Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 73 of 333
Found at i:22389580 original size:6 final size:6
Alignment explanation
Indices: 22389562--22389676 Score: 58
Period size: 6 Copynumber: 18.7 Consensus size: 6
22389552 AAGAAACATT
* * *
22389562 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
22389611 ATCAGA ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAAA ATTAGGTA A-CAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
22389661 ATCAAA ATCAGA ATCA
1 ATCAGA ATCAGA ATCA
22389677 TATCAGGTAA
Statistics
Matches: 84, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
5 6 0.07
6 68 0.81
7 6 0.07
8 4 0.05
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:22389607 original size:31 final size:31
Alignment explanation
Indices: 22389571--22389705 Score: 131
Period size: 31 Copynumber: 4.5 Consensus size: 31
22389561 TATCAGAACT
*
22389571 AGAATCAGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAGAATTAGAATTAGGTAAC
* *
22389602 AGAATCAGAATCAGAATCAGTATTAGGTAAC
1 AGAATCAGAATCAGAATTAGAATTAGGTAAC
*
22389633 AGAATCAAAATC---A--A-AATTAGGTAAC
1 AGAATCAGAATCAGAATTAGAATTAGGTAAC
* * * *
22389658 AGAATCAAAATCAGAATCA-TATCAGGTAAC
1 AGAATCAGAATCAGAATTAGAATTAGGTAAC
*
22389688 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
22389706 GTGAATGCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
25 22 0.24
26 1 0.01
28 2 0.02
30 16 0.18
31 50 0.55
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATTAGAATTAGGTAAC
Found at i:22389635 original size:25 final size:25
Alignment explanation
Indices: 22389607--22389702 Score: 111
Period size: 25 Copynumber: 3.6 Consensus size: 25
22389597 GTGACAGAAT
*
22389607 CAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAAAATCAGTATTAGGTAA
**
22389632 CAGAATCAAAATCAAAATTAGGTAA
1 CAGAATCAAAATCAGTATTAGGTAA
22389657 CAGAATCAAAATCAGAATCATATCAGGTAA
1 CAGAATCAAAATCAG--T-AT-T-AGGTAA
22389687 CAGAATCAAAAATCAG
1 CAGAATC-AAAATCAG
22389703 AATGTGAATG
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
25 36 0.60
28 2 0.03
29 1 0.02
30 13 0.22
31 8 0.13
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (25 bp):
CAGAATCAAAATCAGTATTAGGTAA
Found at i:22389701 original size:56 final size:56
Alignment explanation
Indices: 22389576--22389697 Score: 183
Period size: 56 Copynumber: 2.2 Consensus size: 56
22389566 GAACTAGAAT
* * * * * *
22389576 CAGAATCAGAATTAGAATTAGGTGACAGAATCAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAAAATCAAAATTAGGTAACAGAATCAAAATCAGAATCAGTATCAGGTAA
22389632 CAGAATCAAAATCAAAATTAGGTAACAGAATCAAAATCAGAATCA-TATCAGGTAA
1 CAGAATCAAAATCAAAATTAGGTAACAGAATCAAAATCAGAATCAGTATCAGGTAA
22389687 CAGAATCAAAA
1 CAGAATCAAAA
22389698 ATCAGAATGT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 20 0.33
56 40 0.67
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.20
Consensus pattern (56 bp):
CAGAATCAAAATCAAAATTAGGTAACAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:22389884 original size:27 final size:26
Alignment explanation
Indices: 22389842--22389961 Score: 127
Period size: 27 Copynumber: 4.5 Consensus size: 26
22389832 GCTCAGTTAT
* *
22389842 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
22389869 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
22389895 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * * *
22389923 CAGGTAATGTGGCAAAGCCA-CTGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
22389948 CAGA-ATGTGTGGCA
1 CAGATAT-TGTGGCA
22389962 CAAAGCCATC
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
24 1 0.01
25 12 0.15
26 9 0.11
27 52 0.64
28 7 0.09
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:22390128 original size:22 final size:22
Alignment explanation
Indices: 22390102--22390166 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
22390092 CCAAATACGT
*
22390102 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
22390124 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
22390146 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
22390167 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:22390442 original size:16 final size:16
Alignment explanation
Indices: 22390421--22390451 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22390411 ATCCCAACCC
22390421 ATGCAACATGTCATGT
1 ATGCAACATGTCATGT
22390437 ATGCAACATGTCATG
1 ATGCAACATGTCATG
22390452 CCCATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAACATGTCATGT
Found at i:22390648 original size:27 final size:27
Alignment explanation
Indices: 22390590--22391135 Score: 774
Period size: 27 Copynumber: 20.3 Consensus size: 27
22390580 GGGGCAAAAT
* * * *
22390590 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
22390616 GGTAATTCCACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22390643 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
22390670 AGTAATTCTACGCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22390697 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22390724 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
22390751 GGTAATTCTACCGTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22390778 GGTAATTCTACCCTACAGGGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22390805 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22390832 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
22390859 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22390886 GGTAATTCTACCCTATC-GGGGTATTGC
1 GGTAATTCTACCCTA-CAGGGGTATTTC
* *
22390913 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
22390940 GATAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22390967 GGTAATTCTACCCAACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22390994 GGTAATTCTA-CCTCACAGGGGTATTCC
1 GGTAATTCTACCCT-ACAGGGGTATTTC
* *
22391021 GGTAATTCTACCCTACATGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
22391048 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22391075 GGTAATTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
22391102 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22391129 GATAATT
1 GGTAATT
22391136 TTGTAAATCG
Statistics
Matches: 461, Mismatches: 54, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
26 17 0.04
27 440 0.95
28 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:22391150 original size:27 final size:27
Alignment explanation
Indices: 22391120--22391217 Score: 65
Period size: 27 Copynumber: 3.7 Consensus size: 27
22391110 TACCCTACAG
22391120 GGGTATTTCGATAATTTTGTAAATCGA
1 GGGTATTTCGATAATTTTGTAAATCGA
*** * * *
22391147 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTATTTCGATAATTTTGTAAATCGA
* ** *
22391174 GGGTACTTT-GGTAA-TTTACAAGTCGA
1 GGGTA-TTTCGATAATTTTGTAAATCGA
**
22391200 GGGTATTTTAATAATTTT
1 GGGTATTTCGATAATTTT
22391218 ACAGGTCAAG
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
25 3 0.06
26 15 0.29
27 34 0.65
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTGTAAATCGA
Found at i:22391229 original size:27 final size:27
Alignment explanation
Indices: 22391170--22391512 Score: 196
Period size: 27 Copynumber: 12.8 Consensus size: 27
22391160 ATTCTGTAAA
* *
22391170 TCAAGGGTACTTTGGTAA-TTTACAAG
1 TCAAGGGTATTTTAGTAATTTTACAAG
* * *
22391196 TCGAGGGTATTTTAATAATTTTACAGG
1 TCAAGGGTATTTTAGTAATTTTACAAG
* * * *
22391223 TCAAGGGTATTTCAGTAATTTCATAAA
1 TCAAGGGTATTTTAGTAATTTTACAAG
* * * *
22391250 TCAGGGGTATTCTAGTAATTTCACAAA
1 TCAAGGGTATTTTAGTAATTTTACAAG
* *
22391277 T-TAGAGGTATTTTGGTAATTTTACAA-
1 TCAAG-GGTATTTTAGTAATTTTACAAG
* * *
22391303 ACTAGGGGTATTTT-GATAATTTTACAAA
1 TC-AAGGGTATTTTAG-TAATTTTACAAG
* * * *
22391331 CCAGGGGTATTTTGGTAATTTTATAA-
1 TCAAGGGTATTTTAGTAATTTTACAAG
* *
22391357 ACAAAGGGTATTTTAGTAATTTTACAAA
1 TC-AAGGGTATTTTAGTAATTTTACAAG
* * * ** *
22391385 CCAGGGGTATTTTGGTAATTTTGTAAA
1 TCAAGGGTATTTTAGTAATTTTACAAG
* * * *
22391412 CCAAGGGTATTTTGGTCATTTTACAAA
1 TCAAGGGTATTTTAGTAATTTTACAAG
* * * * *
22391439 CCAGGGGTATTTTGGTTATTTTATAA-
1 TCAAGGGTATTTTAGTAATTTTACAAG
* *
22391465 ACTAAGGGTATTTTAGTGATTTTACAA-
1 TC-AAGGGTATTTTAGTAATTTTACAAG
* * *
22391492 ACTAGGGTATTTTGGTAATTT
1 TCAAGGGTATTTTAGTAATTT
22391513 GGTAAACTAA
Statistics
Matches: 257, Mismatches: 50, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
26 34 0.13
27 219 0.85
28 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TCAAGGGTATTTTAGTAATTTTACAAG
Found at i:22391286 original size:54 final size:53
Alignment explanation
Indices: 22391228--22391512 Score: 299
Period size: 54 Copynumber: 5.3 Consensus size: 53
22391218 ACAGGTCAAG
** * * **
22391228 GGTATTTCAGTAATTTCATAAATC-AGGGGTATTCTAGTAATTTCACAAATTAGA
1 GGTATTTTGGTAATTTTATAAA-CAAGGGGTATT-TAGTAATTTTACAAACCAGA
* * * *
22391282 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACAAGGGGTATTTAG-TAATTTTACAAACCAGA
* *
22391336 GGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACAAGGGGTA-TTTAGTAATTTTACAAACCAGA
* * * *
22391390 GGTATTTTGGTAATTTTGTAAACCAA-GGGTATTTTGGTCATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAA-CAAGGGGTA-TTTAGTAATTTTACAAACCAGA
* * *
22391444 GGTATTTTGGTTATTTTATAAACTAA-GGGTATTTTAGTGATTTTACAAACTAG-
1 GGTATTTTGGTAATTTTATAAAC-AAGGGGTA-TTTAGTAATTTTACAAACCAGA
22391497 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
22391513 GGTAAACTAA
Statistics
Matches: 204, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
53 19 0.09
54 178 0.87
55 7 0.03
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (53 bp):
GGTATTTTGGTAATTTTATAAACAAGGGGTATTTAGTAATTTTACAAACCAGA
Found at i:22391314 original size:81 final size:80
Alignment explanation
Indices: 22391227--22391512 Score: 315
Period size: 81 Copynumber: 3.5 Consensus size: 80
22391217 TACAGGTCAA
* * * * * * *
22391227 GGGTATTTCAGTAATTTCATAAATCAGGGGTATTCTAGTAATTTCACAAATTAGAGGTATTTTGG
1 GGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAA-CAGAGGTATTTTGG
22391292 TAATTTTACAAACTAG
65 TAATTTTACAAACTAG
* * * *
22391308 GGGTATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTA
1 GGGTATTTTAG-TAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAACAGA-GGTATTTTG
*
22391372 GTAATTTTACAAACCAG
64 GTAATTTTACAAACTAG
* * * * *
22391389 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTCATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAA-CAGAGGTATTTTGG
* * *
22391454 TTATTTTATAAACTAA
65 TAATTTTACAAACTAG
* * *
22391470 GGGTATTTTAGTGATTTTACAAACTA-GGGTATTTTGGTAATTT
1 GGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTT
22391513 GGTAAACTAA
Statistics
Matches: 171, Mismatches: 30, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
80 19 0.11
81 149 0.87
82 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (80 bp):
GGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAACAGAGGTATTTTGGT
AATTTTACAAACTAG
Found at i:22391342 original size:108 final size:107
Alignment explanation
Indices: 22391173--22391512 Score: 398
Period size: 108 Copynumber: 3.2 Consensus size: 107
22391163 CTGTAAATCA
* * * * *** * *
22391173 AGGGTACTTTGGTAA-TTTAC-AAGTCGAGGGTATTTTAATAATTTTACAGGTCAAGGGTATTTC
1 AGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
* * * * * *
22391236 AGTAATTTCATAAATC-AGGGGTATTCTAGTAATTTCACAAATT
65 GGTAATTTTATAAA-CAAAGGGTATTTTAGTAATTTTACAAACT
22391279 AGAGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
1 AG-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
*
22391344 GGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACC
65 GGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACT
** * * * *
22391387 AGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTCATTTTACAAACCAGGGGTATTTT
1 A-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
* * *
22391452 GGTTATTTTATAAACTAAGGGTATTTTAGTGATTTTACAAACT
65 GGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACT
22391495 AGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
22391513 GGTAAACTAA
Statistics
Matches: 203, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
106 2 0.01
107 30 0.15
108 166 0.82
109 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (107 bp):
AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTG
GTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACT
Found at i:22392416 original size:29 final size:30
Alignment explanation
Indices: 22392353--22392467 Score: 118
Period size: 29 Copynumber: 4.1 Consensus size: 30
22392343 AGGGTGTTAC
* * *
22392353 ATGGCCCA-CTAGGCCCGA-TCTTATTCAA
1 ATGGCCCATCTAGGCCCAATTCATATTCAT
* *
22392381 AT-GCCCATCT-GGCCCAGTTCATATTCTT
1 ATGGCCCATCTAGGCCCAATTCATATTCAT
*
22392409 ATGGCCCA-CTAAGCCCAATTCATATTCAT
1 ATGGCCCATCTAGGCCCAATTCATATTCAT
*
22392438 ATGGCCCAT-TAGGCCCAAATCATATT-AT
1 ATGGCCCATCTAGGCCCAATTCATATTCAT
22392466 AT
1 AT
22392468 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
27 10 0.14
28 19 0.26
29 43 0.60
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (30 bp):
ATGGCCCATCTAGGCCCAATTCATATTCAT
Found at i:22392453 original size:58 final size:56
Alignment explanation
Indices: 22392353--22392463 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 56
22392343 AGGGTGTTAC
* * * **
22392353 ATGGCCCACTAGGCCCGATCTTATTCAAATGCCCATCTGGCCCAGTTCATATTCTT
1 ATGGCCCACTAAGCCCAATCATATTCAAATGCCCATCTGGCCCAAATCATATTCTT
*
22392409 ATGGCCCACTAAGCCCAATTCATATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 ATGGCCCACTAAGCCCAA-TCATATTCAAAT-GCCCATCT-GGCCCAAATCATATT
22392464 ATATTCATGC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 16 0.35
57 11 0.24
58 19 0.41
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (56 bp):
ATGGCCCACTAAGCCCAATCATATTCAAATGCCCATCTGGCCCAAATCATATTCTT
Found at i:22392569 original size:19 final size:18
Alignment explanation
Indices: 22392536--22392572 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
22392526 TGGGCCCAAC
22392536 AGCCCATTAGGCCCATTT
1 AGCCCATTAGGCCCATTT
*
22392554 AGCCCATTCCGGCCCATTT
1 AGCCCATT-AGGCCCATTT
22392573 GGTTCGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.19, C:0.38, G:0.16, T:0.27
Consensus pattern (18 bp):
AGCCCATTAGGCCCATTT
Found at i:22398052 original size:15 final size:15
Alignment explanation
Indices: 22398034--22398067 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
22398024 GATTATTCAA
22398034 AAGAAAGAAAATCAT
1 AAGAAAGAAAATCAT
22398049 AAGAAAGAAAATCAT
1 AAGAAAGAAAATCAT
22398064 AAGA
1 AAGA
22398068 GGAAAGGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.68, C:0.06, G:0.15, T:0.12
Consensus pattern (15 bp):
AAGAAAGAAAATCAT
Found at i:22398418 original size:12 final size:12
Alignment explanation
Indices: 22398403--22398442 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
22398393 AATTGAAATG
*
22398403 AAAATAAGAAGA
1 AAAATAAGAATA
*
22398415 AAAATAAAAATA
1 AAAATAAGAATA
22398427 AAAATAAGAATA
1 AAAATAAGAATA
22398439 AAAA
1 AAAA
22398443 ACTAGAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (12 bp):
AAAATAAGAATA
Found at i:22398423 original size:6 final size:6
Alignment explanation
Indices: 22398398--22398442 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
22398388 AATAAAATTG
* * * *
22398398 AAATGA AAATAA GAAGAA AAATAA AAATAA AAATAA GAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
22398443 ACTAGAAGGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:22405553 original size:27 final size:27
Alignment explanation
Indices: 22405515--22405610 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
22405505 AAGGGTACTG
22405515 TACTGGTGGCTTTGCCACATATACAGT
1 TACTGGTGGCTTTGCCACATATACAGT
22405542 TACTGGTGGCTTTGCCACATATACAGT
1 TACTGGTGGCTTTGCCACATATACAGT
* * * * *
22405569 TACTAGTGACTTTACCACATATACTGA
1 TACTGGTGGCTTTGCCACATATACAGT
**
22405596 TACTGGCAGCTTTGC
1 TACTGGTGGCTTTGC
22405611 TGTGTTACTG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
TACTGGTGGCTTTGCCACATATACAGT
Found at i:22407207 original size:21 final size:21
Alignment explanation
Indices: 22407183--22407224 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22407173 TTAAATGTGT
22407183 TTAATTGCTATGGTTGATTAA
1 TTAATTGCTATGGTTGATTAA
22407204 TTAATTGCTATGGTTGATTAA
1 TTAATTGCTATGGTTGATTAA
22407225 ATGTGAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (21 bp):
TTAATTGCTATGGTTGATTAA
Found at i:22408264 original size:43 final size:43
Alignment explanation
Indices: 22408206--22408361 Score: 179
Period size: 43 Copynumber: 3.6 Consensus size: 43
22408196 GATTATCGAG
* * * *
22408206 ATATGATTGCATGTAAGACCATGTCTGGGAAATTGGCATTG-T
1 ATATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
* * *
22408248 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTCGTATCGTT
1 A-TATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
* *
22408292 ATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
1 ATATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
* * * *
22408335 ATAAGGTTACATGTAAGACCATATCTG
1 ATATGATTACGTGTAAGACCATGTCTG
22408362 AGATATGGCA
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 92 0.97
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
ATATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
Found at i:22421202 original size:42 final size:43
Alignment explanation
Indices: 22421113--22421233 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 43
22421103 TCAGACGTGG
** * * * **
22421113 TCTTACATGCTATCATAGATCGATGCCACTGTCCCAGACAGGG
1 TCTTACATGGAATCAAATATCGATGCCAATGTCCCAGACAGCA
* *
22421156 TCTTACA-GGAATCAAA-ATACGATGCTAATGTCCCAGACATCA
1 TCTTACATGGAATCAAATAT-CGATGCCAATGTCCCAGACAGCA
* *
22421198 TCTTACATGTAATCACATATCGATGCCAATGTCCCA
1 TCTTACATGGAATCAAATATCGATGCCAATGTCCCA
22421234 AATGTAGTCT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.03
42 31 0.48
43 29 0.45
44 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
TCTTACATGGAATCAAATATCGATGCCAATGTCCCAGACAGCA
Found at i:22426635 original size:38 final size:38
Alignment explanation
Indices: 22426550--22426728 Score: 205
Period size: 38 Copynumber: 4.7 Consensus size: 38
22426540 AAACCCGAAC
* * *
22426550 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCAGAT
* *
22426590 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGAT
* * * **
22426628 ATAATACCATCACGAAGCCTACAGGATTTAACCTGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGAT
* *
22426666 GTAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGAT
* **
22426704 ATAATTCCAGCATAAAGCCTGCGGG
1 ATAATACCAGCACGAAGCCTGCGGG
22426729 TCTTTAAGCC
Statistics
Matches: 118, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
38 93 0.79
39 3 0.03
40 22 0.19
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGAT
Found at i:22426686 original size:76 final size:78
Alignment explanation
Indices: 22426550--22426715 Score: 228
Period size: 76 Copynumber: 2.2 Consensus size: 78
22426540 AAACCCGAAC
* * * *
22426550 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAGGCCTGCGGG
1 ATAATACCAGCACGAAGCCTACAGGACTTTAAACTCAGATATAATACCAGCACGAAGCCTGCGGG
22426615 ATTTAACCCAGAT
66 ATTTAACCCAGAT
* * * *
22426628 ATAATACCATCACGAAGCCTACAGGA-TTTAACCT-GGATGTAATACCAGCACGAAGCCTGCGGG
1 ATAATACCAGCACGAAGCCTACAGGACTTTAAACTCAGATATAATACCAGCACGAAGCCTGCGGG
*
22426691 ATTTAACCCGGAT
66 ATTTAACCCAGAT
*
22426704 ATAATTCCAGCA
1 ATAATACCAGCA
22426716 TAAAGCCTGC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
76 47 0.61
77 7 0.09
78 23 0.30
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (78 bp):
ATAATACCAGCACGAAGCCTACAGGACTTTAAACTCAGATATAATACCAGCACGAAGCCTGCGGG
ATTTAACCCAGAT
Found at i:22430012 original size:43 final size:43
Alignment explanation
Indices: 22429866--22430004 Score: 167
Period size: 43 Copynumber: 3.2 Consensus size: 43
22429856 TGAAAGTTAC
* * * *
22429866 GTAAGACCATGTCTGGGACATTGACATTG-TATTGTGATTACGT
1 GTAAGACCATGTCTAGGACATTGGCATCGATA-TGAGATTACGT
* *
22429909 GTAAGACCATGTCTGGGACATTGGCATC-ATTAT-ATGATTTCGT
1 GTAAGACCATGTCTAGGACATTGGCATCGA-TATGA-GATTACGT
*
22429952 GTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACAT
1 GTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACGT
22429995 GTAAGACCAT
1 GTAAGACCAT
22430005 ATTTAGGATA
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
43 80 0.95
44 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
GTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACGT
Found at i:22434955 original size:39 final size:40
Alignment explanation
Indices: 22434837--22435018 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
22434827 GCTACTCGTT
*
22434837 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
22434877 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
22434917 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATA-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-ACTCGCA
* * * * * *
22434956 CAAATGTCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
22434997 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
22435019 AGACATCATT
Statistics
Matches: 120, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.27
40 73 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:22434955 original size:79 final size:81
Alignment explanation
Indices: 22434837--22435018 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
22434827 GCTACTCGTT
* * *
22434837 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
22434901 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
22434917 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATA-TCGCACAAATGTCTTCGGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA-ACTCGCACAAATGCCTTCGGATCTTAACCC
* *
22434979 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
22434997 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
22435019 AGACATCATT
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
78 4 0.05
79 52 0.60
80 31 0.36
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:22442346 original size:79 final size:81
Alignment explanation
Indices: 22442246--22442430 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
22442236 GCTACTCGTT
* * * *
22442246 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTTCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
22442309 AGATTTAGTAACTT-GCA
64 AGATATAGTAACTTAGCA
* ** *
22442326 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAG
* *
22442390 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
22442406 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22442431 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAG
ATATAGTAACTTAGCA
Found at i:22442430 original size:40 final size:41
Alignment explanation
Indices: 22442246--22442430 Score: 195
Period size: 40 Copynumber: 4.6 Consensus size: 41
22442236 GCTACTCGTT
* *
22442246 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * * * *
22442286 CAATTTCCTTCGGGACTTAACCCAGATTTAGTAACTT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
*
22442326 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * *
22442365 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
22442406 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22442431 CATCATTCAA
Statistics
Matches: 118, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
38 3 0.03
39 29 0.25
40 73 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:22444687 original size:27 final size:26
Alignment explanation
Indices: 22444656--22444833 Score: 117
Period size: 27 Copynumber: 6.6 Consensus size: 26
22444646 ATATTGAGCC
*
22444656 CGCACACTCAGTGCTATGTAATCAACT
1 CGCACACTTAGTGCTAT-TAATCAACT
* *
22444683 CGCACACTTAGTGCCACTTAATCAAAT
1 CGCACACTTAGTGCTA-TTAATCAACT
* *
22444710 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTA-TTAATC-AACT
* * **
22444738 CGCACACTTAGTGCCGCA-TGATCATTT
1 CGCACACTTAGTG-C-TATTAATCAACT
* **
22444765 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTAT--TAATCAACT
* * * *
22444792 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-TTAATCAACT
22444819 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22444834 GTACAATTTA
Statistics
Matches: 123, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
24 1 0.01
26 1 0.01
27 98 0.80
28 21 0.17
29 1 0.01
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (26 bp):
CGCACACTTAGTGCTATTAATCAACT
Found at i:22444795 original size:82 final size:81
Alignment explanation
Indices: 22444682--22444832 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
22444672 TGTAATCAAC
* *
22444682 TCGCACACTTAGTGCCACTTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
22444747 AGTGCCGCATGATCATT
65 AGTGCCGCATGATCATT
* **
22444764 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
22444828 AGTGC
65 AGTGC
22444833 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 46 0.73
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGATCATT
Found at i:22452791 original size:27 final size:26
Alignment explanation
Indices: 22452760--22452937 Score: 117
Period size: 27 Copynumber: 6.6 Consensus size: 26
22452750 ATATTGAGCC
*
22452760 CGCACACTCAGTGCTATGTAATCAACT
1 CGCACACTTAGTGCTAT-TAATCAACT
* *
22452787 CGCACACTTAGTGCCACTTAATCAAAT
1 CGCACACTTAGTGCTA-TTAATCAACT
* *
22452814 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTA-TTAATC-AACT
* * **
22452842 CGCACACTTAGTGCCGCA-TGATCATTT
1 CGCACACTTAGTG-C-TATTAATCAACT
* **
22452869 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTAT--TAATCAACT
* * * *
22452896 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-TTAATCAACT
22452923 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22452938 GTACAATTTA
Statistics
Matches: 123, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
24 1 0.01
26 1 0.01
27 98 0.80
28 21 0.17
29 1 0.01
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (26 bp):
CGCACACTTAGTGCTATTAATCAACT
Found at i:22452899 original size:82 final size:81
Alignment explanation
Indices: 22452786--22452936 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
22452776 TGTAATCAAC
* *
22452786 TCGCACACTTAGTGCCACTTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
22452851 AGTGCCGCATGATCATT
65 AGTGCCGCATGATCATT
* **
22452868 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
22452932 AGTGC
65 AGTGC
22452937 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 46 0.73
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGATCATT
Found at i:22455622 original size:21 final size:21
Alignment explanation
Indices: 22455598--22455657 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
22455588 TTCTATTTAA
22455598 CTCTTATGAGCTTTTGTTCA-G
1 CTCTTATGAGCTTTTGTT-ATG
* * *
22455619 CTCTTTTGAGCTTCTATTATG
1 CTCTTATGAGCTTTTGTTATG
*
22455640 TTCTTATGAGCTTTTGTT
1 CTCTTATGAGCTTTTGTT
22455658 GGTGTGTTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.13, C:0.17, G:0.17, T:0.53
Consensus pattern (21 bp):
CTCTTATGAGCTTTTGTTATG
Found at i:22455636 original size:42 final size:42
Alignment explanation
Indices: 22455577--22455657 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
22455567 GGTGGATCAA
*
22455577 CTCTTATGAGTTTCTATT-TAACTCTTATGAGCTTTTGTTCAG
1 CTCTTATGAGCTTCTATTAT-ACTCTTATGAGCTTTTGTTCAG
* **
22455619 CTCTTTTGAGCTTCTATTATGTTCTTATGAGCTTTTGTT
1 CTCTTATGAGCTTCTATTATACTCTTATGAGCTTTTGTT
22455658 GGTGTGTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.15, T:0.53
Consensus pattern (42 bp):
CTCTTATGAGCTTCTATTATACTCTTATGAGCTTTTGTTCAG
Found at i:22458081 original size:18 final size:18
Alignment explanation
Indices: 22458049--22458098 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
22458039 AGGCCAATTT
22458049 GGGCCTGTGGG-CCACAC
1 GGGCCTGTGGGCCCACAC
* *
22458066 GGGCTTGTGGGCCCACAT
1 GGGCCTGTGGGCCCACAC
* *
22458084 GGGCGTGTGAGCCCA
1 GGGCCTGTGGGCCCA
22458099 TTTTTCTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 10 0.36
18 18 0.64
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (18 bp):
GGGCCTGTGGGCCCACAC
Found at i:22465282 original size:23 final size:23
Alignment explanation
Indices: 22465245--22465341 Score: 90
Period size: 23 Copynumber: 4.3 Consensus size: 23
22465235 GGACTCACCA
22465245 CAGCTCGTATA-AGCTTACTGATT
1 CAGCTCGTA-AGAGCTTACTGATT
* *
22465268 CATCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTAAGAGCTTACTGATT
* ** * *
22465291 CAGCTCATTGGATCTTACCGATT
1 CAGCTCGTAAGAGCTTACTGATT
* *
22465314 CAGCTCGAAAGGGCTTACT-ATT
1 CAGCTCGTAAGAGCTTACTGATT
22465336 CAGCTC
1 CAGCTC
22465342 AATAGAGCTT
Statistics
Matches: 57, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
22 10 0.18
23 47 0.82
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (23 bp):
CAGCTCGTAAGAGCTTACTGATT
Found at i:22465376 original size:46 final size:46
Alignment explanation
Indices: 22465256--22465376 Score: 122
Period size: 46 Copynumber: 2.6 Consensus size: 46
22465246 AGCTCGTATA
* * * * * *
22465256 AGCTTACTGATTCATCTCGTAAGAGCTTACTGTTTCAGCTCATTGG
1 AGCTTACCGATTCAGCTCGAAAGAGCTTACTGATTCAGCTCAATAG
* *
22465302 ATCTTACCGATTCAGCTCGAAAGGGCTTACT-ATTCAGCTCAATAG
1 AGCTTACCGATTCAGCTCGAAAGAGCTTACTGATTCAGCTCAATAG
22465347 AGCTTACC-ATTTTCAGCTC-AATAGAGCTTA
1 AGCTTACCGA--TTCAGCTCGAA-AGAGCTTA
22465377 TTGTTTATCA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.02
45 20 0.32
46 41 0.66
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
AGCTTACCGATTCAGCTCGAAAGAGCTTACTGATTCAGCTCAATAG
Found at i:22466880 original size:40 final size:40
Alignment explanation
Indices: 22466810--22466987 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
22466800 AAACCAAGTA
* * *
22466810 CCTTCGAGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
22466849 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
22466889 CCTTCGGGACTTAGCCCGGATATAGTAACTTGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
22466929 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
22466969 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
22466988 TTACCATCCA
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 14 0.11
40 114 0.89
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:22474727 original size:40 final size:40
Alignment explanation
Indices: 22474657--22474830 Score: 239
Period size: 40 Copynumber: 4.4 Consensus size: 40
22474647 AAACCAAGTA
* * *
22474657 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
22474696 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
22474735 CCTTCGGGACTTAGTCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
22474775 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
22474815 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
22474831 TGATTACCAT
Statistics
Matches: 123, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 51 0.41
40 72 0.59
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:22476034 original size:13 final size:13
Alignment explanation
Indices: 22476003--22476043 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
22475993 CTTCTTTTCT
22476003 TTTATTATCC-TTA
1 TTTATT-TCCTTTA
*
22476016 -TTATTTCTTTTA
1 TTTATTTCCTTTA
22476028 TTTATTTCCTTTA
1 TTTATTTCCTTTA
22476041 TTT
1 TTT
22476044 TACATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 2 0.08
12 8 0.33
13 14 0.58
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTTCCTTTA
Found at i:22482814 original size:23 final size:22
Alignment explanation
Indices: 22482788--22482936 Score: 102
Period size: 23 Copynumber: 6.4 Consensus size: 22
22482778 CAGCTCGTAT
*
22482788 GAGCTTACTAATTCAGCTCATAA
1 GAGCTTACTGATTCAGCTCA-AA
* * * **
22482811 GAGCTTATTGTTTCATCTCATTG
1 GAGCTTACTGATTCAGCTCA-AA
*
22482834 GAGCTTATTGATTCAGCTCGAAA
1 GAGCTTACTGATTCAGCTC-AAA
*
22482857 GAACTTACTG-TTCAGCTCAATA
1 GAGCTTACTGATTCAGCTCAA-A
* *
22482879 GAGCTTATTGTTTTCAGCTCAATA
1 GAGCTTACTG-ATTCAGCTCAA-A
*
22482903 GAGCTTACTGTTTATCAGCTCAAGA
1 GAGCTTACTG-AT-TCAGCTCAA-A
22482928 GGAGCTTAC
1 -GAGCTTAC
22482937 CGACCATGAC
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
21 2 0.02
22 17 0.16
23 42 0.40
24 25 0.24
25 10 0.10
26 8 0.08
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (22 bp):
GAGCTTACTGATTCAGCTCAAA
Found at i:22482871 original size:22 final size:22
Alignment explanation
Indices: 22482788--22482914 Score: 105
Period size: 23 Copynumber: 5.5 Consensus size: 22
22482778 CAGCTCGTAT
*
22482788 GAGCTTACTAATTCAGCTC-ATAA
1 GAGCTTACT-GTTCAGCTCAAT-A
* * * *
22482811 GAGCTTATTGTTTCATCTCATTG
1 GAGCTTACTG-TTCAGCTCAATA
*
22482834 GAGCTTATTGATTCAGCTCGAA-A
1 GAGCTTACTG-TTCAGCTC-AATA
*
22482857 GAACTTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATA
*
22482879 GAGCTTATTGTTTTCAGCTCAATA
1 GAGCTTACTG--TTCAGCTCAATA
22482903 GAGCTTACTGTT
1 GAGCTTACTGTT
22482915 TATCAGCTCA
Statistics
Matches: 84, Mismatches: 14, Indels: 13
0.76 0.13 0.12
Matches are distributed among these distances:
21 2 0.02
22 19 0.23
23 40 0.48
24 23 0.27
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:22482895 original size:46 final size:44
Alignment explanation
Indices: 22482788--22482914 Score: 137
Period size: 46 Copynumber: 2.8 Consensus size: 44
22482778 CAGCTCGTAT
* * * * * *
22482788 GAGCTTACTAATTCAGCTCATAAGAGCTTATTGTTTCATCTCATTG
1 GAGCTTATTGATTCAGCTCA-AAGAGCTTACTG-TTCAGCTCAATA
*
22482834 GAGCTTATTGATTCAGCTCGAAAGAACTTACTGTTCAGCTCAATA
1 GAGCTTATTGATTCAGCTC-AAAGAGCTTACTGTTCAGCTCAATA
*
22482879 GAGCTTATTGTTTTCAGCTCAATAGAGCTTACTGTT
1 GAGCTTATTG-ATTCAGCTCAA-AGAGCTTACTGTT
22482915 TATCAGCTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
45 21 0.30
46 47 0.68
47 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (44 bp):
GAGCTTATTGATTCAGCTCAAAGAGCTTACTGTTCAGCTCAATA
Found at i:22483398 original size:32 final size:32
Alignment explanation
Indices: 22483357--22483420 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
22483347 CGCATATAAG
* *
22483357 CCCATTAGTGTGCAAGATACAGAATATTCAAT
1 CCCATTAGTGTGAAAGATACAGAATATCCAAT
22483389 CCCATTAGTGTGAAAGATACAGAATATCCAAT
1 CCCATTAGTGTGAAAGATACAGAATATCCAAT
22483421 GTTATTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (32 bp):
CCCATTAGTGTGAAAGATACAGAATATCCAAT
Found at i:22489256 original size:46 final size:49
Alignment explanation
Indices: 22489010--22489290 Score: 194
Period size: 47 Copynumber: 5.9 Consensus size: 49
22489000 TATAGGGTGT
*
22489010 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GGT-T-CATCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACAT-C-TC
* * * * * **
22489058 AA-GTCGATACGATGTCCCAGACATGGCCTTACACT-G-ACT--ATCAA
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTC
** *
22489102 AATCGAGGATGACACCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC
1 AAT-GCCGATG---CCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATCTC
** * * *
22489156 CGTGCCGATGCCATGTCCCAGACAT-GTCCTGCA-TTGC-CTTACATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TACATCTC
* * * *
22489203 GAGGCCGATG-CATGTCCCAGACAT-GTCTTACTCTAGCTCT-CGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTC
* *
22489249 AATGCCGATGCCATGTCCCATACATGGTCTTACACTGGCTCT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT
22489291 CATAATATGG
Statistics
Matches: 180, Mismatches: 37, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 38 0.21
47 62 0.34
48 21 0.12
49 30 0.17
50 16 0.09
51 2 0.01
53 5 0.03
54 3 0.02
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (49 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTC
Found at i:22494662 original size:45 final size:45
Alignment explanation
Indices: 22494596--22494772 Score: 302
Period size: 45 Copynumber: 4.0 Consensus size: 45
22494586 TATCGTACAG
*
22494596 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
22494641 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
*
22494686 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* * *
22494731 TACTATTCGGGCCTTCGAGCCTAGAAGGCTA-AATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGA
22494773 TTTGATAAAA
Statistics
Matches: 127, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
44 10 0.08
45 117 0.92
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
Found at i:22495278 original size:16 final size:18
Alignment explanation
Indices: 22495247--22495279 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
22495237 AACTCGCCAC
22495247 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
22495265 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
22495280 ATCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:22500966 original size:38 final size:39
Alignment explanation
Indices: 22500897--22500976 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 39
22500887 AGTACATCAT
* * *
22500897 CAACAGAAGCTTATAAGACCTAGTCTTCCCGAA-CTTGC
1 CAACAGAAGCTCATAAGACCTAGTCTACCCGAAGCATGC
* *
22500935 CAACAGAAGCTCATAAGAGCTGATTC-ACCCGAAGCATGC
1 CAACAGAAGCTCATAAGACCT-AGTCTACCCGAAGCATGC
22500974 CAA
1 CAA
22500977 ACAAAAAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
38 25 0.71
39 10 0.29
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (39 bp):
CAACAGAAGCTCATAAGACCTAGTCTACCCGAAGCATGC
Found at i:22503221 original size:21 final size:22
Alignment explanation
Indices: 22503179--22503228 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
22503169 AGGCTCACAT
*
22503179 GCCCGTGTGATCCAAGAGACAC
1 GCCCGTGTGACCCAAGAGACAC
*
22503201 GCCCGTGTGACCCTA-AGACAC
1 GCCCGTGTGACCCAAGAGACAC
*
22503222 ACCCGTG
1 GCCCGTG
22503229 CTGCAGGCCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.24, C:0.36, G:0.26, T:0.14
Consensus pattern (22 bp):
GCCCGTGTGACCCAAGAGACAC
Found at i:22513068 original size:26 final size:26
Alignment explanation
Indices: 22513037--22513144 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
22513027 TGAAATGCCC
*
22513037 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22513063 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
22513089 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
22513115 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22513141 ATCA
1 ATCA
22513145 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22520100 original size:26 final size:26
Alignment explanation
Indices: 22520069--22520176 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
22520059 TGAAATGCCC
*
22520069 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22520095 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
22520121 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22520147 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22520173 ATCA
1 ATCA
22520177 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22535763 original size:80 final size:80
Alignment explanation
Indices: 22535615--22535820 Score: 299
Period size: 80 Copynumber: 2.6 Consensus size: 80
22535605 AACCCAAGTA
* * * * *
22535615 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGTACGAATGCCTTCGGGACTTAGCCCGGACATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATA
*
22535678 GTCACTAGCACAAATG
65 ATCACTAGCACAAATG
* *
22535694 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAA
22535759 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* *
22535774 CCTTCGGGACTTAGCTCGGATATAATCACTAGCACAAATGCCTTCGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
22535821 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 11 0.10
80 102 0.89
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAA
TCACTAGCACAAATG
Found at i:22535827 original size:40 final size:40
Alignment explanation
Indices: 22535650--22535820 Score: 297
Period size: 40 Copynumber: 4.3 Consensus size: 40
22535640 AACTCGTACG
* *
22535650 AATGCCTTCGGGACTTAGCCCGGACATAGTCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
* *
22535690 AATGCCTTTGGGACTTAGCCCGGATATAGTCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
22535730 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
*
22535770 AATGCCTTCGGGACTTAGCTCGGATATAATCACTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
22535810 AATGCCTTCGG
1 AATGCCTTCGG
22535821 ATCTTAGTCC
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACA
Found at i:22541772 original size:26 final size:26
Alignment explanation
Indices: 22541741--22541848 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22541731 TGAAATGCCC
*
22541741 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22541767 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22541793 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22541819 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22541845 ATCA
1 ATCA
22541849 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22542999 original size:7 final size:7
Alignment explanation
Indices: 22542987--22543021 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
22542977 AAGTAACATT
22542987 TTTATCA
1 TTTATCA
22542994 TTTATCA
1 TTTATCA
22543001 TTTATCA
1 TTTATCA
22543008 TTTATCA
1 TTTATCA
22543015 TTTATCA
1 TTTATCA
22543022 GCATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTATCA
Found at i:22544611 original size:46 final size:46
Alignment explanation
Indices: 22544555--22544666 Score: 136
Period size: 46 Copynumber: 2.5 Consensus size: 46
22544545 TGGTCACTCG
* ** *
22544555 TTAAGGTTGAACCTACATGAATCGGATAACAGTGTCTATTCACCCA
1 TTAAAGTTGAACCTACACAAATCGGATAACAGTGCCTATTCACCCA
* *
22544601 TTAAAGTTGAACCTACACAAATCGGATAATAGTGCCTATTCA-CCG
1 TTAAAGTTGAACCTACACAAATCGGATAACAGTGCCTATTCACCCA
** *
22544646 TTAGGGTTGAACTTACACAAA
1 TTAAAGTTGAACCTACACAAA
22544667 AAATAGCCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
45 20 0.35
46 37 0.65
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (46 bp):
TTAAAGTTGAACCTACACAAATCGGATAACAGTGCCTATTCACCCA
Found at i:22548615 original size:6 final size:6
Alignment explanation
Indices: 22548604--22548630 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
22548594 AAACTCAATG
22548604 TCCATA TCCATA TCCATA TCCATA TCC
1 TCCATA TCCATA TCCATA TCCATA TCC
22548631 GCACACTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (6 bp):
TCCATA
Found at i:22548703 original size:3 final size:3
Alignment explanation
Indices: 22548695--22548734 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
22548685 ATGCTTTCTA
22548695 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22548735 GTTAACAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22552134 original size:3 final size:3
Alignment explanation
Indices: 22552121--22552156 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
22552111 AATTTTATGC
22552121 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22552157 AACATTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22555730 original size:43 final size:44
Alignment explanation
Indices: 22555593--22555764 Score: 169
Period size: 43 Copynumber: 4.0 Consensus size: 44
22555583 CATAGGATCC
* * * * * *
22555593 CGATATGTGATTTCGTGCAAGACTACGTATGGGA-TGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTTGGCAT
* * *
22555636 CGAT-TTGAGATTTACGTGTAAGACCATGTCTGGAACA-TCGGCAT
1 CGATATT-TGATTT-CGTGTAAGACCATGTCTGGGACAGTTGGCAT
22555680 CG-TATTTGATTTCGTGTAAGA-CACTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTTCGTGTAAGACCA-TGTCTGGGACAGTTGGCAT
* *
22555722 CGATATTTGATTACATGTAAGACCATGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTTGGCAT
22555765 TGTATGAGCT
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.02
42 28 0.26
43 48 0.45
44 28 0.26
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (44 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTTGGCAT
Found at i:22562246 original size:32 final size:32
Alignment explanation
Indices: 22562209--22562275 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
22562199 GCTTTGTGAT
22562209 GATAGTTGATGAAAAATGAAAGATATGTGTTA
1 GATAGTTGATGAAAAATGAAAGATATGTGTTA
22562241 GATAGTTGATGAAAAATGAAAGATATGTGTTA
1 GATAGTTGATGAAAAATGAAAGATATGTGTTA
22562273 GAT
1 GAT
22562276 TACTATGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.25, T:0.31
Consensus pattern (32 bp):
GATAGTTGATGAAAAATGAAAGATATGTGTTA
Found at i:22562935 original size:44 final size:43
Alignment explanation
Indices: 22562857--22562987 Score: 124
Period size: 42 Copynumber: 3.0 Consensus size: 43
22562847 TCCTATATGT
* * * **
22562857 GATTTCATGTAAGACCACGTTTGGAATGTTGGCATCA-ATTTGA
1 GATTTCGTGTAAGACCATGTTTGGGA-CATGGCATCATATTTGA
*
22562900 GATTTATGTGTAAGACCATGTTTGGGACATCGGCATCATATTT--
1 GATTT-CGTGTAAGACCATGTTTGGGACAT-GGCATCATATTTGA
* *
22562943 GATTTCGTGTAAGACCCTATTTGGGACAGTGGCATCGATATTTGA
1 GATTTCGTGTAAGACCATGTTTGGGACA-TGGCATC-ATATTTGA
22562988 TTACATATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
42 26 0.36
43 18 0.25
44 24 0.33
45 4 0.06
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTTTGGGACATGGCATCATATTTGA
Found at i:22562966 original size:42 final size:43
Alignment explanation
Indices: 22562907--22562989 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 43
22562897 TGAGATTTAT
*
22562907 GTGTAAGACCATGTTTGGGACA-TCGGCATC-ATATTTGATTTC
1 GTGTAAGACCATATTTGGGACAGT-GGCATCGATATTTGATTTC
*
22562949 GTGTAAGACCCTATTTGGGACAGTGGCATCGATATTTGATT
1 GTGTAAGACCATATTTGGGACAGTGGCATCGATATTTGATT
22562990 ACATATAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 26 0.70
43 11 0.30
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
GTGTAAGACCATATTTGGGACAGTGGCATCGATATTTGATTTC
Found at i:22562999 original size:43 final size:42
Alignment explanation
Indices: 22562910--22563002 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
22562900 GATTTATGTG
* * * *
22562910 TAAGACCATGTTTGGGACATCGGCATCATATTTGATTTCGTG
1 TAAGACCATATTTGGGACATCGGCATCATATTTGATTACATA
*
22562952 TAAGACCCTATTTGGGACAGT-GGCATCGATATTTGATTACATA
1 TAAGACCATATTTGGGACA-TCGGCATC-ATATTTGATTACATA
22562995 TAAGACCA
1 TAAGACCA
22563003 CGTCTTGGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 23 0.53
43 20 0.47
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (42 bp):
TAAGACCATATTTGGGACATCGGCATCATATTTGATTACATA
Found at i:22565717 original size:28 final size:28
Alignment explanation
Indices: 22565684--22565746 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
22565674 CCATTGGCTT
22565684 GTGTCCCTCACACGGCCACGACACGCCC
1 GTGTCCCTCACACGGCCACGACACGCCC
22565712 GTGTCCCTCACACGGCCACGACACGCCC
1 GTGTCCCTCACACGGCCACGACACGCCC
22565740 GTG-CCCT
1 GTGTCCCT
22565747 AGCCCGTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.11
28 31 0.89
ACGTcount: A:0.16, C:0.49, G:0.22, T:0.13
Consensus pattern (28 bp):
GTGTCCCTCACACGGCCACGACACGCCC
Found at i:22566711 original size:47 final size:48
Alignment explanation
Indices: 22566638--22566907 Score: 211
Period size: 47 Copynumber: 5.8 Consensus size: 48
22566628 GGTAAGGTGA
*
22566638 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGT
1 CGATGCCATGTCCTAGACAT-GTCTTACACTGGCTCATCATCTCGAAGC
* * *
22566685 CGATGCCATGTCCTAGACATGATCTTACAGTGACT-ATCATCTCGTAGC
1 CGATGCCATGTCCTAGACATG-TCTTACACTGGCTCATCATCTCGAAGC
* * * * *
22566733 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTA-CGTCTCGAGGC
1 CGATGCCATGTCCTAGACATGTCTTACACTGGCTCATCATCTCGAAGC
* * * **
22566779 CAATG-CATGTCCCAAACATGTCTTACACTAACTC-TCATCTC-AATGC
1 CGATGCCATGTCCTAGACATGTCTTACACTGGCTCATCATCTCGAA-GC
* * * *** *
22566825 CGATGCCATGTCCTAGACATGATTTTATACTGGCTC-CCATAAAGTTA-C
1 CGATGCCATGTCCTAGACATG-TCTTACACTGGCTCATCATCTCG-AAGC
* *
22566873 CGATG-CATGTCCCAGACATGTTTTACACTGGCTCA
1 CGATGCCATGTCCTAGACATGTCTTACACTGGCTCA
22566908 CATAAGTGAC
Statistics
Matches: 181, Mismatches: 31, Indels: 22
0.77 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 75 0.41
47 78 0.43
48 26 0.14
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCTAGACATGTCTTACACTGGCTCATCATCTCGAAGC
Found at i:22566835 original size:93 final size:94
Alignment explanation
Indices: 22566638--22566845 Score: 235
Period size: 93 Copynumber: 2.2 Consensus size: 94
22566628 GGTAAGGTGA
* * * * * *
22566638 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCTAGAC
1 CGATGCCATGTCCTAGACAT-GTCTTACACTAGCTCACATCTCAAGCCAATGCCATGTCCCAAAC
* * *
22566703 ATGATCTTACAGTGACTATCATCTCGTAGC
65 ATGATCTTACACTAACTATCATCTCATAGC
* * * *
22566733 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGCCAATG-CATGTCCCAAAC
1 CGATGCCATGTCCTAGACATGTCTTACACTAGCTCACATCTC-AAGCCAATGCCATGTCCCAAAC
*
22566796 ATG-TCTTACACTAACTCTCATCTCA-ATGC
65 ATGATCTTACACTAACTATCATCTCATA-GC
22566825 CGATGCCATGTCCTAGACATG
1 CGATGCCATGTCCTAGACATG
22566846 ATTTTATACT
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
91 1 0.01
92 25 0.26
93 45 0.47
94 19 0.20
95 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (94 bp):
CGATGCCATGTCCTAGACATGTCTTACACTAGCTCACATCTCAAGCCAATGCCATGTCCCAAACA
TGATCTTACACTAACTATCATCTCATAGC
Found at i:22566899 original size:140 final size:140
Alignment explanation
Indices: 22566644--22566901 Score: 333
Period size: 140 Copynumber: 1.8 Consensus size: 140
22566634 GTGACGATGC
* * ** *
22566644 CATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCTAGACATGATC
1 CATGTCCCAAACATGGTCTTACACTAACTCATATCTCAAGCCGATGCCATGTCCTAGACATGATC
* * ***
22566709 TTACAGTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTC
66 TTACACTGACTACCATAAAGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTC
22566774 GAGGCCAATG
131 GAGGCCAATG
22566784 CATGTCCCAAACAT-GTCTTACACTAACTC-TCATCTCAATGCCGATGCCATGTCCTAGACATGA
1 CATGTCCCAAACATGGTCTTACACTAACTCAT-ATCTCAA-GCCGATGCCATGTCCTAGACATGA
* * * * *
22566847 TTTTATACTGGCTCCCATAAAGTTA-CCGATGCATGTCCCAGACATGTTTTACACT
64 TCTTACACTGACTACCATAAAG-TAGCCGATGCATGTCCCAGACATGTCTTACACT
22566902 GGCTCACATA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 20 0.20
140 77 0.77
141 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAACTCATATCTCAAGCCGATGCCATGTCCTAGACATGATC
TTACACTGACTACCATAAAGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTC
GAGGCCAATG
Found at i:22587878 original size:68 final size:67
Alignment explanation
Indices: 22587781--22587978 Score: 189
Period size: 68 Copynumber: 3.0 Consensus size: 67
22587771 ATTTTAATAG
* * *
22587781 TTTAATATTAAATTTAATTTAACACTTATCTTAAT-AATATTTTATTAATTTAATATTAAAATGA
1 TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAAT-A
22587845 TTA
65 TTA
* *
22587848 TCTTAATATTAAATTTAATTTAATTTTTATCTTGTAGATAAATATTCTATT-A--T--T-TT--A
1 T-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAATATTATATTAATTTAATATTAAA
**
22587905 ATACGA
62 ATATTA
* **
22587911 TTTAATATTAAATTTAATTAAATATTTATCTCGATAAATATTATATTAATTTAATATTAAAATTA
1 TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAA-TA
22587976 TTA
65 TTA
22587979 AGTTTAATTA
Statistics
Matches: 104, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
59 13 0.12
60 1 0.01
61 1 0.01
62 28 0.27
63 3 0.03
64 4 0.04
65 2 0.02
66 2 0.02
67 4 0.04
68 29 0.28
69 2 0.02
70 2 0.02
71 3 0.03
72 10 0.10
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (67 bp):
TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAATAT
TA
Found at i:22587919 original size:62 final size:59
Alignment explanation
Indices: 22587850--22587966 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
22587840 AATGATTATC
* * * *
22587850 TTAATATTAAATTTAATTTAATTTTTATCTTGTAGATAAATATTCTATTATTTTAATACGAT
1 TTAATATTAAATTTAATTAAATATTTATC---TAGATAAATATTATATTAATTTAATACGAT
*
22587912 TTAATATTAAATTTAATTAAATATTTATCTCGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATTAAATATTTATCTAGATAAATATTATATTAATTTAATA
22587967 TTAAAATTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 23 0.46
62 27 0.54
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATTAAATATTTATCTAGATAAATATTATATTAATTTAATACGAT
Found at i:22592575 original size:35 final size:35
Alignment explanation
Indices: 22592536--22592656 Score: 145
Period size: 35 Copynumber: 3.5 Consensus size: 35
22592526 TAGGTATGTA
*
22592536 CATATGTGATGTTATATCTAACTTGTATATTCAGC
1 CATATGTGATGATATATCTAACTTGTATATTCAGC
* * *
22592571 CATATGTGATGATATAT-TGAATTTGTAAATTTAGC
1 CATATGTGATGATATATCT-AACTTGTATATTCAGC
* * * * *
22592606 TACATGTGATGTTCTATCTAACTTGTATATTCATC
1 CATATGTGATGATATATCTAACTTGTATATTCAGC
22592641 CATATGTGATGATATA
1 CATATGTGATGATATA
22592657 ATGAACCTTG
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
34 1 0.01
35 66 0.97
36 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.43
Consensus pattern (35 bp):
CATATGTGATGATATATCTAACTTGTATATTCAGC
Found at i:22592738 original size:50 final size:50
Alignment explanation
Indices: 22592643--22592771 Score: 132
Period size: 50 Copynumber: 2.5 Consensus size: 50
22592633 TATTCATCCA
* * * * *
22592643 TATGTGATGATATAATGAACCTTGTATATTTGGCCATACATGTAAGTATT
1 TATGTGATGATATATTGGACCTTGTGTATTCGGCCATACAGGTAAGTATT
* ** *
22592693 TATGAGATGATATATTGGACCTTGTGTATTCGGTTATATAGGTAAGTATT
1 TATGTGATGATATATTGGACCTTGTGTATTCGGCCATACAGGTAAGTATT
* * *
22592743 TAAGTGGTGTTATATATTGGACTTTGTGT
1 TATGTGATG--ATATATTGGACCTTGTGT
22592772 TAAAGTATAA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 47 0.73
52 17 0.27
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (50 bp):
TATGTGATGATATATTGGACCTTGTGTATTCGGCCATACAGGTAAGTATT
Found at i:22594131 original size:24 final size:24
Alignment explanation
Indices: 22594095--22594141 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
22594085 CGTAGTGCCT
*
22594095 GTTCCCACACATGGGACAGCACCG
1 GTTCCCACACATGGGACAACACCG
**
22594119 GTTCCCATGCATGGGACAACACC
1 GTTCCCACACATGGGACAACACC
22594142 AGTTGAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.36, G:0.23, T:0.15
Consensus pattern (24 bp):
GTTCCCACACATGGGACAACACCG
Found at i:22599950 original size:122 final size:120
Alignment explanation
Indices: 22599735--22599959 Score: 362
Period size: 122 Copynumber: 1.9 Consensus size: 120
22599725 CCAAAATAAC
*
22599735 CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGCTTTCCTAATCTCGATTGAACACGGAATG
1 CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGCTTTCCTAATCTCGATTGAACACGAAATG
22599800 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAG
66 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAG
* * * *
22599855 CATGAGAATAAGCATAGTAATGTCATGGGTTTGAGG-TTTCCCTAATAACTCGATTTAACACGAA
1 CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGCTTT-CCTAAT--CTCGATTGAACACGAA
*
22599919 ATGTGTGATAACTAACCTAAGAATGCAAATTAAATGATAGA
63 ATGTATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
22599960 ATAATGAGCA
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
119 3 0.03
120 39 0.41
122 54 0.56
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (120 bp):
CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGCTTTCCTAATCTCGATTGAACACGAAATG
TATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAG
Found at i:22605181 original size:20 final size:20
Alignment explanation
Indices: 22605153--22605193 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22605143 AAAATAAGAT
*
22605153 ACACAAGGTCGATTTGATCA
1 ACACAAGGTCAATTTGATCA
*
22605173 ACACGAGGTCAATTTGATCA
1 ACACAAGGTCAATTTGATCA
22605193 A
1 A
22605194 ATAAATCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
ACACAAGGTCAATTTGATCA
Found at i:22607216 original size:35 final size:35
Alignment explanation
Indices: 22607088--22607232 Score: 121
Period size: 35 Copynumber: 4.1 Consensus size: 35
22607078 TAGGTATGTA
* * * *
22607088 CATATGTGATGTTATATCTAACTTGTATTTTCGAC
1 CATATGTGATGATATATCGAACTTGTATATTCGGC
* * * *
22607123 CATATGTGATGATATATTGAATTTGTAAATTTGGC
1 CATATGTGATGATATATCGAACTTGTATATTCGGC
* * * * * *
22607158 TACATGTGATGTTCTCTCTAACTTGTATATTCGGC
1 CATATGTGATGATATATCGAACTTGTATATTCGGC
* *
22607193 CATATGTGATGATATAAT-GAACTTTGTGTATTCGTC
1 CATATGTGATGATAT-ATCGAAC-TTGTATATTCGGC
22607229 CATA
1 CATA
22607233 CATGTAAGTA
Statistics
Matches: 82, Mismatches: 26, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
35 66 0.80
36 16 0.20
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (35 bp):
CATATGTGATGATATATCGAACTTGTATATTCGGC
Found at i:22615560 original size:31 final size:30
Alignment explanation
Indices: 22615522--22615580 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
22615512 CTTGCTGCAA
* *
22615522 TCTGGTGGCTTCGCCACATATATATATATGT
1 TCTGGTGGCCTAGCCACA-ATATATATATGT
*
22615553 TCTGGTGGCCTAGCCACAATATCTATAT
1 TCTGGTGGCCTAGCCACAATATATATAT
22615581 CTGGTGACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (30 bp):
TCTGGTGGCCTAGCCACAATATATATATGT
Found at i:22620556 original size:46 final size:45
Alignment explanation
Indices: 22620503--22620678 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
22620493 TATTTGGGCA
22620503 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
22620549 TCCGAACTCGTTGAGTTGAGTCCGTGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
22620596 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
22620642 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22620679 GCGAGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:22620658 original size:93 final size:93
Alignment explanation
Indices: 22620499--22620670 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
22620489 AGGATATTTG
* * *
22620499 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
22620564 TTGAGTCCGTGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
22620592 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
22620657 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
22620671 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:22635788 original size:57 final size:58
Alignment explanation
Indices: 22635727--22635835 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
22635717 TCTTGTTTCC
* * *
22635727 AACATATGCTCATA-AGAGCTTA-ATCAGGATTACCCGTCTGGGCTAAATCCTATCCAT
1 AACATATACTCA-AGAGAGCTTATATCAGGATTACCAGTCTAGGCTAAATCCTATCCAT
* *
22635784 AACATATACTCAAGAGGGCTTATATTAGGATTACCAGTCTAGGCTAAATCCT
1 AACATATACTCAAGAGAGCTTATATCAGGATTACCAGTCTAGGCTAAATCCT
22635836 TTCTGTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 1 0.02
57 18 0.40
58 26 0.58
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (58 bp):
AACATATACTCAAGAGAGCTTATATCAGGATTACCAGTCTAGGCTAAATCCTATCCAT
Found at i:22638808 original size:20 final size:19
Alignment explanation
Indices: 22638780--22638820 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
22638770 AGTTTAATTA
*
22638780 AACTTAATTAATCTAGTTT
1 AACTTAATTAATCAAGTTT
22638799 AACTTAAATTAATCAAGTTT
1 AACTT-AATTAATCAAGTTT
22638819 AA
1 AA
22638821 TTATGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (19 bp):
AACTTAATTAATCAAGTTT
Found at i:22652089 original size:40 final size:40
Alignment explanation
Indices: 22651995--22652139 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
22651985 TACTCGAATG
*
22651995 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
22652036 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
22652076 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
22652116 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
22652140 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:22660076 original size:40 final size:40
Alignment explanation
Indices: 22659982--22660126 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
22659972 TACTCGAATG
* * *
22659982 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGGTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
22660023 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
22660063 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
22660103 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
22660127 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.69
41 26 0.29
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:22662779 original size:42 final size:42
Alignment explanation
Indices: 22662720--22662803 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
22662710 TTTTTTTTTC
22662720 ATATCGACATAAGATATTTTCCTATTTGAGGCTAATTTTAAT
1 ATATCGACATAAGATATTTTCCTATTTGAGGCTAATTTTAAT
* * *
22662762 ATATCGACATAAGATATTTTCCTATTTGTGGTTGATTTTAAT
1 ATATCGACATAAGATATTTTCCTATTTGAGGCTAATTTTAAT
22662804 CTTCCTCTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (42 bp):
ATATCGACATAAGATATTTTCCTATTTGAGGCTAATTTTAAT
Found at i:22667318 original size:32 final size:32
Alignment explanation
Indices: 22667277--22667341 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
22667267 AAATTTAATG
22667277 TAAGTGTAAAGATAAAAATGATTAAACCTTCC
1 TAAGTGTAAAGATAAAAATGATTAAACCTTCC
22667309 TAAGTGTAAAGATAAAAATGATTAAACCTTCC
1 TAAGTGTAAAGATAAAAATGATTAAACCTTCC
22667341 T
1 T
22667342 TGGTGCTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (32 bp):
TAAGTGTAAAGATAAAAATGATTAAACCTTCC
Found at i:22675111 original size:23 final size:23
Alignment explanation
Indices: 22675085--22675129 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22675075 TGGGTATGTG
*
22675085 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
22675108 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
22675130 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:22676543 original size:13 final size:13
Alignment explanation
Indices: 22676527--22676553 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22676517 GTAAAAGTTA
22676527 CAAAAGTAAGTCT
1 CAAAAGTAAGTCT
22676540 CAAAAGTAAGTCT
1 CAAAAGTAAGTCT
22676553 C
1 C
22676554 TATTAGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (13 bp):
CAAAAGTAAGTCT
Found at i:22680584 original size:22 final size:23
Alignment explanation
Indices: 22680545--22680587 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
22680535 GAAGTCCTAC
*
22680545 CCATCCATCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
22680568 CCATCCAGCC-CTACACTCCA
1 CCATCCAGCCTCTACACTCCA
22680588 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.53, G:0.02, T:0.21
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:22680805 original size:27 final size:27
Alignment explanation
Indices: 22680774--22680825 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
22680764 TTCATACATA
* *
22680774 TCATAGGGGTATATCAGTCATTTTACC
1 TCATAGGGGCATAACAGTCATTTTACC
*
22680801 TCATAGGGGCATAACGGTCATTTTA
1 TCATAGGGGCATAACAGTCATTTTA
22680826 TCAAATTAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (27 bp):
TCATAGGGGCATAACAGTCATTTTACC
Found at i:22685573 original size:14 final size:15
Alignment explanation
Indices: 22685497--22685575 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
22685487 GTATCTTGGG
*
22685497 TTTCTTTATGCTGGA
1 TTTCTTTATTCTGGA
*
22685512 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
22685527 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
22685542 TTTCTCTT-TT-TGGA
1 TTTCT-TTATTCTGGA
*
22685556 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
22685570 TTTCTT
1 TTTCTT
22685576 ATTATATGTG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
13 2 0.04
14 18 0.33
15 33 0.60
16 2 0.04
ACGTcount: A:0.09, C:0.15, G:0.15, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:22688022 original size:46 final size:45
Alignment explanation
Indices: 22687959--22688134 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
22687949 TATTTGGGCA
*
22687959 TCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *** * *
22688005 TCCGAACTCGTTCAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
22688052 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-AG
* *
22688098 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22688135 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 65 0.63
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:22692038 original size:40 final size:40
Alignment explanation
Indices: 22691982--22692196 Score: 292
Period size: 40 Copynumber: 5.4 Consensus size: 40
22691972 ATGGTAACCA
* * *
22691982 GGCTAATTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATA-TCCG
* *
22692022 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCG
1 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCCG
22692062 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCCG
22692102 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCCG
* * * *
22692142 GGCTAATTCCCGAAGGCATTTGAGCGAG-TAGCTATAT-CT
1 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTA-CTATATCCG
* *
22692181 GGCTAAATCTCAAAGG
1 GGCTAAGTCCCAAAGG
22692197 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 143 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:22696051 original size:30 final size:30
Alignment explanation
Indices: 22696007--22696071 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
22695997 ACCCCTCCAT
* *
22696007 AAAACGTCTGTAATACCCTGCCAAACCCAG
1 AAAACGTCTATAATACCCTACCAAACCCAG
*
22696037 AAAATGTCTATAATACCCTACCAAACCCAG
1 AAAACGTCTATAATACCCTACCAAACCCAG
22696067 AAAAC
1 AAAAC
22696072 TTTGAATCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.31, G:0.09, T:0.17
Consensus pattern (30 bp):
AAAACGTCTATAATACCCTACCAAACCCAG
Found at i:22705236 original size:40 final size:40
Alignment explanation
Indices: 22705181--22705318 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
22705171 CGGATGATAA
22705181 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
22705221 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
22705261 CCGGGCTAAGTCCCAAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
22705301 CC-AGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
22705319 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.17
40 74 0.83
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:22709736 original size:30 final size:30
Alignment explanation
Indices: 22709692--22709750 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
22709682 TTTCGAGCCT
* *
22709692 AGGGGAAAAATGTAATTCTGCAAAGGTTTA
1 AGGGCAAAAATGTAATTCTGCAAAAGTTTA
* *
22709722 AGGGCAAAATTGTAATTTTGCAAAAGTTT
1 AGGGCAAAAATGTAATTCTGCAAAAGTTT
22709751 GAGTTAGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (30 bp):
AGGGCAAAAATGTAATTCTGCAAAAGTTTA
Found at i:22710759 original size:53 final size:54
Alignment explanation
Indices: 22710563--22710777 Score: 209
Period size: 54 Copynumber: 4.0 Consensus size: 54
22710553 TTGGTAAGAT
* * *
22710563 AAGGATATCATGTAAGACCATGCCAAGGCATGGCAATGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCAATAAGGC
* * * * * * *
22710617 AAGGAAATCATGTAAGCCCACGTCAAGACATGGCATTGATGAGTTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTT-CAATAAGGC
* * * * * *
22710672 AAAGG-TCCCATGTAAGACCATGCCAAGGCTTGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCAATAAGGC
* ** * *
22710725 AAGGATACCACGTAAGACCATATCAAGACATGGCAATGGTAAGTTCAAAAAGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCAATAAGG
22710778 AAAAGGTTCC
Statistics
Matches: 131, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
52 4 0.03
53 40 0.31
54 44 0.34
55 39 0.30
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCAATAAGGC
Found at i:22716386 original size:30 final size:31
Alignment explanation
Indices: 22716345--22716402 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
22716335 TTTTCGAGCC
22716345 TAGGGGAAAAATTGTAATTCTG-CAAAGGTT
1 TAGGGGAAAAATTGTAATTCTGCCAAAGGTT
* *
22716375 TAGGGGTAAAATTGTAATTTTGCCAAAG
1 TAGGGGAAAAATTGTAATTCTGCCAAAG
22716403 TTTGGGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (31 bp):
TAGGGGAAAAATTGTAATTCTGCCAAAGGTT
Found at i:22717334 original size:55 final size:54
Alignment explanation
Indices: 22717205--22717401 Score: 245
Period size: 54 Copynumber: 3.6 Consensus size: 54
22717195 TTGGTAAGAT
* * * *
22717205 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
22717259 AAGGAAATCATGTAAGACCATGTCAATACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
22717314 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
22717367 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
22717402 ATGGTAAGTT
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 41 0.33
55 41 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:22719580 original size:37 final size:37
Alignment explanation
Indices: 22719530--22719608 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
22719520 TTATTACGAA
* *
22719530 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
22719567 GTCTTACCCGGACAAAATTCCCACACGCAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
22719604 GTCTT
1 GTCTT
22719609 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:22719805 original size:47 final size:47
Alignment explanation
Indices: 22719742--22720325 Score: 536
Period size: 47 Copynumber: 12.7 Consensus size: 47
22719732 CACATTTATG
* * * * *
22719742 CACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCACAAATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
* ** *
22719789 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
* * * *
22719836 CACTTTCACATTCATCACATCGGCCATTA-G---TAT-AC-ACT-TT
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
* * * * *
22719876 CACATTCATCA--CATCGGCCATTAGG-C-CT------TATCACATATATA
1 CACTTTCA-CATTCATC--ACA-TCGGCCACTAGGCCCCATCACAAATATA
* * ** *
22719917 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
* ** *
22719964 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
* ** *
22720011 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
* ** *
22720058 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
* ** *
22720105 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
* * ** *
22720152 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
* ** *
22720199 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
* ** *
22720246 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
*
22720293 CACTTTCACATTCATCACATCGGCCATTAGGCC
1 CACTTTCACATTCATCACATCGGCCACTAGGCC
22720326 TTACTATCAT
Statistics
Matches: 491, Mismatches: 29, Indels: 34
0.89 0.05 0.06
Matches are distributed among these distances:
38 3 0.01
39 9 0.02
40 14 0.03
41 15 0.03
42 9 0.02
43 3 0.01
46 1 0.00
47 437 0.89
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CACTTTCACATTCATCACATCGGCCACTAGGCCCCATCACAAATATA
Found at i:22719871 original size:34 final size:34
Alignment explanation
Indices: 22719832--22719899 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
22719822 TTATCACATA
22719832 TATACACTTTCACATTCATCACATCGGCCATTAG
1 TATACACTTTCACATTCATCACATCGGCCATTAG
22719866 TATACACTTTCACATTCATCACATCGGCCATTAG
1 TATACACTTTCACATTCATCACATCGGCCATTAG
22719900 GCCTTATCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (34 bp):
TATACACTTTCACATTCATCACATCGGCCATTAG
Found at i:22720326 original size:47 final size:47
Alignment explanation
Indices: 22719866--22720328 Score: 899
Period size: 47 Copynumber: 9.9 Consensus size: 47
22719856 CGGCCATTAG
22719866 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
22719913 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
22719960 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
22720007 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
22720054 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
22720101 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
* *
22720148 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
22720195 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
22720242 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
22720289 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
22720329 CTATCATTTC
Statistics
Matches: 410, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 410 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:22723773 original size:40 final size:40
Alignment explanation
Indices: 22723728--22724042 Score: 211
Period size: 40 Copynumber: 7.9 Consensus size: 40
22723718 CGAATACACG
* * *
22723728 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * ** *
22723768 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
22723808 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
22723848 TCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGTTATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
22723888 GTAACTC-GCACAAATGC-CTTCGGGACTTAACCCGGATTTA
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
22723928 GTAACTC-GCACCAATGC-CTTTGGG-CTTAGCCCGGA-ATTA
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATA-TA
* * * *
22723967 GTAACTCA-CACAAATGC-CTTC-GGATCTTAGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATAT-A
* *
22724008 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
22724043 CATCATTCGA
Statistics
Matches: 224, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.01
39 30 0.13
40 174 0.78
41 18 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:22724026 original size:79 final size:81
Alignment explanation
Indices: 22723819--22724042 Score: 208
Period size: 79 Copynumber: 2.8 Consensus size: 81
22723809 CACTAGCACG
* * * * ** * *
22723819 AATGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGCTCTTCGAGACTTAGCCCGG
1 AATGC-CTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGC-CTTCGGGACTTAGCCCGG
* *
22723883 -TTATAGTAACTCGCACA
64 AATATAGTAACTCACACA
* * * *
22723900 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTTGGG-CTTAGCCCGGAA
1 AATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAA
22723964 T-TAGTAACTCACACA
66 TATAGTAACTCACACA
** * *
22723979 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAGCCCGG
22724042 A
64 A
22724043 CATCATTCGA
Statistics
Matches: 118, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.49
80 40 0.34
81 17 0.14
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAA
TATAGTAACTCACACA
Found at i:22724389 original size:29 final size:29
Alignment explanation
Indices: 22724350--22724428 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
22724340 CTTAATAATC
*
22724350 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
22724380 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
22724409 AGCCCGCACACTTAATGCCA
1 AACCCGCACACTTAGTGCCA
22724429 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:22724471 original size:43 final size:43
Alignment explanation
Indices: 22724410--22724512 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
22724400 TGCATTTCAA
*
22724410 GCCCGCACACTTAATGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
22724453 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
22724496 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
22724513 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:22726426 original size:37 final size:37
Alignment explanation
Indices: 22726365--22726443 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
22726355 TTATTACGAA
* *
22726365 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
*
22726402 GTCTTACCCGGACAAAAT-TCCCACACGAAGTCATCGG
1 GTCTTACCCAGACAAAATCT-CCACACGAAGTCATCGG
22726439 GTCTT
1 GTCTT
22726444 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
Found at i:22726640 original size:47 final size:47
Alignment explanation
Indices: 22726562--22726988 Score: 665
Period size: 47 Copynumber: 9.1 Consensus size: 47
22726552 CCCTTCGGGA
** * * * * * *
22726562 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
22726609 CCCGTCACAAATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22726656 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
22726703 CTTATTACATATATACACTTTCAAATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22726750 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22726797 CTTATCACACATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
22726844 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
22726891 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
22726938 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
22726985 CTTA
1 CTTA
22726989 CTATCATTTC
Statistics
Matches: 356, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 356 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22744408 original size:20 final size:20
Alignment explanation
Indices: 22744385--22744422 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22744375 AAATAGTAGC
22744385 TCATCCACATAAACAGTACT
1 TCATCCACATAAACAGTACT
*
22744405 TCATCCATATAAACAGTA
1 TCATCCACATAAACAGTA
22744423 TTTATGCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (20 bp):
TCATCCACATAAACAGTACT
Found at i:22744613 original size:24 final size:24
Alignment explanation
Indices: 22744575--22744671 Score: 99
Period size: 24 Copynumber: 4.1 Consensus size: 24
22744565 AAGCTCTATT
* * *
22744575 GAGCT-AAAATGGTAAACTCTGAC
1 GAGCTGAAAATAGTAAGCTCTTAC
*
22744598 GAGCTGAAAATAGTAAGCTCTTAT
1 GAGCTGAAAATAGTAAGCTCTTAC
* * **
22744622 AAGCAG-AAATAGTAAGCTCCAAC
1 GAGCTGAAAATAGTAAGCTCTTAC
*
22744645 GAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTGAAAATAGTAAGCTCTTAC
22744669 GAG
1 GAG
22744672 ATGATATATC
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
23 23 0.40
24 35 0.60
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.21
Consensus pattern (24 bp):
GAGCTGAAAATAGTAAGCTCTTAC
Found at i:22744653 original size:23 final size:24
Alignment explanation
Indices: 22744596--22744664 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
22744586 GTAAACTCTG
**
22744596 ACGAGCTGAAAATAGTAAGCTCTT
1 ACGAGCTGAAAATAGTAAGCTCCA
** *
22744620 ATAAGCAG-AAATAGTAAGCTCCA
1 ACGAGCTGAAAATAGTAAGCTCCA
*
22744643 ACGAGCTGAAAACAGTAAGCTC
1 ACGAGCTGAAAATAGTAAGCTC
22744665 TTACGAGATG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (24 bp):
ACGAGCTGAAAATAGTAAGCTCCA
Found at i:22749020 original size:19 final size:19
Alignment explanation
Indices: 22748996--22749044 Score: 63
Period size: 14 Copynumber: 2.8 Consensus size: 19
22748986 TCACCTATCA
22748996 TGTTTTGTAAGTATGCAAT
1 TGTTTTGTAAGTATGCAAT
22749015 TG-TTT-T--GTA-GCAAT
1 TGTTTTGTAAGTATGCAAT
22749029 TGTTTTGTAAGTATGC
1 TGTTTTGTAAGTATGC
22749045 GATTATATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
14 7 0.28
15 6 0.24
16 1 0.04
17 1 0.04
18 6 0.24
19 4 0.16
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.49
Consensus pattern (19 bp):
TGTTTTGTAAGTATGCAAT
Found at i:22752735 original size:27 final size:27
Alignment explanation
Indices: 22752677--22752737 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 27
22752667 TTTATCCCTA
* *
22752677 TCAAAATTTTGACGATTTTACCCTTGG
1 TCAAATTTTTGACGATTTTACCCCTGG
22752704 T-AAATTTTTGACGATTTTACCCCTGG
1 TCAAATTTTTGACGATTTTACCCCTGG
22752730 TCAAATTT
1 TCAAATTT
22752738 CAAGAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 24 0.77
27 7 0.23
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (27 bp):
TCAAATTTTTGACGATTTTACCCCTGG
Found at i:22752902 original size:6 final size:6
Alignment explanation
Indices: 22752886--22752920 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
22752876 TGCAAATAGA
* *
22752886 TCATTT CCATTT TCATTT TCATTT TCATTT CCATT
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATT
22752921 GTTGGAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (6 bp):
TCATTT
Found at i:22752903 original size:12 final size:12
Alignment explanation
Indices: 22752886--22752920 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
22752876 TGCAAATAGA
22752886 TCATTTCCATTT
1 TCATTTCCATTT
*
22752898 TCATTTTCATTT
1 TCATTTCCATTT
22752910 TCATTTCCATT
1 TCATTTCCATT
22752921 GTTGGAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:22754655 original size:31 final size:31
Alignment explanation
Indices: 22754597--22754656 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
22754587 AATAAATTTA
* * *
22754597 TAAAAACACATATTAAAAATTTTAATAATAT
1 TAAAAACACATATAAAAAAATTCAATAATAT
22754628 TAAAAA-ACATATAAAAAGAATTCAATAAT
1 TAAAAACACATATAAAAA-AATTCAATAAT
22754657 GTTTCTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.30
Consensus pattern (31 bp):
TAAAAACACATATAAAAAAATTCAATAATAT
Found at i:22755503 original size:18 final size:19
Alignment explanation
Indices: 22755466--22755503 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
22755456 GAAATTTCTT
* *
22755466 ATTCGAGTTGACTTAAATA
1 ATTCGAGTTAACTCAAATA
22755485 ATTCGAG-TAACTCAAATA
1 ATTCGAGTTAACTCAAATA
22755503 A
1 A
22755504 CTCAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (19 bp):
ATTCGAGTTAACTCAAATA
Found at i:22763716 original size:5 final size:5
Alignment explanation
Indices: 22763706--22763731 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22763696 AAAGAAATGG
22763706 GAAAA GAAAA GAAAA GAAAA GAAAA G
1 GAAAA GAAAA GAAAA GAAAA GAAAA G
22763732 TTAATGAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Done.