAA
30484638 TA-TTTATCTAGA--TAA
1 TATTTTAT-TA-ATTTAA
30484653 TATTTTATTAATTTAA
1 TATTTTATTAATTTAA
30484669 TA
1 TA
30484671 CTAATGTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
14 1 0.04
15 11 0.41
16 14 0.52
17 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTTTATTAATTTAA
Found at i:30493217 original size:9 final size:9
Alignment explanation
Indices: 30493205--30493280 Score: 80
Period size: 9 Copynumber: 8.4 Consensus size: 9
30493195 TTCACTTGGT
*
30493205 TCATCACCG
1 TCATCATCG
*
30493214 TCATCATCA
1 TCATCATCG
30493223 TCATCATCG
1 TCATCATCG
* *
30493232 TCACCATCC
1 TCATCATCG
*
30493241 TCATCATCA
1 TCATCATCG
*
30493250 TCATCATCA
1 TCATCATCG
*
30493259 TCATCATCA
1 TCATCATCG
*
30493268 TCATCATCA
1 TCATCATCG
30493277 TCAT
1 TCAT
30493281 TGGATACATC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.29, C:0.37, G:0.03, T:0.32
Consensus pattern (9 bp):
TCATCATCG
Found at i:30493222 original size:3 final size:3
Alignment explanation
Indices: 30493214--30493280 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
30493204 TTCATCACCG
* * *
30493214 TCA TCA TCA TCA TCA TCG TCA CCA TCC TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
30493262 TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA T
30493281 TGGATACATC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.30, C:0.36, G:0.01, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:30494736 original size:39 final size:39
Alignment explanation
Indices: 30494681--30494764 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
30494671 ATCCGTAACC
30494681 AATGT-TAAAAAAAATGAATATAGAATATAGTCAAGGAG
1 AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
30494719 AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
1 AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
30494758 AATGTGT
1 AATGTGT
30494765 CTGAACAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 5 0.11
39 40 0.89
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGTGTAAAAAAAATGAATATAGAATATAGTCAAGGAG
Found at i:30499935 original size:2 final size:2
Alignment explanation
Indices: 30499928--30499953 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30499918 TTAACAGAAT
30499928 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
30499954 TTGCTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:30500021 original size:194 final size:190
Alignment explanation
Indices: 30499696--30500094 Score: 579
Period size: 194 Copynumber: 2.1 Consensus size: 190
30499686 TAAATCTACA
* * * *
30499696 GAACACCAAAATCTTCGAAAAACGAATAGAAAATTAATAGAAGCGGAAAAAGAAGAGAGAGTGAT
1 GAACACCAAAATCTTCGAAAAACAAATAGAAAATTAACAGAAGAGGAAAAAGAAGAGAGAGAGAT
30499761 TGATCAAAACCAGTTGCGCTGGAGACGGCTCTTCCTTTCTGCTAGCCATTTTCTGAACAGGAAAA
66 TGATCAAAACCAGTTGCGCTGGAGACGGCTCTTCCTTTCTGCTAGCCATTTTCTGAACAGGAAAA
* *
30499826 TTAAAAATAAATTAACATAAAATATACGTTAAATCACA-ATGTAT-TTCTTCCCTGTTTCT
131 TTAAAAATAAATTAACATAAAATATACATTAAATCACAGA-GTATATTCTTCCATGTTTCT
* *
30499885 GAACACCAAAATCTTCTAAAAACAAATAGAAAATTAACAGAATGAGAGAGAGAGAGAGAGAGAGA
1 GAACACCAAAATCTTCGAAAAACAAATAGAAAATTAACAGAA-GAG-GA-A-AAAGA-AGAGAGA
*
30499950 GAGATTGCTCAAAACCAGTTGCGCTGGAGACGAG-TCTTCCTTTCTGCTAGCCATTTTCTGAACA
61 GAGATTGATCAAAACCAGTTGCGCTGGAGACG-GCTCTTCCTTTCTGCTAGCCATTTTCTGAACA
* * * *
30500014 TGAAAATTAAATATAAATTAACGTAAAATATACATTAAATCACAGAGTATATTTTTCCATGTTTC
125 GGAAAATTAAAAATAAATTAACATAAAATATACATTAAATCACAGAGTATATTCTTCCATGTTTC
30500079 T
190 T
* *
30500080 GGACACCAGAATCTT
1 GAACACCAAAATCTT
30500095 AAAAAAAAAA
Statistics
Matches: 187, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
189 39 0.21
190 2 0.01
191 2 0.01
192 1 0.01
193 4 0.02
194 111 0.59
195 28 0.15
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (190 bp):
GAACACCAAAATCTTCGAAAAACAAATAGAAAATTAACAGAAGAGGAAAAAGAAGAGAGAGAGAT
TGATCAAAACCAGTTGCGCTGGAGACGGCTCTTCCTTTCTGCTAGCCATTTTCTGAACAGGAAAA
TTAAAAATAAATTAACATAAAATATACATTAAATCACAGAGTATATTCTTCCATGTTTCT
Found at i:30500797 original size:10 final size:8
Alignment explanation
Indices: 30500767--30500796 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
30500757 TTTAGCTCTA
30500767 TTTTTATT
1 TTTTTATT
30500775 TTTTTATT
1 TTTTTATT
30500783 TTTTTATCT
1 TTTTTAT-T
30500792 TTTTT
1 TTTTT
30500797 TCTTATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:30511425 original size:51 final size:50
Alignment explanation
Indices: 30511349--30511536 Score: 184
Period size: 51 Copynumber: 3.7 Consensus size: 50
30511339 TACCCGGTTG
* * * *
30511349 ACATAGTAGCCTACAAATAGTACTACACATGTGACCATTTTCATCCGATAC
1 ACATAGTAGCCTACACATAGTACTACACACGTGACCA-TATCATCCGGTAC
* * * *
30511400 ACATAGTAGCCTGCACATAGTACTACACGCGTGATCGA-AGCTATCCGGTAC
1 ACATAGTAGCCTACACATAGTACTACACACGTGA-CCATATC-ATCCGGTAC
* * * *
30511451 GCATAGTAGCC-AGCACATAGTACTACACATGCGACC-TATCATTTCGGTAC
1 ACATAGTAGCCTA-CACATAGTACTACACACGTGACCATATCA-TCCGGTAC
* *
30511501 ACGTAGGAGCCTACACATAGTACTACACACGTGACC
1 ACATAGTAGCCTACACATAGTACTACACACGTGACC
30511537 TAGCAACTTC
Statistics
Matches: 110, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
49 1 0.01
50 40 0.36
51 67 0.61
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (50 bp):
ACATAGTAGCCTACACATAGTACTACACACGTGACCATATCATCCGGTAC
Found at i:30511534 original size:101 final size:101
Alignment explanation
Indices: 30511350--30511534 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 101
30511340 ACCCGGTTGA
* * * *
30511350 CATAGTAGCCTACAAATAGTACTACACATGTGACCATTTTCATCCGATACACATAGTAGCCTGCA
1 CATAGTAGCCTACAAATAGTACTACACATGCGACCA-TATCATCCGATACACATAGGAGCCTACA
*
30511415 CATAGTACTACACGCGTGATCGAAGCTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * * *
30511452 CATAGTAGCC-AGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACGTAGGAGCCTAC
1 CATAGTAGCCTA-CAAATAGTACTACACATGCGACCATATCA-TCCGATACACATAGGAGCCTAC
30511515 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
30511535 CCTAGCAACT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
100 4 0.06
101 37 0.51
102 31 0.43
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACAAATAGTACTACACATGCGACCATATCATCCGATACACATAGGAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:30512793 original size:17 final size:17
Alignment explanation
Indices: 30512771--30512815 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
30512761 AAAGTATCGA
30512771 AAAATTACAATCCATAT
1 AAAATTACAATCCATAT
*
30512788 AAAATTAAAATCCATAT
1 AAAATTACAATCCATAT
30512805 AAAATTACAAT
1 AAAATTACAAT
30512816 GCCACTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATTACAATCCATAT
Found at i:30514310 original size:42 final size:42
Alignment explanation
Indices: 30514230--30514311 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
30514220 CGTTTTCTCT
* **
30514230 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
30514272 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
30514312 CACTCCAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Done.