Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold93
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: 1685797
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 216 characters in sequence are not A, C, G, or T
File 8 of 14
Found at i:924782 original size:40 final size:43
Alignment explanation
Indices: 924746--924824 Score: 112
Period size: 40 Copynumber: 1.9 Consensus size: 43
924736 TTTAAATATC
924746 TATATTT-ATTATTCAAATTTA-TA-TTATTT-TTATAAATAA
1 TATATTTAATTATTCAAATTTATTATTTATTTATTATAAATAA
**
924785 TATATTTAATTATTTGAATTTATTATTTATTTATTATAAA
1 TATATTTAATTATTCAAATTTATTATTTATTTATTATAAA
924825 ATATAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 7 0.21
40 12 0.35
41 2 0.06
42 6 0.18
43 7 0.21
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (43 bp):
TATATTTAATTATTCAAATTTATTATTTATTTATTATAAATAA
Found at i:924963 original size:26 final size:26
Alignment explanation
Indices: 924934--925018 Score: 74
Period size: 26 Copynumber: 3.4 Consensus size: 26
924924 AATGTTATTT
924934 AATTTAAATTTGAATAATTAAATATG
1 AATTTAAATTTGAATAATTAAATATG
* *
924960 AATTTAAA-GTAAATAA-TAAA-A-G
1 AATTTAAATTTGAATAATTAAATATG
* *
924982 AATTTAAATTTTAGTATAATT--ATATA
1 AATTTAAA-TTT-GAATAATTAAATATG
925008 AATTTAAATTT
1 AATTTAAATTT
925019 AGATATTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
22 9 0.19
23 1 0.02
24 6 0.13
25 14 0.30
26 17 0.36
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (26 bp):
AATTTAAATTTGAATAATTAAATATG
Found at i:925036 original size:26 final size:26
Alignment explanation
Indices: 924967--925036 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
924957 ATGAATTTAA
924967 AGTA-AATAATAAAAGAATTTAAATTTT
1 AGTATAATAA-AAAA-AATTTAAATTTT
* * *
924994 AGTATAATTATATAAATTTAAA-TTT
1 AGTATAATAAAAAAAATTTAAATTTT
*
925019 AGATATTATAAAAAAAAT
1 AG-TATAATAAAAAAAAT
925037 ATAGATGGTC
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
25 5 0.15
26 19 0.56
27 6 0.18
28 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (26 bp):
AGTATAATAAAAAAAATTTAAATTTT
Found at i:926315 original size:6 final size:6
Alignment explanation
Indices: 926304--926368 Score: 130
Period size: 6 Copynumber: 10.8 Consensus size: 6
926294 AGACCCACCC
926304 CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG
1 CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG CATGGG
926352 CATGGG CATGGG CATGG
1 CATGGG CATGGG CATGG
926369 TTGATTTGGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.17, C:0.17, G:0.49, T:0.17
Consensus pattern (6 bp):
CATGGG
Found at i:926745 original size:22 final size:21
Alignment explanation
Indices: 926714--926755 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
926704 TATTTTTATT
926714 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
*
926735 TAAATATTAATTTTAAAATAT
1 TAAAT-TTAATTATAAAATAT
926756 TTTTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:927590 original size:26 final size:25
Alignment explanation
Indices: 927560--927610 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
927550 TTAGTAAAAG
*
927560 ATTTTAAATTTTTTATTATTTTTAAA
1 ATTTTAAATTATTTATT-TTTTTAAA
* *
927586 ATTTTCACTTATTTATTTTTTTAAA
1 ATTTTAAATTATTTATTTTTTTAAA
927611 CCAATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTTTAAATTATTTATTTTTTTAAA
Found at i:927597 original size:19 final size:18
Alignment explanation
Indices: 927561--927599 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
927551 TAGTAAAAGA
* *
927561 TTTTAAATTTTTTATTAT
1 TTTTAAAATTTTCATTAT
927579 TTTTAAAATTTTCACTTAT
1 TTTTAAAATTTTCA-TTAT
927598 TT
1 TT
927600 ATTTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAAATTTTCATTAT
Found at i:930778 original size:71 final size:71
Alignment explanation
Indices: 930657--930797 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 71
930647 ATTAAAATAC
*
930657 TTGTTTGATTTTCCTGCTCTTATGTTTCAACATCTATGTTCTTAGAAATTGTCTGATTTAGGTAT
1 TTGTCTGATTTTCCTGCTCTTATGTTTCAACATCTATGTTCTTAGAAATTGTCTGATTTAGGTAT
930722 TTGTTT
66 TTGTTT
*
930728 TTGTCTGATTTTCCTGCTCTTATGTTTCAACATCTATGTTCTTGGAAATTGTCTGATTTAGGTAT
1 TTGTCTGATTTTCCTGCTCTTATGTTTCAACATCTATGTTCTTAGAAATTGTCTGATTTAGGTAT
930793 TTGTT
66 TTGTT
930798 GGACGTATGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.52
Consensus pattern (71 bp):
TTGTCTGATTTTCCTGCTCTTATGTTTCAACATCTATGTTCTTAGAAATTGTCTGATTTAGGTAT
TTGTTT
Found at i:935464 original size:27 final size:29
Alignment explanation
Indices: 935434--935494 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
935424 ATAATAATTT
* *
935434 TTTTTAT-CATATATTTAATAGTTAAA-A
1 TTTTTATACATATAGTAAATAGTTAAACA
*
935461 TTTTT-TACATCTAGTAAATAGTTAAACA
1 TTTTTATACATATAGTAAATAGTTAAACA
935489 TTTTTA
1 TTTTTA
935495 ATTTATTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.04
27 21 0.75
28 6 0.21
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.51
Consensus pattern (29 bp):
TTTTTATACATATAGTAAATAGTTAAACA
Found at i:936631 original size:80 final size:79
Alignment explanation
Indices: 936465--936748 Score: 353
Period size: 79 Copynumber: 3.6 Consensus size: 79
936455 TTCTCCAATG
** * * *
936465 GTGAAAAATCGATGTTTTGAAAATAAAATTAGGGGTTGGAGTATCCCCTCGAAAATAACGAGTTT
1 GTGAAAAATCGATGTTTTGAAAATAAAA-CCGAGGTTGGAGTATCCCCTCGGAAATAACGAGGTT
*
936530 GGAGTATCCTCGATT
65 GGAGTATCCCCGATT
* * *
936545 GTGAAAAATCGATGTTTT-AGAAATAAAGCTGAGGTTGGAGTATCCCCTTGGAAATAAC-AGGGT
1 GTGAAAAATCGATGTTTTGA-AAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAACGA-GGT
936608 TGGAGTATCCCCGATT
64 TGGAGTATCCCCGATT
* *
936624 GTGGAAAATC-AGTGTTTTAGAAACA-AAAACCGAGGTTGGAGTAT-CCCTCAGAAATAACGAGG
1 GTGAAAAATCGA-TGTTTT-GAAA-ATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAACGAGG
* *
936686 TTGGAGTATTCCCGATG
63 TTGGAGTATCCCCGATT
*
936703 GTGAAAAATCGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCC
1 GTGAAAAATCGATGTTTTGAAAATAAAACCGAGGTTGGAGTATCCC
936749 TGATTGTGAA
Statistics
Matches: 177, Mismatches: 17, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 25 0.14
79 104 0.59
80 45 0.25
81 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
GTGAAAAATCGATGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAACGAGGTTG
GAGTATCCCCGATT
Found at i:936758 original size:51 final size:50
Alignment explanation
Indices: 936681--936796 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 50
936671 TCAGAAATAA
*
936681 CGAGGTTGGAGTATTCCCGATGGTGAAAAATCGGTGTTTTGAAAATAAAAC
1 CGAGGTTGGAGTA-TCCCGATGGTGAAAAATCGATGTTTTGAAAATAAAAC
* * *
936732 CGAGGTTGGAGTATCCCTGATTGTGAAAAATTGATGTTTTGGAAATAAAAC
1 CGAGGTTGGAGTATCCC-GATGGTGAAAAATCGATGTTTTGAAAATAAAAC
* * *
936783 TGGGGTTTGAGTAT
1 CGAGGTTGGAGTAT
936797 TCCTTCGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 4 0.07
51 53 0.93
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (50 bp):
CGAGGTTGGAGTATCCCGATGGTGAAAAATCGATGTTTTGAAAATAAAAC
Found at i:936869 original size:286 final size:289
Alignment explanation
Indices: 936465--937034 Score: 785
Period size: 286 Copynumber: 2.0 Consensus size: 289
936455 TTCTCCAATG
* *
936465 GTGAAAAATCGATGTTTTGAAAATAAAATTAGGGGTTGGAGTATCCCCTCGAAAATAACGAGTTT
1 GTGAAAAATCGATGTTTTGAAAATAAAACTAGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTT
* * *
936530 GGAGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAGCTGAGGTTGGAGTATCCCCTTG
66 GGAGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTTA
* *
936595 GAAATAACAGGGTTGGAGTATCCCCGATTGTGGAAAATCAGTGTTTTAGAAACAAAAACCGAGGT
131 GAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAA-AAAAACCGAGGT
* *
936660 TGGAGTA-TCCCTCAGAAATAACGAGGTTGGAGTATTCCC-GATGGTGAAAAATCGG-TGTTTTG
195 TGGAGTATTCCCTCAGAAATAACGAGGTTGGAGTA-TCCCTGATGGTGAAAAATCGGCGGTTTAG
*
936722 AAAATAAAACCGAGGTTGGAGTATCCCTGATT
259 -AAACAAAACCGAGGTTGGAGTATCCCTGATT
* * * * * *
936754 GTGAAAAATTGATGTTTTGGAAATAAAACT-GGGGTTTGAGTATTCCTTCGAAAATAA-TAGGTT
1 GTGAAAAATCGATGTTTTGAAAATAAAACTAGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTT
* * **
936817 GTAGTAT-CTCGATTGTGAAAAATCGATGTTTT-GAAAATAAAACCGGGGTTGGAGTATCTTCTT
66 GGAGTATCCTCGATTGTGAAAAATCGATGTTTTAG-AAATAAAACCGAGGTTGGAGTATCCCCTT
* * * * * * *
936880 AGAAATAACGGGGTTTGAGTATCCCTGATGGTGAAAAATCAGTGTTTTGGAAATAAAATCGGGGT
130 AGAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAAAAAAACCGAGGT
*
936945 TGGAGTATTCCCTCAGAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCGGCGGTTTAGA
195 TGGAGTATTCCCTCAGAAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATCGGCGGTTTAGA
* *
937010 AACAAAATCGGGGTTGGAGTATCCC
260 AACAAAACCGAGGTTGGAGTATCCC
937035 CTCGAAAATA
Statistics
Matches: 247, Mismatches: 30, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
285 21 0.09
286 160 0.65
287 15 0.06
288 24 0.10
289 27 0.11
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (289 bp):
GTGAAAAATCGATGTTTTGAAAATAAAACTAGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTT
GGAGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTTA
GAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAAAAAAACCGAGGTT
GGAGTATTCCCTCAGAAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATCGGCGGTTTAGAA
ACAAAACCGAGGTTGGAGTATCCCTGATT
Found at i:936870 original size:128 final size:130
Alignment explanation
Indices: 936604--936874 Score: 345
Period size: 128 Copynumber: 2.1 Consensus size: 130
936594 GGAAATAACA
*
936604 GGGTTGGAGTATCCCCGATTGTGGAAAATCAGTGTTTTAGAAACAAAAACCGAGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTAGAAACAAAAACCGAGGTTGGAGTATC
*
936669 CCTCAGAAATAACGAGGTTGGAGTATTCCCGATGGTGAAAAATCGGTGTTTTGAAAATAAAACCG
66 CCTCAGAAATAACGAGGTTGGAGTATTCCCGATGGTGAAAAATCGATGTTTTGAAAATAAAACCG
* * * * * * * *
936734 AGGTTGGAGTATCCCTGATTGTGAAAAAT-TGATGTTTTGGAAA-TAAAACTGGGGTTTGAGTAT
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAG-TGTTTTAGAAACAAAAACCGAGGTTGGAGTA-
* * * * *
936797 TCCTTC-GAAAATAA-TAGGTTGTAGTA-TCTCGATTGTGAAAAATCGATGTTTTGAAAATAAAA
64 TCCCTCAG-AAATAACGAGGTTGGAGTATTCCCGATGGTGAAAAATCGATGTTTTGAAAATAAAA
936859 CCG
128 CCG
936862 GGGTTGGAGTATC
1 GGGTTGGAGTATC
936875 TTCTTAGAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
128 48 0.39
129 27 0.22
130 47 0.39
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (130 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTAGAAACAAAAACCGAGGTTGGAGTATC
CCTCAGAAATAACGAGGTTGGAGTATTCCCGATGGTGAAAAATCGATGTTTTGAAAATAAAACCG
Found at i:936928 original size:207 final size:210
Alignment explanation
Indices: 936523--936958 Score: 566
Period size: 207 Copynumber: 2.1 Consensus size: 210
936513 TCGAAAATAA
* *
936523 CGAGTTTGGAGTAT-CCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAGCTGAGGTTGGAGTA
1 CGAGGTTGGAGTATCCCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAACTGAGGTTGGAGTA
* *
936587 TCCCCTTGGAAATAACAGGGTTGGAGTATCCCCGATTGTGGAAAATCAGTGTTTTAGAAACAAAA
66 TCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTAGAAACAAAA
*
936652 ACCGAGGTTGGAGTATCCCTCAGAAATAACGAGGTTGGAGTATTCCCGATGGTGAAAAATCGGTG
131 ACCGAGGTTGGAGTATCCCTCAGAAATAACGAGGTTGGAGTATTCCCGATGGTGAAAAATCAGTG
936717 TTTTGAAAATAAAAC
196 TTTTGAAAATAAAAC
* * * *
936732 CGAGGTTGGAGTATCCCT-GATTGTGAAAAATTGATGTTTTGGAAATAAAACTGGGGTTTGAGTA
1 CGAGGTTGGAGTATCCCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAACTGAGGTTGGAGTA
* * * *
936796 T-TCCTTCGAAAATAATA-GGTTGTAGTAT-CTCGATTGTGAAAAATC-GATGTTTT-GAAA-AT
66 TCCCCTT-GAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCAG-TGTTTTAGAAACA-
* * * * *
936855 AAAACCGGGGTTGGAGTATCTTCTTAGAAATAACGGGGTTTGAGTA-TCCCTGATGGTGAAAAAT
128 AAAACCGAGGTTGGAGTATC-CCTCAGAAATAACGAGGTTGGAGTATTCCC-GATGGTGAAAAAT
* *
936919 CAGTGTTTTGGAAATAAAAT
191 CAGTGTTTTGAAAATAAAAC
*
936939 CGGGGTTGGAGTATTCCCTC
1 CGAGGTTGGAGTA-TCCCTC
936959 AGAAATAACG
Statistics
Matches: 198, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
205 1 0.01
206 28 0.14
207 84 0.42
208 19 0.10
209 63 0.32
210 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (210 bp):
CGAGGTTGGAGTATCCCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAACTGAGGTTGGAGTA
TCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTAGAAACAAAA
ACCGAGGTTGGAGTATCCCTCAGAAATAACGAGGTTGGAGTATTCCCGATGGTGAAAAATCAGTG
TTTTGAAAATAAAAC
Found at i:936936 original size:79 final size:79
Alignment explanation
Indices: 936735--937216 Score: 475
Period size: 79 Copynumber: 6.1 Consensus size: 79
936725 ATAAAACCGA
* * * *
936735 GGTTGGAGTATCCCTGATTGTGAAAAAT-TGATGTTTTGGAAATAAAACTGGGGTTTGAGTAT-T
1 GGTTGGAGTATCCCTGATGGTGAAAAATCAG-TGTTTTGGAAATAAAACCGGGGTTGGAGTATCT
* **
936798 CCTTCGAAAATAA-TA
65 CCTTAG-AAATAACGG
* * * *
936813 GGTTGTAGTATCTC-GATTGTGAAAAATC-GATGTTTTGAAAATAAAACCGGGGTTGGAGTATCT
1 GGTTGGAGTATCCCTGATGGTGAAAAATCAG-TGTTTTGGAAATAAAACCGGGGTTGGAGTATCT
*
936876 TCTTAGAAATAACGG
65 CCTTAGAAATAACGG
* *
936891 GGTTTGAGTATCCCTGATGGTGAAAAATCAGTGTTTTGGAAATAAAATCGGGGTTGGAGTAT-TC
1 GGTTGGAGTATCCCTGATGGTGAAAAATCAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCT-
*
936955 CCTCAGAAATAACGG
65 CCTTAGAAATAACGG
* * * * * *
936970 GGTTGGAGTATCCCTGATGGTGAAAAATCGGCGGTTTAGAAACAAAATCGGGGTTGGAGTATC-C
1 GGTTGGAGTATCCCTGATGGTGAAAAATCAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCTC
* * *
937034 CCTCGAAAATAATGG
66 CTTAG-AAATAACGG
* * ** **
937049 GATTGGAGTAT-CCTCGATTGT-AGAAAATCAGGTGTTTTGGAAATAAAATTGAAGTTGGAGTAT
1 GGTTGGAGTATCCCT-GATGGTGA-AAAATCA-GTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
* * *
937112 CCCCTCAAAAATAA-GG
63 CTCCTTAGAAATAACGG
* **
937128 GGTTGGAGTATCCCTGATGGTGAAAAATCAATGTTTT-GAAATAAAACCGGAATTGGAGTATC-C
1 GGTTGGAGTATCCCTGATGGTGAAAAATCAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCTC
937191 CTTTAGAAATAACGG
66 C-TTAGAAATAACGG
937206 GGTTGGAGTAT
1 GGTTGGAGTAT
937217 TCGCAATGGT
Statistics
Matches: 338, Mismatches: 50, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
76 2 0.01
77 78 0.23
78 55 0.16
79 164 0.49
80 37 0.11
81 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (79 bp):
GGTTGGAGTATCCCTGATGGTGAAAAATCAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCTC
CTTAGAAATAACGG
Found at i:938732 original size:3 final size:3
Alignment explanation
Indices: 938724--938748 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
938714 TTCATAAAAT
938724 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
938749 AATGATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:942200 original size:9 final size:9
Alignment explanation
Indices: 942181--942213 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
942171 ATCTTTTCAT
942181 AAAAT-ATA
1 AAAATAATA
942189 AAAATAATA
1 AAAATAATA
942198 AAAATAATA
1 AAAATAATA
*
942207 ATAATAA
1 AAAATAA
942214 AATGATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAATAATA
Found at i:942204 original size:15 final size:16
Alignment explanation
Indices: 942179--942216 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
942169 ATATCTTTTC
942179 ATAAAATATAAAAATA
1 ATAAAATATAAAAATA
*
942195 ATAAAA-ATAATAATA
1 ATAAAATATAAAAATA
942210 ATAAAAT
1 ATAAAAT
942217 GATATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAATATAAAAATA
Found at i:942875 original size:8 final size:8
Alignment explanation
Indices: 942862--942903 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
942852 TAATTAAAAT
942862 AAAATATA
1 AAAATATA
*
942870 AAAATAAA
1 AAAATATA
942878 AAAATGATA
1 AAAAT-ATA
942887 AAAATA-A
1 AAAATATA
942894 AATAATATA
1 AA-AATATA
942903 A
1 A
942904 TTAATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 3 0.10
8 17 0.59
9 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (8 bp):
AAAATATA
Found at i:942889 original size:17 final size:16
Alignment explanation
Indices: 942862--942903 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
942852 TAATTAAAAT
942862 AAAATATAAAAATAAA
1 AAAATATAAAAATAAA
942878 AAAATGATAAAAATAAA
1 AAAAT-ATAAAAATAAA
*
942895 ATAATATAA
1 AAAATATAA
942904 TTAATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAATATAAAAATAAA
Found at i:942895 original size:35 final size:36
Alignment explanation
Indices: 942830--942898 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
942820 ATAATTATGT
* *
942830 TATAAAACATAAAAAAACTAATTAATTAAAATAAAA
1 TATAAAACATAAAAAAACTAATAAAATAAAATAAAA
*
942866 TATAAAA-ATAAAAAAA-TGATAAAAATAAAATAA
1 TATAAAACATAAAAAAACTAAT-AAAATAAAATAA
942899 TATAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 3 0.10
35 19 0.66
36 7 0.24
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.23
Consensus pattern (36 bp):
TATAAAACATAAAAAAACTAATAAAATAAAATAAAA
Found at i:942910 original size:4 final size:4
Alignment explanation
Indices: 942896--942947 Score: 77
Period size: 4 Copynumber: 12.8 Consensus size: 4
942886 AAAAATAAAA
* *
942896 TAAT ATAAT TAAT TAAT TAAA AAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT -TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
942945 TAA
1 TAA
942948 GTAACTTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
4 39 0.91
5 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (4 bp):
TAAT
Found at i:945475 original size:19 final size:19
Alignment explanation
Indices: 945448--945484 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
945438 CAGTACATAG
*
945448 AAAAGAAAAAAAGGAAAAA
1 AAAAAAAAAAAAGGAAAAA
*
945467 AAAAAAAAAAAAGTAAAA
1 AAAAAAAAAAAAGGAAAA
945485 GCCGCTCTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAAAGGAAAAA
Found at i:950072 original size:22 final size:22
Alignment explanation
Indices: 950047--950090 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
950037 ATAAAGAATT
950047 ATTACAAAAGAAAAATA-ATAAC
1 ATTA-AAAAGAAAAATATATAAC
* *
950069 ATTAAAAATACAAATATATAAC
1 ATTAAAAAGAAAAATATATAAC
950091 TTGCAGTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (22 bp):
ATTAAAAAGAAAAATATATAAC
Found at i:951201 original size:13 final size:13
Alignment explanation
Indices: 951183--951208 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
951173 CAATTTTTTG
951183 TGTATCGATACAT
1 TGTATCGATACAT
951196 TGTATCGATACAT
1 TGTATCGATACAT
951209 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:951293 original size:20 final size:20
Alignment explanation
Indices: 951268--951340 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
951258 CAACTTTTTT
951268 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
951288 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
951309 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
951329 ATGTATCGATAC
1 ATGTATCGATAC
951341 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:951306 original size:41 final size:41
Alignment explanation
Indices: 951247--951340 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
951237 CTGCCAAGAA
*
951247 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
951288 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
951329 ATGTATCGATAC
1 ATGTATCGATAC
951341 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:951322 original size:21 final size:21
Alignment explanation
Indices: 951247--951322 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
951237 CTGCCAAGAA
* *
951247 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
951268 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
951288 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
951309 ATGTATCGATACAT
1 ATGTATCGATACAT
951323 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:952018 original size:16 final size:16
Alignment explanation
Indices: 951997--952030 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
951987 CATTTCTTGA
*
951997 TAGCAATGCTTTTTGG
1 TAGCAATGCTCTTTGG
952013 TAGCAATGCTCTTTGG
1 TAGCAATGCTCTTTGG
952029 TA
1 TA
952031 ATAAGACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.41
Consensus pattern (16 bp):
TAGCAATGCTCTTTGG
Found at i:952234 original size:110 final size:110
Alignment explanation
Indices: 952038--952266 Score: 386
Period size: 110 Copynumber: 2.1 Consensus size: 110
952028 GTAATAAGAC
* * * *
952038 TCTCTGGTGATGATATTCCTTGGCAAAAAAGCTCATCCATACATGCACAATAGCACTCTAGAGCT
1 TCTCTAGTGATGACATTCCTCGGCAAAAAAGCTCATCCATACATGCACAATAGCACTCTAAAGCT
* * *
952103 TTAGTGCTCCTATACTCTAAAAATTTAGTGCTCTAATGTACTATT
66 TTAGTGCTCCTATACTATAAAAATTTAGTACTCCAATGTACTATT
952148 TCTCTAGTGATGACATTCCTCGGCAAAAAAGCTCATCCATACATGCACAATAGCACTCTAAAGCT
1 TCTCTAGTGATGACATTCCTCGGCAAAAAAGCTCATCCATACATGCACAATAGCACTCTAAAGCT
*
952213 TTAGTGCTCCTATACTATAAAAATTTAGTACTCCAATGTGCTATT
66 TTAGTGCTCCTATACTATAAAAATTTAGTACTCCAATGTACTATT
952258 TCTCTAGTG
1 TCTCTAGTG
952267 CTTAAGTGCT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 111 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (110 bp):
TCTCTAGTGATGACATTCCTCGGCAAAAAAGCTCATCCATACATGCACAATAGCACTCTAAAGCT
TTAGTGCTCCTATACTATAAAAATTTAGTACTCCAATGTACTATT
Found at i:952772 original size:21 final size:20
Alignment explanation
Indices: 952707--952779 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
952697 TTCTACAATC
* *
952707 TGTATCAATACAATAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
952728 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
***
952748 TGTATCGATACATGCTTGAAA
1 TGTATCGATACATAAGTG-AA
952769 TGTATCGATAC
1 TGTATCGATAC
952780 TAGACCCTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 23 0.50
21 23 0.50
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:956468 original size:33 final size:33
Alignment explanation
Indices: 956412--956477 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
956402 AAATTCCCAG
*
956412 ATGTATCGATACAAAGATCAATGTATCTATACA
1 ATGTATCGATACAAAGATCAATGTATCGATACA
**
956445 ATGTATCGATACATTGAAT-AATGTATCGATACA
1 ATGTATCGATACAAAG-ATCAATGTATCGATACA
956478 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTATCGATACA
Found at i:957390 original size:49 final size:49
Alignment explanation
Indices: 957238--957758 Score: 300
Period size: 49 Copynumber: 11.1 Consensus size: 49
957228 TGACAATGTA
* * * * ** *
957238 CTGATTCAAGGCCAGCGACATTAGACTTGAAGAAGAA--TGACAATATG
1 CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
** * * * * * *
957285 CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATG
1 CTGATTCAAGGCCAACGATATTGGACTTA--AA-GATCAAGGTGCCAATATG
* * ** *
957337 CTAATTCAAGGCCAACGATATCGGACTTAAAGATGTAGGTGCCAATGTG
1 CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
* *** * *
957386 CTAATTCAAGGCCAACGATATCAAACTTAAAGATGAAGGTGCCAATGTG
1 CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
** * * * * *
957435 CTGATTCAAGGATAACGACATTAGTCTT-AGGAACAAGGTGCCAATATG
1 CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
* * * *
957483 CTGATTCAAGGCTAGCGATATTGG-------GCTC---GTGCCAATGTG
1 CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
* * * * *
957522 CTGATTCAAGACCAGCGACATTAGTCTTAAAGA-CAAGGTGCCAATATG
1 CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
* * * * *
957570 CTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTG
1 CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
* * * *
957619 CTGATTCAAGGCTAACGACATTGGTCTTAAAGATAAAGGTGCCAATATG
1 CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
* * * * *
957668 TTGATTCAAGGCTAGCGATATTGGGC-T-----T----GTGCCAATGTG
1 CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
* * * *
957707 CTGATTCAAGGTCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATG
1 CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
957755 CTGA
1 CTGA
957759 GAGACTTTGG
Statistics
Matches: 374, Mismatches: 75, Indels: 49
0.75 0.15 0.10
Matches are distributed among these distances:
39 61 0.16
40 1 0.00
42 2 0.01
43 1 0.00
45 2 0.01
46 1 0.00
47 24 0.06
48 89 0.24
49 157 0.42
50 5 0.01
52 31 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CTGATTCAAGGCCAACGATATTGGACTTAAAGATCAAGGTGCCAATATG
Found at i:957570 original size:87 final size:87
Alignment explanation
Indices: 957424--957758 Score: 377
Period size: 87 Copynumber: 3.7 Consensus size: 87
957414 AAAGATGAAG
* *
957424 GTGCCAATGTGCTGATTCAAGGA-TAACGACATTAGTCTT-AGGAACAAGGTGCCAATATGCTGA
1 GTGCCAATGTGCTGATTCAA-GACCAACGACATTAGTCTTAAAG-ACAAGGTGCCAATATGCTGA
*
957487 TTCAAGGCTAGCGATATTGGGCTC
64 TTCAAGGCTAGCGATATTGGGCTA
*
957511 GTGCCAATGTGCTGATTCAAGACCAGCGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGACCAACGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATT
* * *
957576 CAAGGCCAGCGATATCGGACTTAAAGATGAA
66 CAAGGCTAGCGATATTGG-------GCT--A
* * * * *
957607 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGTTGA
1 G-TGCCAATGTGCTGATTCAAGACCAACGACATTAGTCTTAAAGA-CAAGGTGCCAATATGCTGA
*
957672 TTCAAGGCTAGCGATATTGGGCTT
64 TTCAAGGCTAGCGATATTGGGCTA
** * * *
957696 GTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGA
1 GTGCCAATGTGCTGATTCAAGACCAACGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGA
957759 GAGACTTTGG
Statistics
Matches: 213, Mismatches: 22, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
86 2 0.01
87 89 0.42
88 42 0.20
89 1 0.00
91 2 0.01
94 2 0.01
96 1 0.00
97 39 0.18
98 35 0.16
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGACCAACGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCTAGCGATATTGGGCTA
Found at i:957621 original size:136 final size:136
Alignment explanation
Indices: 957375--957642 Score: 313
Period size: 136 Copynumber: 2.0 Consensus size: 136
957365 AAAGATGTAG
* * * *
957375 GTGCCAATGTGCTAATTCAAGGCCAACGATATCAAACTTAAAGATGAAGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTAATTCAAGACCAACGACATCAAACTTAAAGATCAAGGTGCCAATATGCTGAT
* * * * * * *
957440 TCAAGGATAACGACATTAGTCTTAGGAACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATT
66 TCAAGGACAACGACATCAGACTTAAGAACAAGATGCCAATATGCTGATTCAAGGCTAACGACATT
957505 GGGCTC
131 GGGCTC
* * * **
957511 GTGCCAATGTGCTGATTCAAGACCAGCGACATTAGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTAATTCAAGACCAACGACATCAAACTTAAAGATCAAGGTGCCAATATGCTGAT
* * * * ** *
957575 TCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAACGACAT
66 TCAAGGACAACGACATCAGACTT-AAGAACAAGATGCCAATATGCTGATTCAAGGCTAACGACAT
957640 TGG
130 TGG
957643 TCTTAAAGAT
Statistics
Matches: 108, Mismatches: 23, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
135 34 0.31
136 74 0.69
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (136 bp):
GTGCCAATGTGCTAATTCAAGACCAACGACATCAAACTTAAAGATCAAGGTGCCAATATGCTGAT
TCAAGGACAACGACATCAGACTTAAGAACAAGATGCCAATATGCTGATTCAAGGCTAACGACATT
GGGCTC
Found at i:957684 original size:185 final size:184
Alignment explanation
Indices: 957373--957758 Score: 612
Period size: 185 Copynumber: 2.1 Consensus size: 184
957363 TTAAAGATGT
* * *
957373 AGGTGCCAATGTGCTAATTCAAGGCCAACGATATCAAACTTAAAGATGAAGGTGCCAATGTGCTG
1 AGGTGCCAATATGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATGCCAATGTGCTG
*
957438 ATTCAAGGATAACGACATTAGTCTTAGGAACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATA
66 ATTCAAGGATAACGACATTAGTCTTAAGAACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATA
957503 TTGGGCTCGTGCCAATGTGCTGATTCAAGACCAGCGACATTAGTCTTAAAGACA
131 TTGGGCTCGTGCCAATGTGCTGATTCAAGACCAGCGACATTAGTCTTAAAGACA
* **
957557 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTG
1 AGGTGCCAATATGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATGCCAATGTGCTG
* * *
957622 ATTCAAGGCTAACGACATTGGTCTTAAAGATA-AAGGTGCCAATATGTTGATTCAAGGCTAGCGA
66 ATTCAAGGATAACGACATTAGTCTT-AAGA-ACAAGGTGCCAATATGCTGATTCAAGGCTAGCGA
* ** * *
957686 TATTGGGCTTGTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATA
129 TATTGGGCTCGTGCCAATGTGCTGATTCAAGACCAGCGACATTAGTCTTAAAGACA
957742 AGGTGCCAATATGCTGA
1 AGGTGCCAATATGCTGA
957759 GAGACTTTGG
Statistics
Matches: 185, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
184 82 0.44
185 102 0.55
186 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (184 bp):
AGGTGCCAATATGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATGCCAATGTGCTG
ATTCAAGGATAACGACATTAGTCTTAAGAACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATA
TTGGGCTCGTGCCAATGTGCTGATTCAAGACCAGCGACATTAGTCTTAAAGACA
Found at i:958118 original size:14 final size:14
Alignment explanation
Indices: 958099--958155 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
958089 TAGGGTAAAA
958099 AGTTGACTTTTTAT
1 AGTTGACTTTTTAT
*
958113 AGTTGATTTTTCTAT
1 AGTTGACTTTT-TAT
* *
958128 AATTGACTTTTGAT
1 AGTTGACTTTTTAT
* *
958142 TGTTGATTTTTTAT
1 AGTTGACTTTTTAT
958156 TTTCAATTCC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.21, C:0.05, G:0.14, T:0.60
Consensus pattern (14 bp):
AGTTGACTTTTTAT
Found at i:959569 original size:13 final size:13
Alignment explanation
Indices: 959551--959590 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
959541 ACATATTGCT
*
959551 TTATATTGATACA
1 TTATATCGATACA
959564 TTATATCGATACA
1 TTATATCGATACA
959577 TTATATCGATACA
1 TTATATCGATACA
959590 T
1 T
959591 GTTCATTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (13 bp):
TTATATCGATACA
Found at i:966335 original size:19 final size:19
Alignment explanation
Indices: 966311--966394 Score: 81
Period size: 19 Copynumber: 4.7 Consensus size: 19
966301 AAGCTCAGAA
966311 GTATCGATACATGTTAATT
1 GTATCGATACATGTTAATT
966330 GTATCGATAC--G----TT
1 GTATCGATACATGTTAATT
*
966343 GTATCGATACATGTTCATT
1 GTATCGATACATGTTAATT
**
966362 GTATCGATACATGAAGAATT
1 GTATCGATACATG-TTAATT
*
966382 GTATCAATACATG
1 GTATCGATACATG
966395 AAACTGGTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
13 12 0.22
15 1 0.02
17 1 0.02
19 25 0.46
20 15 0.28
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (19 bp):
GTATCGATACATGTTAATT
Found at i:966346 original size:13 final size:13
Alignment explanation
Indices: 966328--966352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
966318 TACATGTTAA
966328 TTGTATCGATACG
1 TTGTATCGATACG
966341 TTGTATCGATAC
1 TTGTATCGATAC
966353 ATGTTCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACG
Found at i:966352 original size:32 final size:32
Alignment explanation
Indices: 966311--966371 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
966301 AAGCTCAGAA
966311 GTATCGATACATGTTAATTGTATCGATACGTT
1 GTATCGATACATGTTAATTGTATCGATACGTT
*
966343 GTATCGATACATGTTCATTGTATCGATAC
1 GTATCGATACATGTTAATTGTATCGATAC
966372 ATGAAGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (32 bp):
GTATCGATACATGTTAATTGTATCGATACGTT
Found at i:966384 original size:20 final size:20
Alignment explanation
Indices: 966341--966396 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
966331 TATCGATACG
***
966341 TTGTATCGATACATG-TTCA
1 TTGTATCGATACATGAAGAA
966360 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATGAAGAA
*
966380 TTGTATCAATACATGAA
1 TTGTATCGATACATGAA
966397 ACTGGTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATGAAGAA
Found at i:967367 original size:9 final size:9
Alignment explanation
Indices: 967353--967392 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
967343 CACACTTTTC
*
967353 ATTTTAGTT
1 ATTTTAGAT
967362 ATTTTAGAT
1 ATTTTAGAT
967371 ATTTTAGAT
1 ATTTTAGAT
*
967380 ATTCTAGAAT
1 ATTTTAG-AT
967390 ATT
1 ATT
967393 CATTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (9 bp):
ATTTTAGAT
Found at i:968420 original size:14 final size:14
Alignment explanation
Indices: 968401--968428 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
968391 TATGATTGAT
968401 TAGTTGCTAGTGAA
1 TAGTTGCTAGTGAA
968415 TAGTTGCTAGTGAA
1 TAGTTGCTAGTGAA
968429 CATAATAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TAGTTGCTAGTGAA
Found at i:971686 original size:21 final size:21
Alignment explanation
Indices: 971648--971710 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
971638 TGATATTCTT
* *
971648 GAAAAGAAATTAATTGAATTA
1 GAAAAGAAAATAAGTGAATTA
*
971669 GAAAAGAAAATGAGTGAATT-
1 GAAAAGAAAATAAGTGAATTA
*
971689 GCAAGAAGAGAATAA-TGAATTA
1 G-AA-AAGAAAATAAGTGAATTA
971711 ACTAAGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.56, C:0.02, G:0.21, T:0.22
Consensus pattern (21 bp):
GAAAAGAAAATAAGTGAATTA
Found at i:979375 original size:13 final size:13
Alignment explanation
Indices: 979356--979386 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
979346 ACAATTCATC
979356 ATGTATCGATACA
1 ATGTATCGATACA
*
979369 TTGTATCGATACA
1 ATGTATCGATACA
979382 ATGTA
1 ATGTA
979387 CCATGTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:979380 original size:33 final size:33
Alignment explanation
Indices: 979337--979401 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
979327 TTAGAAGCAA
* * *
979337 TGTATTGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCAATACAT
979370 TGTATCGATACAATGTACCATGTATCAATACA
1 TGTATCGATACAATGTACCATGTATCAATACA
979402 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCAATACAT
Found at i:979474 original size:19 final size:19
Alignment explanation
Indices: 979430--979501 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
979420 CTGCCAGTTT
**
979430 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
979450 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
979469 CATGTATCGAT-CAAAGCATA
1 CATGTATCGATACAATG-A-A
979489 -ATGTATCGATACA
1 CATGTATCGATACA
979502 TCTGGGTGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.09
19 24 0.52
20 18 0.39
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:980669 original size:18 final size:18
Alignment explanation
Indices: 980627--980661 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
980617 ATAAATGTGG
*
980627 GGGAGAACCTTTTTAAGA
1 GGGAGAACCTTTTCAAGA
980645 GGGAGAACCTTTTCAAG
1 GGGAGAACCTTTTCAAG
980662 GTGGAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (18 bp):
GGGAGAACCTTTTCAAGA
Found at i:981267 original size:21 final size:22
Alignment explanation
Indices: 981226--981267 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
981216 GACAAGTTTA
981226 AATGTTTTTCAAGTAAGAAATT
1 AATGTTTTTCAAGTAAGAAATT
981248 AATGTTTTTCAAGTAA-AAAT
1 AATGTTTTTCAAGTAAGAAAT
981268 GATTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (22 bp):
AATGTTTTTCAAGTAAGAAATT
Found at i:981388 original size:20 final size:20
Alignment explanation
Indices: 981365--981428 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
981355 ACACCCAGAT
981365 GTATCAATACAAATTTCTAA
1 GTATCAATACAAATTTCTAA
*
981385 GTATCGATAC----TT-T--
1 GTATCAATACAAATTTCTAA
*
981398 GTATCAATACAAATGTCTAA
1 GTATCAATACAAATTTCTAA
*
981418 GTATCGATACA
1 GTATCAATACA
981429 TTGTATCGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
13 9 0.27
15 1 0.03
16 2 0.06
17 1 0.03
18 1 0.03
20 19 0.58
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (20 bp):
GTATCAATACAAATTTCTAA
Found at i:981406 original size:33 final size:33
Alignment explanation
Indices: 981364--981474 Score: 177
Period size: 33 Copynumber: 3.4 Consensus size: 33
981354 CACACCCAGA
*
981364 TGTATCAATACAAATTTCTAAGTATCGATACTT
1 TGTATCAATACAAATTTCTAAGTATCGATACAT
*
981397 TGTATCAATACAAATGTCTAAGTATCGATACAT
1 TGTATCAATACAAATTTCTAAGTATCGATACAT
* *
981430 TGTATCGATACAAATTGCTAAGTATCGATACAT
1 TGTATCAATACAAATTTCTAAGTATCGATACAT
*
981463 TGTATCGATACA
1 TGTATCAATACA
981475 TCAAGAGTTG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 73 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (33 bp):
TGTATCAATACAAATTTCTAAGTATCGATACAT
Found at i:981436 original size:13 final size:13
Alignment explanation
Indices: 981418--981475 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
981408 AAATGTCTAA
981418 GTATCGATACATT
1 GTATCGATACATT
981431 GTATCGATACAAATTGCT
1 GTATCGATAC--A-T--T
981449 AAGTATCGATACATT
1 --GTATCGATACATT
981464 GTATCGATACAT
1 GTATCGATACAT
981476 CAAGAGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.58
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 10 0.26
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:983339 original size:189 final size:189
Alignment explanation
Indices: 983019--983383 Score: 588
Period size: 189 Copynumber: 1.9 Consensus size: 189
983009 AACAATACAT
* * *
983019 TTTCTTGTGGATTAGACTCTCTACTAAGTATTGTGCAAGGAAAGATATAGGTCATATTTTAGAAT
1 TTTCTTGTGGATTAGACTCTCTACTAAGTACTGTGCAAGAAAAGATATAGGTCATACTTTAGAAT
* * *
983084 ATTTTGGGTTATTAACTGGTCATGTGATTAACAATCTAGTTGGTCGACTAAAGCCTTTGGGGTTT
66 ATTTTGGGTTATTAACTGATCATATGATTAACAATCTAGTTGGTCGACTAAAGCCTTTAGGGTTT
*
983149 ATTGCTCTTGTTTTAGTGATTCGTCCGCATAAACATGAGCAATTTATTATGGATTAGAC
131 ATTGCTCTTGTTTTAGTGATTCGTCCACATAAACATGAGCAATTTATTATGGATTAGAC
* * * *
983208 TTTCTTGTGGATTAGACTTTCTATTGAGTACTGTGCGAGAAAAGATATAGGTTC-TACTTTAGAA
1 TTTCTTGTGGATTAGACTCTCTACTAAGTACTGTGCAAGAAAAGATATAGG-TCATACTTTAGAA
* *
983272 TATTTTGGGTTATTAACTGATCATATGATTAACAATCTATTTGGTCGGCTAAAGCCTTTAGGGTT
65 TATTTTGGGTTATTAACTGATCATATGATTAACAATCTAGTTGGTCGACTAAAGCCTTTAGGGTT
*
983337 TATTGCTCTTGTTTTGGTGATTCGTCCACATAAACATGAGCAATTTA
130 TATTGCTCTTGTTTTAGTGATTCGTCCACATAAACATGAGCAATTTA
983384 GTCATTTGGA
Statistics
Matches: 161, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
189 159 0.99
190 2 0.01
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.40
Consensus pattern (189 bp):
TTTCTTGTGGATTAGACTCTCTACTAAGTACTGTGCAAGAAAAGATATAGGTCATACTTTAGAAT
ATTTTGGGTTATTAACTGATCATATGATTAACAATCTAGTTGGTCGACTAAAGCCTTTAGGGTTT
ATTGCTCTTGTTTTAGTGATTCGTCCACATAAACATGAGCAATTTATTATGGATTAGAC
Found at i:985711 original size:13 final size:13
Alignment explanation
Indices: 985693--985717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
985683 CATAAAGTGT
985693 TGTATCGATACAA
1 TGTATCGATACAA
985706 TGTATCGATACA
1 TGTATCGATACA
985718 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:985715 original size:33 final size:33
Alignment explanation
Indices: 985673--985739 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
985663 TTCAACGATT
985673 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
985706 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
985739 T
1 T
985740 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:985857 original size:52 final size:50
Alignment explanation
Indices: 985793--985941 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 50
985783 ACCGATACAT
*
985793 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
985845 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
985897 TGTATCGATACACTATTAAATGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATTATT--ATGTATCGATACATGCAGGCAAATTT
985942 TCATATTTCA
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (50 bp):
TGTATCGATACATTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:988093 original size:27 final size:27
Alignment explanation
Indices: 988063--988132 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
988053 TTTATTCATC
*
988063 GGGGACACTCCAACCCCATTCCTCCGT
1 GGGGACACTCCAACCCCATTCCTCCGA
988090 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
988117 GGGGACAC-CCAACCCC
1 GGGGACACTCCAACCCC
988133 GTTTTCAATC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 8 0.19
27 34 0.81
ACGTcount: A:0.21, C:0.46, G:0.20, T:0.13
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTCCTCCGA
Found at i:992851 original size:1 final size:1
Alignment explanation
Indices: 992847--992922 Score: 71
Period size: 1 Copynumber: 76.0 Consensus size: 1
992837 AAAAGTGATG
* * * * * * * *
992847 AAAAAAAAAACAAAACAAAAAAAAAAACAAAAAAAACAAAAAACAAAAAAAACAAAAAAAAACAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
992912 ACAAAAAAAAA
1 AAAAAAAAAAA
992923 GTTGCAAAGG
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:992866 original size:16 final size:15
Alignment explanation
Indices: 992847--992905 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 15
992837 AAAAGTGATG
992847 AAAAAAAAAACAAAACA
1 AAAAAAAAAAC-AAA-A
992864 AAAAAAAAAACAAAA
1 AAAAAAAAAACAAAA
992879 AAAACAAAAAACAAAA
1 AAAA-AAAAAACAAAA
992895 AAAACAAAAAA
1 AAAA-AAAAAA
992906 AAACACACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.12
16 25 0.61
17 11 0.27
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAA
Found at i:992870 original size:9 final size:9
Alignment explanation
Indices: 992849--992907 Score: 88
Period size: 9 Copynumber: 6.9 Consensus size: 9
992839 AAGTGATGAA
992849 AAAAAAAAC
1 AAAAAAAAC
*
992858 AAAACAAA-
1 AAAAAAAAC
992866 AAAAAAAAC
1 AAAAAAAAC
992875 AAAAAAAAC
1 AAAAAAAAC
992884 --AAAAAAC
1 AAAAAAAAC
992891 AAAAAAAAC
1 AAAAAAAAC
992900 AAAAAAAA
1 AAAAAAAA
992908 ACACACAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
7 7 0.16
8 7 0.16
9 31 0.69
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:992878 original size:26 final size:26
Alignment explanation
Indices: 992849--992922 Score: 107
Period size: 25 Copynumber: 2.9 Consensus size: 26
992839 AAGTGATGAA
992849 AAAAAAAACAAAACAAAAAAAAAAAC
1 AAAAAAAACAAAACAAAAAAAAAAAC
*
992875 AAAAAAAACAAAA-AACAAAAAAAAC
1 AAAAAAAACAAAACAAAAAAAAAAAC
*
992900 AAAAAAAA-ACACACAAAAAAAAA
1 AAAAAAAACA-AAACAAAAAAAAA
992923 GTTGCAAAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 1 0.02
25 21 0.49
26 21 0.49
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAAACAAAACAAAAAAAAAAAC
Found at i:992899 original size:37 final size:39
Alignment explanation
Indices: 992847--992921 Score: 120
Period size: 37 Copynumber: 2.0 Consensus size: 39
992837 AAAAGTGATG
992847 AAAAAAAAAACAAAACAAAAAAAAA-A-ACAAAAAAAAC
1 AAAAAAAAAACAAAACAAAAAAAAACACACAAAAAAAAC
992884 AAAAAACAAAA-AAAACAAAAAAAAACACACAAAAAAAA
1 AAAAAA-AAAACAAAACAAAAAAAAACACACAAAAAAAA
992922 AGTTGCAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
37 20 0.57
38 5 0.14
39 10 0.29
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (39 bp):
AAAAAAAAAACAAAACAAAAAAAAACACACAAAAAAAAC
Found at i:992917 original size:21 final size:20
Alignment explanation
Indices: 992847--992919 Score: 86
Period size: 19 Copynumber: 3.9 Consensus size: 20
992837 AAAAGTGATG
992847 AAAAAAAA-AAC--AAAACA
1 AAAAAAAACAACAAAAAACA
992864 AAAAAAAA-AACAAAAAA-A
1 AAAAAAAACAACAAAAAACA
*
992882 ACAAAAAACAA-AAAAAACA
1 AAAAAAAACAACAAAAAACA
992901 AAAAAAAACACACAAAAAA
1 AAAAAAAACA-ACAAAAAA
992920 AAAGTTGCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
17 11 0.23
18 14 0.29
19 16 0.33
20 1 0.02
21 6 0.12
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAACAAAAAACA
Found at i:992919 original size:16 final size:17
Alignment explanation
Indices: 992847--992922 Score: 91
Period size: 17 Copynumber: 4.4 Consensus size: 17
992837 AAAAGTGATG
*
992847 AAAAAAAAAACAAAACA
1 AAAAAAAAAACAAAAAA
992864 AAAAAAAAAACAAAAAA
1 AAAAAAAAAACAAAAAA
992881 AACAAAAAACAA-AAAAAA
1 AA-AAAAAA-AACAAAAAA
* *
992899 CAAAAAAAAACACACAAA
1 AAAAAAAAAACA-AAAAA
992917 AAAAAA
1 AAAAAA
992923 GTTGCAAAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
16 2 0.04
17 25 0.49
18 22 0.43
19 2 0.04
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAAAAA
Found at i:993252 original size:6 final size:6
Alignment explanation
Indices: 993235--993291 Score: 73
Period size: 6 Copynumber: 9.7 Consensus size: 6
993225 AGGCTTACCT
* *
993235 AAAAA- AAAAAC AACAAC AAAAAC AAAAAC AAAAAA AACAAAC AAAAA-
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AA-AAAC AAAAAC
993282 AAAAAC AAAA
1 AAAAAC AAAA
993292 GAAGGAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
5 10 0.22
6 30 0.67
7 5 0.11
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:993264 original size:15 final size:16
Alignment explanation
Indices: 993235--993290 Score: 82
Period size: 15 Copynumber: 3.7 Consensus size: 16
993225 AGGCTTACCT
993235 AAAAAAA-AAACAACA
1 AAAAAAACAAACAACA
*
993250 ACAAAAACAAA-AACA
1 AAAAAAACAAACAACA
993265 AAAAAAACAAACAA-A
1 AAAAAAACAAACAACA
993280 AAAAAAACAAA
1 AAAAAAACAAA
993291 AGAAGGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
15 32 0.86
16 5 0.14
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAACAACA
Found at i:993267 original size:24 final size:24
Alignment explanation
Indices: 993237--993291 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
993227 GCTTACCTAA
993237 AAAAAAAACAACAACAAAAACAAAAAC
1 AAAAAAAAC-A-AACAAAAA-AAAAAC
993264 AAAAAAAACAAACAAAAAAAAAAC
1 AAAAAAAACAAACAAAAAAAAAAC
993288 AAAA
1 AAAA
993292 GAAGGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 10 0.36
25 8 0.29
26 1 0.04
27 9 0.32
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAAAACAAACAAAAAAAAAAC
Found at i:994136 original size:16 final size:17
Alignment explanation
Indices: 994111--994148 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
994101 TTGTGCTATA
* *
994111 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
994127 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
994144 ATCAT
1 ATCAT
994149 TATTTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:994274 original size:31 final size:31
Alignment explanation
Indices: 994236--994391 Score: 142
Period size: 31 Copynumber: 5.0 Consensus size: 31
994226 CAATTCTTCA
* *
994236 AATCTCTTTTCAACGCCCACGACTCAGTGGC
1 AATCTCTTTTCAAAGTCCACGACTCAGTGGC
*
994267 AATCTCTTCTCAAAGTCCACGACTCAGTGGC
1 AATCTCTTTTCAAAGTCCACGACTCAGTGGC
*
994298 -ATCCTTTTCTTCAAAGTCCACGACTCAGTGGC
1 AAT-CTCTT-TTCAAAGTCCACGACTCAGTGGC
*
994330 -AT-T-TTGTCTCAAAGTCCACGACTCAATGGC
1 AATCTCTT-T-TCAAAGTCCACGACTCAGTGGC
* * * * *
994360 -ATTTTTTCTTCAAAGCCCACAACTCCGTGGC
1 AATCTCTT-TTCAAAGTCCACGACTCAGTGGC
994391 A
1 A
994392 CCCTTTTAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
29 3 0.03
30 26 0.24
31 51 0.48
32 27 0.25
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (31 bp):
AATCTCTTTTCAAAGTCCACGACTCAGTGGC
Found at i:994344 original size:30 final size:31
Alignment explanation
Indices: 994252--994391 Score: 178
Period size: 31 Copynumber: 4.5 Consensus size: 31
994242 TTTTCAACGC
*
994252 CCACGACTCAGTGGCAATCTCTTC-TCAAAGT
1 CCACGACTCAGTGGC-ATCTTTTCTTCAAAGT
994283 CCACGACTCAGTGGCATCCTTTTCTTCAAAGT
1 CCACGACTCAGTGGCAT-CTTTTCTTCAAAGT
994315 CCACGACTCAGTGGCAT-TTTGTC-TCAAAGT
1 CCACGACTCAGTGGCATCTTT-TCTTCAAAGT
* * *
994345 CCACGACTCAATGGCATTTTTTCTTCAAAGC
1 CCACGACTCAGTGGCATCTTTTCTTCAAAGT
* *
994376 CCACAACTCCGTGGCA
1 CCACGACTCAGTGGCA
994392 CCCTTTTAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
30 30 0.31
31 44 0.45
32 24 0.24
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.28
Consensus pattern (31 bp):
CCACGACTCAGTGGCATCTTTTCTTCAAAGT
Found at i:994414 original size:28 final size:28
Alignment explanation
Indices: 994371--994588 Score: 132
Period size: 33 Copynumber: 7.0 Consensus size: 28
994361 TTTTTTCTTC
994371 AAAGCCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACCCTTTT
* *
994399 AAAGCCCACAATTCCGTGGCAACCTTTTTCTT
1 AAAGCCCACAACTCCGTGGC-ACC--CTT-TT
*
994431 CATAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 -AAAGCCCACAACTCCGTGGCA-C-----CCTTTT
*
994466 -AAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACCCTTTT
* * *
994493 AAAGCCCACAATTCCGTGGTAACCTTTTTCTTCTC
1 AAAGCCCACAACTCCGTGG-CACC-----CTT-TT
* *
994528 AAAGCCCACCACTCCGTGGCACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-----CCTTTT
*
994561 AAAGCCCACAACTCCGTGGCACTCTTTT
1 AAAGCCCACAACTCCGTGGCACCCTTTT
994589 TCCCTTTTCA
Statistics
Matches: 147, Mismatches: 19, Indels: 48
0.69 0.09 0.22
Matches are distributed among these distances:
27 6 0.04
28 39 0.27
29 6 0.04
31 2 0.01
32 4 0.03
33 59 0.40
34 7 0.05
35 20 0.14
36 2 0.01
38 1 0.01
39 1 0.01
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.30
Consensus pattern (28 bp):
AAAGCCCACAACTCCGTGGCACCCTTTT
Found at i:994438 original size:33 final size:33
Alignment explanation
Indices: 994271--994829 Score: 426
Period size: 34 Copynumber: 17.0 Consensus size: 33
994261 AGTGGCAATC
* * *
994271 TCTTCTCAAAGTCCACGACTCAGTGGCATCC-TTT
1 TCTT-TCAAAGCCCACAACTCCGTGGCA-CCTTTT
* * *
994305 TC-TTCAAAGTCCACGACTCAGTGGCA--TTTT
1 TCTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* * ** *
994335 GTC--TCAAAGTCCACGACTCAATGGCA-TTTTT
1 -TCTTTCAAAGCCCACAACTCCGTGGCACCTTTT
994366 TC-TTCAAAGCCCACAACTCCGTGGCACC----
1 TCTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* *
994394 -CTTTTAAAGCCCACAATTCCGTGGCAACCTTTT
1 TCTTTCAAAGCCCACAACTCCGTGGC-ACCTTTT
*
994427 TC-TTCATAGCCCACAACTCCGTGGCACCTTGTT
1 TCTTTCAAAGCCCACAACTCCGTGGCACCTT-TT
* * *
994460 CCTTT-TAAGTCCACAACTCCGTGGCACC----
1 TCTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* * *
994488 -CTTTTAAAGCCCACAATTCCGTGGTAACCTTTT
1 TCTTTCAAAGCCCACAACTCCGTGG-CACCTTTT
*
994521 TCTTCTCAAAGCCCACCACTCCGTGGCA-CTTTT
1 TCTT-TCAAAGCCCACAACTCCGTGGCACCTTTT
*
994554 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TC-TTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
*
994589 TCCCTTTTCAAAGCCCACAACTCCGTGACACCTTTT
1 T--C-TTTCAAAGCCCACAACTCCGTGGCACCTTTT
* *
994625 TCTTTTTAAAGCCCACCACTCCGTGGCACCTTTTTT
1 TC-TTTCAAAGCCCACAACTCCGTGGCACC--TTTT
* ** * * *
994661 TTTTTTTAAGTCCACGACCCCGTGGCACCTTGTT
1 TCTTTCAAAGCCCACAACTCCGTGGCACCTT-TT
*
994695 CCTTTCAAAGCCCACAACTTCC-TGGCACCTTGTT
1 TCTTTCAAAGCCCACAAC-TCCGTGGCACCTT-TT
*
994729 CCTTTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTCAAAGCCCACAACTCCGTGGCACCTTTT
*
994762 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TC-TTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
* * *
994797 TCCCTTT-TAAGTCCACAACTCCGTGGCATCTTT
1 T--CTTTCAAAGCCCACAACTCCGTGGCACCTTT
994830 CTCCCTTCCC
Statistics
Matches: 442, Mismatches: 47, Indels: 72
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.01
28 37 0.08
29 6 0.01
30 27 0.06
31 25 0.06
32 28 0.06
33 80 0.18
34 119 0.27
35 74 0.17
36 14 0.03
37 27 0.06
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (33 bp):
TCTTTCAAAGCCCACAACTCCGTGGCACCTTTT
Found at i:994765 original size:137 final size:136
Alignment explanation
Indices: 994395--994849 Score: 491
Period size: 137 Copynumber: 3.3 Consensus size: 136
994385 CGTGGCACCC
* * * * *
994395 TTTTAAAGCCCACAATTCCGTGGCAACCTTTTTC-TTCATAGCCCACAACTCCGTGGCACCTTGT
1 TTTTTAAGTCCACAACTCCGTGGC-ACCTTTTCCTTTCAAAGCCCACAACTCCGTGGCACCTTGT
* * * *
994459 TCCTTT-TAAGTCCACAACTCCGTGGCACC-----C-TTTTAAAGCCCACAATTCCGTGGTAACC
65 TCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGG-CACC
994517 -TTTTTCT
129 TTTTTTCT
* ** * * * * * *
994524 TCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTCAAAGCCCACAACTCCGTGGCAC-CTTGT
* *
994589 TCCCTTTTCAAAGCCCACAACTCCGTGACACCTTTTTCTTTTTAAAGCCCACCACTCCGTGGCAC
65 T-CC-TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC
*
994654 CTTTTTTTT
128 CTTTTTTCT
* *
994663 TTTTTAAGTCCACGACCCCGTGGCACCTTGTTCCTTTCAAAGCCCACAACTTCC-TGGCACCTTG
1 TTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTTCAAAGCCCACAAC-TCCGTGGCACCTTG
994727 TTCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA-C
64 TTCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
*
994791 TCTTTTTCC
129 T-TTTTTCT
* * *
994800 CTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCCAAAGCCCACA
1 TTTTTAAGTCCACAACTCCGTGGCACCTTT-T-CCTT-TCAAAGCCCACA
994850 CAAGTCGGTG
Statistics
Matches: 272, Mismatches: 36, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
128 6 0.02
129 43 0.16
130 5 0.02
131 2 0.01
132 3 0.01
133 20 0.07
136 3 0.01
137 88 0.32
138 10 0.04
139 65 0.24
140 24 0.09
141 3 0.01
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (136 bp):
TTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTCAAAGCCCACAACTCCGTGGCACCTTGTT
CCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTT
TTTTCT
Found at i:994836 original size:34 final size:34
Alignment explanation
Indices: 994371--994829 Score: 461
Period size: 34 Copynumber: 13.8 Consensus size: 34
994361 TTTTTTCTTC
994371 AAAGCCCACAACTCCGTGGCA-C-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
994399 AAAGCCCACAATTCCGTGGCAACCTTTTT-C-TTC
1 AAAGCCCACAACTCCGTGGC-ACCTTTTTCCTTTT
* *
994432 ATAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
*
994466 -AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
994493 AAAGCCCACAATTCCGTGGTAACCTTTTT-CTTCTC
1 AAAGCCCACAACTCCGTGG-CACCTTTTTCCTT-TT
* *
994528 AAAGCCCACCACTCCGTGGCA-CTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
994561 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
994597 CAAAGCCCACAACTCCGTGACACCTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* **
994632 AAAGCCCACCACTCCGTGGCACCTTTTTTTTTTTT
1 AAAGCCCACAACTCCGTGGCACC-TTTTTCCTTTT
* * * * * *
994667 TAAGTCCACGACCCCGTGGCACCTTGTTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
994701 AAAGCCCACAACTTCC-TGGCACCTTGTTCCTTTC
1 AAAGCCCACAAC-TCCGTGGCACCTTTTTCCTTTT
*
994735 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
994769 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
994805 -AAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
994830 CTCCCTTCCC
Statistics
Matches: 361, Mismatches: 42, Indels: 50
0.80 0.09 0.11
Matches are distributed among these distances:
27 6 0.02
28 35 0.10
29 2 0.01
30 2 0.01
32 8 0.02
33 69 0.19
34 117 0.32
35 85 0.24
36 16 0.04
37 21 0.06
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:994911 original size:31 final size:33
Alignment explanation
Indices: 994838--994931 Score: 165
Period size: 31 Copynumber: 2.9 Consensus size: 33
994828 TTCTCCCTTC
994838 CCAAAGCCCACACAAGTCGGTGGCAACCCTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCCTCTT
994871 CCAAAGCCCACACAAGTCGGTGGC-ACCCTC-T
1 CCAAAGCCCACACAAGTCGGTGGCAACCCTCTT
*
994902 CTAAAGCCCACACAAGTCGGTGGCAACCCT
1 CCAAAGCCCACACAAGTCGGTGGCAACCCT
994932 TCTGAGCCCA
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
31 24 0.41
32 11 0.19
33 24 0.41
ACGTcount: A:0.28, C:0.39, G:0.19, T:0.14
Consensus pattern (33 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCCTCTT
Found at i:995041 original size:43 final size:43
Alignment explanation
Indices: 994977--995341 Score: 415
Period size: 43 Copynumber: 8.1 Consensus size: 43
994967 TTGGCACCTT
*
994977 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
995020 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
995063 CACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
995112 CACCTCTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
995155 CACCTTTGTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* * * * * *
995204 CACCTCTAAGCCCAGTATCGCTGGCCCTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
995247 CACCTTCATCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* * *
995296 CACCTTTTAGTCCAATATAGTTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
995339 CAC
1 CAC
995342 TTTTTCCATC
Statistics
Matches: 274, Mismatches: 30, Indels: 36
0.81 0.09 0.11
Matches are distributed among these distances:
43 155 0.57
44 2 0.01
45 1 0.00
47 1 0.00
48 2 0.01
49 113 0.41
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:995096 original size:92 final size:92
Alignment explanation
Indices: 994939--995389 Score: 722
Period size: 92 Copynumber: 4.9 Consensus size: 92
994929 CCTTCTGAGC
* *
994939 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
*
995004 TGAATCAGCACATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTCTAAGT
995031 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
995096 TGAATCAGCACATTGGCACCTCTAAGT
66 TGAATCAGCACATTGGCACCTCTAAGT
*
995123 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
*
995188 TGAATCAGCACATTGGCACCTCTAAGC
66 TGAATCAGCACATTGGCACCTCTAAGT
* * * * *
995215 CCAGTATCGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
* *
995280 TGAATCAGCACATTGGCACCTTTTAGT
66 TGAATCAGCACATTGGCACCTCTAAGT
* * * * *
995307 CCAATATAGTTGGCCTTGAATCAGCATATTGGCACTTTTTCCATCTTTAGGTTCAATGTAGCTGA
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCAC-CTTT--ATCTTTAAGTCCAATGTAGCTGG
995372 CCTTGAATCAGCACATTG
63 CCTTGAATCAGCACATTG
995390 ACATCTTTTT
Statistics
Matches: 332, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
92 293 0.88
93 2 0.01
95 37 0.11
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (92 bp):
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCT
TGAATCAGCACATTGGCACCTCTAAGT
Found at i:996130 original size:13 final size:13
Alignment explanation
Indices: 996112--996136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
996102 CATAAAGTGC
996112 TGTATCGATACAA
1 TGTATCGATACAA
996125 TGTATCGATACA
1 TGTATCGATACA
996137 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:996148 original size:32 final size:33
Alignment explanation
Indices: 996092--996161 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 33
996082 TTCAACGATT
996092 TGTATCGATACATAAAGTGCTGTATCGATACAA
1 TGTATCGATACATAAAGTGCTGTATCGATACAA
*
996125 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGCTGTATCGATACAA
996157 TGTAT
1 TGTAT
996162 ACATATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 23 0.64
33 13 0.36
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGCTGTATCGATACAA
Found at i:996315 original size:52 final size:52
Alignment explanation
Indices: 996259--996387 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
996249 CACTGATCTT
*
996259 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
996311 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
996363 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
996388 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1000798 original size:16 final size:15
Alignment explanation
Indices: 1000772--1000801 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1000762 TTTATGCATA
1000772 TAATTAAATGCCTTC
1 TAATTAAATGCCTTC
1000787 TAATTGAAATGCCTT
1 TAATT-AAATGCCTT
1000802 ATTCTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (15 bp):
TAATTAAATGCCTTC
Found at i:1004779 original size:22 final size:21
Alignment explanation
Indices: 1004751--1004809 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
1004741 ATAATGAGAA
1004751 ATGTATCGATACAATTATAAGC
1 ATGTATCGATACAATT-TAAGC
* ***
1004773 ATGTATCAATAC-ATTTACTT
1 ATGTATCGATACAATTTAAGC
1004793 ATGTATCGATACAATTT
1 ATGTATCGATACAATTT
1004810 CTTTCCAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 13 0.42
21 7 0.23
22 11 0.35
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACAATTTAAGC
Found at i:1005506 original size:31 final size:31
Alignment explanation
Indices: 1005468--1005528 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
1005458 CTCAGACTTA
* *
1005468 GGTGCCACCAGCTTGTG-TGGCCTTTGACTCG
1 GGTGCCACCAACTTGTGCAGG-CTTTGACTCG
1005499 GGTGCCACCAACTTGTGCAGGCTTTGACTC
1 GGTGCCACCAACTTGTGCAGGCTTTGACTC
1005529 AGACTCAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.13, C:0.30, G:0.30, T:0.28
Consensus pattern (31 bp):
GGTGCCACCAACTTGTGCAGGCTTTGACTCG
Found at i:1005780 original size:180 final size:178
Alignment explanation
Indices: 1005551--1005902 Score: 510
Period size: 180 Copynumber: 2.0 Consensus size: 178
1005541 TACCAATTTA
* * * *
1005551 TGTGGGCTTTGACATTTTAAGGCTCGACCTCCTTAGATAAGTGCCAACTAATTTGGACTTGGCTC
1 TGTGAGCTTTGACATTCTAAGGCTCGACCTCCTTAGACAAGTGCCAACTAATTTGGACTTGACTC
* * *
1005616 GAACTTAGGTGCCACCAGTTTGTATGGGCTTTGACTCAGGTGCCGCCAACTCATGCAAGCTTACA
66 GAACTTAGGTGCCACCAGCTTGCATGGGCTTTGACTCAGGTGCCGCCAACTCATACAAGCTTACA
* *
1005681 CTCAAGTGCTGCTAGCTTGTGC-AGGCTTTGACT-AGGATGCCACCAACTCG
131 CT--AGTGCTGCCAGCTTGTGCGA-GCTTTAACTAAGG-TGCCACCAACTCG
* * * *
1005731 TGTGAGCTTTGACATTCTAAGGCTTGACCTCCTTAGACAGGTTCCAACTAATTTGGACTTTACTC
1 TGTGAGCTTTGACATTCTAAGGCTCGACCTCCTTAGACAAGTGCCAACTAATTTGGACTTGACTC
* *
1005796 GAACTTAGGTGCCACCAGCTTGCATGGGCTTTGACTCAGGTGCCGCCAACTCATACGAGCTTAGA
66 GAACTTAGGTGCCACCAGCTTGCATGGGCTTTGACTCAGGTGCCGCCAACTCATACAAGCTTACA
*
1005861 CTGGTGCTGCCAGCTTGTGCGAGCTTTAACTAAGGTGCCACC
131 CTAGTGCTGCCAGCTTGTGCGAGCTTTAACTAAGGTGCCACC
1005903 TAATTTGACC
Statistics
Matches: 154, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
178 31 0.20
179 4 0.03
180 119 0.77
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.29
Consensus pattern (178 bp):
TGTGAGCTTTGACATTCTAAGGCTCGACCTCCTTAGACAAGTGCCAACTAATTTGGACTTGACTC
GAACTTAGGTGCCACCAGCTTGCATGGGCTTTGACTCAGGTGCCGCCAACTCATACAAGCTTACA
CTAGTGCTGCCAGCTTGTGCGAGCTTTAACTAAGGTGCCACCAACTCG
Found at i:1006099 original size:42 final size:42
Alignment explanation
Indices: 1006042--1006332 Score: 236
Period size: 42 Copynumber: 6.9 Consensus size: 42
1006032 TATGAAAAAG
*
1006042 AATGCGTCCTGCTCCTTGAGGAAAAAGGGAAAAGAAGAATGA
1 AATGGGTCCTGCTCCTTGAGGAAAAAGGGAAAAGAAGAATGA
* * * *
1006084 GATGGGTCCTACTCCTTGAGG-AAAAGGGAAAA-AGGAA-AA
1 AATGGGTCCTGCTCCTTGAGGAAAAAGGGAAAAGAAGAATGA
* * * * *
1006123 AATGTGTGTCTTACTCCTTGATGACAAAGGGAAAAAAAGAATGA
1 AATG-G-GTCCTGCTCCTTGAGGAAAAAGGGAAAAGAAGAATGA
* * * * *
1006167 AATGTGTCTTGCTCCTTAAGGACAAAGGGAAAAAGAA-AACGA
1 AATGGGTCCTGCTCCTTGAGGAAAAAGGG-AAAAGAAGAATGA
**
1006209 GAATGCATCCTGCTCCTTGAGGATAAAA-GGAAAAGAAGAATGA
1 -AATGGGTCCTGCTCCTTGAGGA-AAAAGGGAAAAGAAGAATGA
* * * * *
1006252 AATGGGTCCTGCTCCTTGAAGACAAAGGAAAAAGGACAAAAAG-
1 AATGGGTCCTGCTCCTTGAGGAAAAAGGGAAAA-GA-AGAATGA
** *
1006295 AATGCATCCTACTCCTTGAGGATAAAA-GGAAAAGAAGA
1 AATGGGTCCTGCTCCTTGAGGA-AAAAGGGAAAAGAAGA
1006333 GTGTGTTCTA
Statistics
Matches: 199, Mismatches: 37, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
39 4 0.02
40 5 0.03
41 30 0.15
42 86 0.43
43 59 0.30
44 15 0.08
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.18
Consensus pattern (42 bp):
AATGGGTCCTGCTCCTTGAGGAAAAAGGGAAAAGAAGAATGA
Found at i:1006248 original size:85 final size:84
Alignment explanation
Indices: 1006035--1006332 Score: 347
Period size: 85 Copynumber: 3.5 Consensus size: 84
1006025 AGGAAATTAT
* * * *
1006035 GAAAAAGAATGCGTCCTGCTCCTTGAGGA-AAAAGGGAAAAGAAGAATGAGATGGGTCCTACTCC
1 GAAAAAGAATGCATCCTACTCCTTGAGGATAAAA-GGAAAAGAAGAATGAAATGGGTCCTGCTCC
*
1006099 TTGAGGA-AAAGGGAAAAAG
65 TTAAGGACAAAGGGAAAAAG
* ** * * * * * * *
1006118 GAAAAA-ATGTGTGTCTTACTCCTTGATGACAAAGGGAAAAAAAGAATGAAATGTGTCTTGCTCC
1 GAAAAAGA-ATGCATCCTACTCCTTGAGGATAAAAGGAAAAGAAGAATGAAATGGGTCCTGCTCC
1006182 TTAAGGACAAAGGGAAAAA-
65 TTAAGGACAAAGGGAAAAAG
*
1006201 GAAAACGAGAATGCATCCTGCTCCTTGAGGATAAAAGGAAAAGAAGAATGAAATGGGTCCTGCTC
1 GAAAA--AGAATGCATCCTACTCCTTGAGGATAAAAGGAAAAGAAGAATGAAATGGGTCCTGCTC
1006266 CTTGAA-GACAAA-GGAAAAAG
64 CTT-AAGGACAAAGGGAAAAAG
1006286 GACAAAAAGAATGCATCCTACTCCTTGAGGATAAAAGGAAAAGAAGA
1 G--AAAAAGAATGCATCCTACTCCTTGAGGATAAAAGGAAAAGAAGA
1006333 GTGTGTTCTA
Statistics
Matches: 181, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
82 1 0.01
83 58 0.32
84 21 0.12
85 94 0.52
86 3 0.02
87 4 0.02
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.18
Consensus pattern (84 bp):
GAAAAAGAATGCATCCTACTCCTTGAGGATAAAAGGAAAAGAAGAATGAAATGGGTCCTGCTCCT
TAAGGACAAAGGGAAAAAG
Found at i:1018845 original size:13 final size:14
Alignment explanation
Indices: 1018827--1018855 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1018817 CGGGAATGGA
1018827 TTTTTGTTGA-GTT
1 TTTTTGTTGAGGTT
1018840 TTTTTGTTGAGGTT
1 TTTTTGTTGAGGTT
1018854 TT
1 TT
1018856 GCTACGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.07, C:0.00, G:0.24, T:0.69
Consensus pattern (14 bp):
TTTTTGTTGAGGTT
Found at i:1019345 original size:51 final size:49
Alignment explanation
Indices: 1019288--1019456 Score: 158
Period size: 51 Copynumber: 3.6 Consensus size: 49
1019278 TAGATGTTTT
1019288 GATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGATAGAATGTATC
1 GATACATTGAAAAATGTATCGATACATCT-GG-AAAAAGATAGAATGTATC
* * *** * *
1019339 GATACATTGAAGAATGTAT---TA-A----GACATTCATA-CATGTATT
1 GATACATTGAAAAATGTATCGATACATCTGGAAAAAGATAGAATGTATC
*
1019379 GATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGATAGAATGAATC
1 GATACATTGAAAAATGTATCGATACATCT-GG-AAAAAGATAGAATGTATC
*
1019430 GATACATTGAAGAATGTATCGATACAT
1 GATACATTGAAAAATGTATCGATACAT
1019457 TCATACAGGT
Statistics
Matches: 91, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
40 24 0.26
41 5 0.05
42 1 0.01
43 2 0.02
44 1 0.01
47 1 0.01
48 2 0.02
49 1 0.01
50 5 0.05
51 49 0.54
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (49 bp):
GATACATTGAAAAATGTATCGATACATCTGGAAAAAGATAGAATGTATC
Found at i:1019354 original size:20 final size:20
Alignment explanation
Indices: 1019329--1019405 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
1019319 GAAAAAAGAT
1019329 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
** * *
1019349 AGAATGTATTAAGACATTCA
1 AGAATGTATCGATACATTGA
* *
1019369 TA-CATGTATTGATACATTGA
1 -AGAATGTATCGATACATTGA
*
1019389 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1019406 CTAGGTAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1019441 original size:91 final size:91
Alignment explanation
Indices: 1019281--1019477 Score: 313
Period size: 91 Copynumber: 2.2 Consensus size: 91
1019271 TTTTAACTAG
* * *
1019281 ATGTTTTGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAGATAGAATGTATCGATACAT
1 ATGTATTGATACATTGAAAAATGTATCGATACATCTAGGAAAAAAGATAGAATGAATCGATACAT
*
1019346 TGAAGAATGTATTAAGACATTCATAC
66 TGAAGAATGTATCAAGACATTCATAC
*
1019372 ATGTATTGATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGATAGAATGAATCGATACAT
1 ATGTATTGATACATTGAAAAATGTATCGATACATCTAGGAAAAAAGATAGAATGAATCGATACAT
* *
1019437 TGAAGAATGTATCGATACATTCATAC
66 TGAAGAATGTATCAAGACATTCATAC
* *
1019463 AGGTATCGATACATT
1 ATGTATTGATACATT
1019478 TGGGTAAAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 97 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (91 bp):
ATGTATTGATACATTGAAAAATGTATCGATACATCTAGGAAAAAAGATAGAATGAATCGATACAT
TGAAGAATGTATCAAGACATTCATAC
Found at i:1019445 original size:20 final size:20
Alignment explanation
Indices: 1019420--1019457 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1019410 GTAAAAAGAT
1019420 AGAATGAATCGATACATTGA
1 AGAATGAATCGATACATTGA
*
1019440 AGAATGTATCGATACATT
1 AGAATGAATCGATACATT
1019458 CATACAGGTA
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:0.11, G:0.18, T:0.29
Consensus pattern (20 bp):
AGAATGAATCGATACATTGA
Found at i:1020329 original size:45 final size:45
Alignment explanation
Indices: 1020278--1020375 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
1020268 GATAATGTGT
* * *
1020278 TGATTCAAGGCTAGCGACATT-GAGCTAA-TAAGGTGGACAATATGC
1 TGATTCAAGGCCAACGACATTAG-GCTAACAAAGGT-GACAATATGC
* *
1020323 TGATTCAAGGCCAATGACATTAGGCTAACAAAGGTGCCAATATGC
1 TGATTCAAGGCCAACGACATTAGGCTAACAAAGGTGACAATATGC
1020368 TGATTCAA
1 TGATTCAA
1020376 TGCGAGCGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 40 0.87
46 6 0.13
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (45 bp):
TGATTCAAGGCCAACGACATTAGGCTAACAAAGGTGACAATATGC
Found at i:1020602 original size:29 final size:29
Alignment explanation
Indices: 1020455--1021039 Score: 579
Period size: 29 Copynumber: 19.9 Consensus size: 29
1020445 GCTTTTAAAA
*
1020455 AAGGGTGCCACTAACTTATGTGGGCTTTGA-
1 AAGGATGCCACTAAC-T-TGTGGGCTTTGAG
* *
1020485 AAGGATACCA-TAGACTTTTGGGCTTTGA-
1 AAGGATGCCACTA-ACTTGTGGGCTTTGAG
*
1020513 AAGGATGCCACTGACTTGTGGGCTTTGA-
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
* **
1020541 AAAGATGCCACTGATTTGTGTGGGCTTTGAG
1 AAGGATGCCACT-AACT-TGTGGGCTTTGAG
*
1020572 AAGGATGCCACTAACTTGTGGGCTTTAAG
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
* ** *
1020601 AAGGATACCACTGATTTTTGTGGGCTTTGAA
1 AAGGATGCCACT-A-ACTTGTGGGCTTTGAG
* * *
1020632 AAAGATGCCACTGACTTGTGGGCTTTGAA
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
* * *
1020661 AAGGATGCCACTGACCTGTGAGCTTTGAG
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
* * * *
1020690 AAGGATACCACTGACTAGTGGGCTATGAG
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
1020719 AAGGATGCCACTAACTTGTGGGCTTTGA-
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
1020747 AAGGATGCCACTAACTTGTGGGCTTTGA-
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
* **
1020775 AAAGATGCCACTGATTTATGTGGGCTTTGAG
1 AAGGATGCCACT-AACT-TGTGGGCTTTGAG
* ** *
1020806 AAGGATGCCAGTGATTTGTGTGGGCATTGAG
1 AAGGATGCCACT-AACT-TGTGGGCTTTGAG
* * *
1020837 AAGGATACCACTGACTTGTGGGCTTTGAA
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
* *
1020866 AATGATGTCACTAACTTGTGGGCTTTGAG
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
*
1020895 AAGGATGCCACTAACTTATGGGCTTTGAG
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
* *
1020924 AAGGATGCCACTGACTTGTGGGCTTTGAA
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
* **
1020953 ATAGGTTGCCACCGACTTGTGTAGGCTTTGAG
1 A-AGGATGCCACTAACTTGTG--GGCTTTGAG
* * * *
1020985 AAGGAAGCCACTGATTTATGGGCTTTGAG
1 AAGGATGCCACTAACTTGTGGGCTTTGAG
* * *
1021014 AAAGATGCCACTGACTTATGGGCTTT
1 AAGGATGCCACTAACTTGTGGGCTTT
1021040 AAAATGGGTT
Statistics
Matches: 469, Mismatches: 73, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
28 84 0.18
29 237 0.51
30 55 0.12
31 84 0.18
32 9 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (29 bp):
AAGGATGCCACTAACTTGTGGGCTTTGAG
Found at i:1020853 original size:205 final size:205
Alignment explanation
Indices: 1020453--1021027 Score: 707
Period size: 205 Copynumber: 2.8 Consensus size: 205
1020443 GGGCTTTTAA
* * *
1020453 AAAAGGGTGCCACTAACTTATGTGGGCTTTGA-AAGGATACCA-TAGACTTTTGGGCTTTGA-AA
1 AAAAGGATGCCACTAAC--CTGTGGGCTTTGAGAAGGATACCACT-GAC-TATGGGCTTTGAGAA
* **
1020515 GGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGATTTGTGTGGGCTTTGAGAAGGATGC
62 GGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT-AACT-TGTGGGCTTTGAGAAGGATGC
** * * * * *
1020580 CACT-AACT-TGTGGGCTTTAAGAAGGATACCACTGATTTTTGTGGGCTTTGAAAAAGATGCCAC
125 CACTGATTTATGTGGGCTTTGAGAAGGATGCCACTGATTTGTGTGGGCATTGAAAAAGATACCAC
1020643 TGACTTGTGGGCTTTG
190 TGACTTGTGGGCTTTG
* * *
1020659 AAAAGGATGCCACTGACCTGTGAGCTTTGAGAAGGATACCACTGACTAGTGGGCTATGAGAAGGA
1 AAAAGGATGCCACTAACCTGTGGGCTTTGAGAAGGATACCACTGACTA-TGGGCTTTGAGAAGGA
* *
1020724 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGA-AAAGATGCCACTG
65 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTG
* * *
1020788 ATTTATGTGGGCTTTGAGAAGGATGCCAGTGATTTGTGTGGGCATTGAGAAGGATACCACTGACT
130 ATTTATGTGGGCTTTGAGAAGGATGCCACTGATTTGTGTGGGCATTGAAAAAGATACCACTGACT
1020853 TGTGGGCTTTG
195 TGTGGGCTTTG
* * * * *
1020864 AAAATGATGTCACTAACTTGTGGGCTTTGAGAAGGATGCCACTAACTTATGGGCTTTGAGAAGGA
1 AAAAGGATGCCACTAACCTGTGGGCTTTGAGAAGGATACCACTGAC-TATGGGCTTTGAGAAGGA
* ** *
1020929 TGCCACTGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTAGGCTTTGAGAAGGAAGCC
65 TGCCACTGACTTGTGGGCTTTG-AA-AGGATGCCACTAACTTGTG--GGCTTTGAGAAGGATGCC
*
1020994 ACTGATTTA--TGGGCTTTGAGAAAGATGCCACTGA
126 ACTGATTTATGTGGGCTTTGAGAAGGATGCCACTGA
1021028 CTTATGGGCT
Statistics
Matches: 320, Mismatches: 37, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
203 11 0.03
204 26 0.08
205 162 0.51
206 58 0.18
207 16 0.05
208 23 0.07
209 8 0.03
210 16 0.05
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (205 bp):
AAAAGGATGCCACTAACCTGTGGGCTTTGAGAAGGATACCACTGACTATGGGCTTTGAGAAGGAT
GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGA
TTTATGTGGGCTTTGAGAAGGATGCCACTGATTTGTGTGGGCATTGAAAAAGATACCACTGACTT
GTGGGCTTTG
Found at i:1020922 original size:234 final size:232
Alignment explanation
Indices: 1020474--1021033 Score: 755
Period size: 234 Copynumber: 2.4 Consensus size: 232
1020464 ACTAACTTAT
* *
1020474 GTGGGCTTTGAAAGGATACCA-TAGACTTTTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
1 GTGGGCTTTGAAAGGATGCCACTA-ACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
* *
1020538 TGAAAAGATGCCACTGATTTGTGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTAAGAA
65 TGAAAAGATGCCACTGATTTATGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCATTAAGAA
* *
1020603 GGATACCACTGATTTTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATG
130 GGATACCACTGA-TCTTGTGGGCTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGGATG
* *
1020668 CCACTGACCTGTGAGCTTTGAGAAGGATACCACTGACTA
194 CCACTAACCTATGAGCTTTGAGAAGGATACCACTGACTA
* *
1020707 GTGGGCTATGAGAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
1 GTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
* ** *
1020772 TGAAAAGATGCCACTGATTTATGTGGGCTTTGAGAAGGATGCCAGTGATTTGTGTGGGCATTGAG
65 TGAAAAGATGCCACTGATTTATGTGGGCTTTGAGAAGGATGCCACT-AACT-TGTGGGCATTAAG
* * *
1020837 AAGGATACCACTGA-CTTGTGGGCTTTGAAAATGATGTCACTAACTTGTGGGCTTTGAGAAGGAT
128 AAGGATACCACTGATCTTGTGGGCTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGGAT
* * * *
1020901 GCCACTAACTTATGGGCTTTGAGAAGGATGCCACTGACTT
193 GCCACTAACCTATGAGCTTTGAGAAGGATACCACTGACTA
* ** * * *
1020941 GTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTAGGCTTTGAGAAGGAAGCCACTGATTTATGG
1 GTGGGCTTTG-AA-AGGATGCCACTAACTTGTG--GGCTTTGA-AAGGATGCCACTGACTTGTGG
*
1021006 GCTTTGAGAAAGATGCCACTGACTTATG
61 GCTTTGA-AAAGATGCCACTGATTTATG
1021034 GGCTTTAAAA
Statistics
Matches: 287, Mismatches: 30, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
233 10 0.03
234 180 0.63
235 21 0.07
236 25 0.09
237 8 0.03
238 24 0.08
239 19 0.07
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (232 bp):
GTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT
GAAAAGATGCCACTGATTTATGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCATTAAGAAG
GATACCACTGATCTTGTGGGCTTTGAAAAAGATGCCACTAACTTGTGGGCTTTGAAAAGGATGCC
ACTAACCTATGAGCTTTGAGAAGGATACCACTGACTA
Found at i:1021085 original size:31 final size:31
Alignment explanation
Indices: 1020940--1021267 Score: 299
Period size: 32 Copynumber: 10.5 Consensus size: 31
1020930 GCCACTGACT
1020940 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATA-GTTGCCACCGACTTG
* * ** *
1020972 TGTAGGCTTTGAGAA-GGAAGCCACTGA-TT-
1 TGTGGGCTTTGA-AATAGTTGCCACCGACTTG
* * *
1021001 TATGGGCTTTGAGAA-AGATGCCACTGAC-T-
1 TGTGGGCTTTGA-AATAGTTGCCACCGACTTG
* * * *
1021030 TATGGGCTTTAAAATGGGTTGCCACCGACTTA
1 TGTGGGCTTTGAAAT-AGTTGCCACCGACTTG
1021062 TGTGGGCTTTGAAATAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATAGTTGCCACCGACTTG
* * * * *
1021093 TGTTGGCTTTCAAATGGGTTGCCACTGACTTA
1 TGTGGGCTTTGAAAT-AGTTGCCACCGACTTG
1021125 TGTGGGCTTTGAAATAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATAGTTGCCACCGACTTG
* * * *
1021156 TGTTGGCTTTCAAATGGGTTGCCACTGACTTG
1 TGTGGGCTTTGAAAT-AGTTGCCACCGACTTG
* * *
1021188 TATGGGCTTTGAAATGGGTTGCCATCGACTTG
1 TGTGGGCTTTGAAAT-AGTTGCCACCGACTTG
** *
1021220 TGTGGGCTTCCAAATGAGTTGCCATCGACTTG
1 TGTGGGCTTTGAAAT-AGTTGCCACCGACTTG
1021252 TGTGGGCTTTGAAATA
1 TGTGGGCTTTGAAATA
1021268 ATGTGAAAGA
Statistics
Matches: 246, Mismatches: 42, Indels: 17
0.81 0.14 0.06
Matches are distributed among these distances:
28 2 0.01
29 35 0.14
30 12 0.05
31 63 0.26
32 132 0.54
33 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (31 bp):
TGTGGGCTTTGAAATAGTTGCCACCGACTTG
Found at i:1021123 original size:32 final size:32
Alignment explanation
Indices: 1020415--1021266 Score: 375
Period size: 29 Copynumber: 28.2 Consensus size: 32
1020405 AAAATAGTGA
* **
1020415 TTTGAAAAGGGTTGCCA-TCGACTTACGTGGGC
1 TTTGAAATGGGTTGCCACT-GACTTGTGTGGGC
* * * *
1020447 TTTTAAAAAAGGG-TGCCACTAACTTATGTGGGC
1 -TTT-GAAATGGGTTGCCACTGACTTGTGTGGGC
* *
1020480 TTTGAAA--GGATACCA-TAGACTT-T-TGGGC
1 TTTGAAATGGGTTGCCACT-GACTTGTGTGGGC
*
1020508 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* * *
1020536 TTTGAAA--AGATGCCACTGATTTGTGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
1020566 TTTGAGAA--GGATGCCACTAAC-T-TGTGGGC
1 TTTGA-AATGGGTTGCCACTGACTTGTGTGGGC
* * * * *
1020595 TTT-AAGA-AGGATACCACTGATTTTTGTGGGC
1 TTTGAA-ATGGGTTGCCACTGACTTGTGTGGGC
** *
1020626 TTTGAAA-AAGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* * * *
1020655 TTTGAAA-AGGATGCCACTGAC--CTGTGAGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* * *
1020684 TTTGAGAA--GGATACCACTGAC-T-AGTGGGC
1 TTTGA-AATGGGTTGCCACTGACTTGTGTGGGC
* * *
1020713 TATGAGAA--GGATGCCACTAAC-T-TGTGGGC
1 TTTGA-AATGGGTTGCCACTGACTTGTGTGGGC
* *
1020742 TTTGAAA--GGATGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* * * *
1020770 TTTGAAA--AGATGCCACTGATTTATGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* * *
1020800 TTTGAGAA--GGATGCCAGTGATTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACTGACTTGTGTGGGC
* * *
1020831 ATTGAGAA--GGATACCACTGAC-T-TGTGGGC
1 TTTGA-AATGGGTTGCCACTGACTTGTGTGGGC
* * *
1020860 TTTGAAAAT--GATGTCACTAAC-T-TGTGGGC
1 TTTG-AAATGGGTTGCCACTGACTTGTGTGGGC
* * *
1020889 TTTGAGAA--GGATGCCACTAAC-T-TATGGGC
1 TTTGA-AATGGGTTGCCACTGACTTGTGTGGGC
*
1020918 TTTGAGAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGA-AATGGGTTGCCACTGACTTGTGTGGGC
* * *
1020947 TTTGAAATAGGTTGCCACCGACTTGTGTAGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
** *
1020979 TTTGAGAA--GGAAGCCACTGA-TT-TATGGGC
1 TTTGA-AATGGGTTGCCACTGACTTGTGTGGGC
* * *
1021008 TTTGAGAA--AGATGCCACTGAC-T-TATGGGC
1 TTTGA-AATGGGTTGCCACTGACTTGTGTGGGC
* * *
1021037 TTTAAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* * *
1021069 TTTGAAAT-AGTTGCCACCGACTTGTGTTGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
1021100 TTTCAAATGGGTTGCCACTGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* * *
1021132 TTTGAAAT-AGTTGCCACCGACTTGTGTTGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
* *
1021163 TTTCAAATGGGTTGCCACTGACTTGTATGGGC
1 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1021195 TTTGAAATGGGTTGCCA-TCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACT-GACTTGTGTGGGC
** *
1021227 TTCCAAATGAGTTGCCA-TCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACT-GACTTGTGTGGGC
1021259 TTTGAAAT
1 TTTGAAAT
1021267 AATGTGAAAG
Statistics
Matches: 695, Mismatches: 87, Indels: 75
0.81 0.10 0.09
Matches are distributed among these distances:
27 3 0.00
28 92 0.13
29 231 0.33
30 62 0.09
31 141 0.20
32 137 0.20
33 21 0.03
34 8 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
Found at i:1021123 original size:63 final size:62
Alignment explanation
Indices: 1020929--1021267 Score: 397
Period size: 63 Copynumber: 5.5 Consensus size: 62
1020919 TTGAGAAGGA
* * *
1020929 TGCCACTGAC-TTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTAGGCTTTGAGAA--GGA
1 TGCCACTGACTTTGTGGGCTTTGAAATA-GTTGCCACCGACTTGTGTTGGCTTTCA-AATGGGT
* * * * * *
1020990 AGCCACTGA-TTTATGGGCTTTGAGAA-AGATGCCACTGACTTATG--GGCTTTAAAATGGGT
1 TGCCACTGACTTTGTGGGCTTTGA-AATAGTTGCCACCGACTTGTGTTGGCTTTCAAATGGGT
*
1021049 TGCCACCGACTTATGTGGGCTTTGAAATAGTTGCCACCGACTTGTGTTGGCTTTCAAATGGGT
1 TGCCACTGACTT-TGTGGGCTTTGAAATAGTTGCCACCGACTTGTGTTGGCTTTCAAATGGGT
1021112 TGCCACTGACTTATGTGGGCTTTGAAATAGTTGCCACCGACTTGTGTTGGCTTTCAAATGGGT
1 TGCCACTGACTT-TGTGGGCTTTGAAATAGTTGCCACCGACTTGTGTTGGCTTTCAAATGGGT
* * * * * *
1021175 TGCCACTGACTTGTATGGGCTTTGAAATGGGTTGCCATCGACTTGTGTGGGCTTCCAAATGAGT
1 TGCCACTGACTT-TGTGGGCTTTGAAAT-AGTTGCCACCGACTTGTGTTGGCTTTCAAATGGGT
1021239 TGCCA-TCGACTTGTGTGGGCTTTGAAATA
1 TGCCACT-GACTT-TGTGGGCTTTGAAATA
1021268 ATGTGAAAGA
Statistics
Matches: 243, Mismatches: 24, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
57 2 0.01
58 7 0.03
59 9 0.04
60 18 0.07
61 47 0.19
62 2 0.01
63 103 0.42
64 55 0.23
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (62 bp):
TGCCACTGACTTTGTGGGCTTTGAAATAGTTGCCACCGACTTGTGTTGGCTTTCAAATGGGT
Found at i:1022063 original size:13 final size:13
Alignment explanation
Indices: 1022045--1022070 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1022035 CAATTTTTTG
1022045 TGTATCGATACAT
1 TGTATCGATACAT
1022058 TGTATCGATACAT
1 TGTATCGATACAT
1022071 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1022081 original size:32 final size:33
Alignment explanation
Indices: 1022025--1022088 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
1022015 TACAAGCCAA
*
1022025 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
1022058 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
1022089 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:1022082 original size:19 final size:19
Alignment explanation
Indices: 1022025--1022088 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
1022015 TACAAGCCAA
*
1022025 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
1022045 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1022058 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1022077 TGTATCGATACA
1 TGTATCGATACA
1022089 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1022165 original size:20 final size:20
Alignment explanation
Indices: 1022119--1022192 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
1022109 ATCCCAATGA
***
1022119 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
1022140 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
1022160 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
1022180 TATGTATCGATAC
1 CATGTATCGATAC
1022193 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:1022758 original size:39 final size:39
Alignment explanation
Indices: 1022702--1022805 Score: 109
Period size: 47 Copynumber: 2.4 Consensus size: 39
1022692 TTTTATTTCT
*
1022702 CCCTTAATCAAAATAATTTTAACAAATTTGTACATTCTCC
1 CCCTTAAT-AAAGTAATTTTAACAAATTTGTACATTCTCC
1022742 CCCTTAATAAAGTAATTCACGCATTTTAACAAATTTGTACATTCTCC
1 CCCTTAATAAAG----T-A---ATTTTAACAAATTTGTACATTCTCC
*
1022789 CTCTTAATAAAGTAATT
1 CCCTTAATAAAGTAATT
1022806 CACGCATTCT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
39 6 0.11
40 8 0.15
42 1 0.02
43 2 0.04
44 1 0.02
47 36 0.67
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.38
Consensus pattern (39 bp):
CCCTTAATAAAGTAATTTTAACAAATTTGTACATTCTCC
Found at i:1022769 original size:47 final size:47
Alignment explanation
Indices: 1022717--1022813 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
1022707 AATCAAAATA
1022717 ATTTTAACAAATTTGTACATTCTCCCCCTTAATAAAGTAATTCACGC
1 ATTTTAACAAATTTGTACATTCTCCCCCTTAATAAAGTAATTCACGC
*
1022764 ATTTTAACAAATTTGTACATTCTCCCTCTTAATAAAGTAATTCACGC
1 ATTTTAACAAATTTGTACATTCTCCCCCTTAATAAAGTAATTCACGC
1022811 ATT
1 ATT
1022814 CTCCCCTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (47 bp):
ATTTTAACAAATTTGTACATTCTCCCCCTTAATAAAGTAATTCACGC
Found at i:1022795 original size:25 final size:25
Alignment explanation
Indices: 1022720--1022795 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
1022710 CAAAATAATT
*
1022720 TTAACAAATTTGTACATTCTCCCCC
1 TTAACAAATTTGTACATTCTCCCTC
* * * *
1022745 TTAATAAA---GTA-ATTCACGCATT
1 TTAACAAATTTGTACATTCTC-CCTC
1022767 TTAACAAATTTGTACATTCTCCCTC
1 TTAACAAATTTGTACATTCTCCCTC
1022792 TTAA
1 TTAA
1022796 TAAAGTAATT
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
21 5 0.14
22 11 0.30
25 16 0.43
26 5 0.14
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (25 bp):
TTAACAAATTTGTACATTCTCCCTC
Found at i:1024660 original size:13 final size:13
Alignment explanation
Indices: 1024642--1024679 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1024632 ATAATCCCCC
1024642 TGTATCGATACAG
1 TGTATCGATACAG
*
1024655 TGTATCGATACAT
1 TGTATCGATACAG
1024668 TGTATCGATACA
1 TGTATCGATACA
1024680 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1026780 original size:15 final size:15
Alignment explanation
Indices: 1026760--1026790 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1026750 ATTTCGTTTG
*
1026760 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1026775 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1026790 G
1 G
1026791 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1030886 original size:13 final size:13
Alignment explanation
Indices: 1030868--1030893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1030858 CAATTTTTTG
1030868 TGTATCGATACAT
1 TGTATCGATACAT
1030881 TGTATCGATACAT
1 TGTATCGATACAT
1030894 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1030904 original size:32 final size:33
Alignment explanation
Indices: 1030848--1030911 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
1030838 TACAAGCCAA
*
1030848 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
1030881 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
1030912 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:1030905 original size:19 final size:19
Alignment explanation
Indices: 1030848--1030911 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
1030838 TACAAGCCAA
*
1030848 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
1030868 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1030881 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1030900 TGTATCGATACA
1 TGTATCGATACA
1030912 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1030988 original size:20 final size:20
Alignment explanation
Indices: 1030942--1031015 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
1030932 ATCCCAATGA
***
1030942 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
1030963 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
1030983 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
1031003 TATGTATCGATAC
1 CATGTATCGATAC
1031016 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:1031332 original size:29 final size:30
Alignment explanation
Indices: 1031290--1031386 Score: 115
Period size: 29 Copynumber: 3.2 Consensus size: 30
1031280 CCTAACATAA
* *
1031290 TGCCACTGACTTGTGAGCTTAGAAA-GGGG
1 TGCCACTGATTTGTGAGCTTAGAAATGGGT
*
1031319 TGCCACTGATTTGTAAGCTTAGAAATGGGT
1 TGCCACTGATTTGTGAGCTTAGAAATGGGT
* * *
1031349 TGCCATTGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGA-TT-TGTGAGCTTAGAAATGGGT
1031381 TGCCAC
1 TGCCAC
1031387 CAACTTGTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 23 0.40
30 11 0.19
31 2 0.04
32 21 0.37
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (30 bp):
TGCCACTGATTTGTGAGCTTAGAAATGGGT
Found at i:1031376 original size:32 final size:30
Alignment explanation
Indices: 1031335--1031557 Score: 163
Period size: 28 Copynumber: 7.5 Consensus size: 30
1031325 TGATTTGTAA
* ***
1031335 GCTTAGAAATGGGTTGCCATTGACTTGTGTGG
1 GCTTTGAAATGGGTTGCCACCAAC-T-TGTGG
1031367 GCTTTGAAATGGGTTGCCACCAACTTGTGTGG
1 GCTTTGAAATGGGTTGCCACCAAC-T-TGTGG
* * * *
1031399 GCTTTGAAATAGGTTACCACCAATTTCTATGG
1 GCTTTGAAATGGGTTGCCACCAA-CT-TGTGG
* * *
1031431 GCTTTCAAATGAGTTGCCACCGACTTGTGG
1 GCTTTGAAATGGGTTGCCACCAACTTGTGG
* * *
1031461 ACTTTGAAAT--GATGCCACTAACTTGTGG
1 GCTTTGAAATGGGTTGCCACCAACTTGTGG
**
1031489 GCTTTGAAA-GGG-TGCCACTGACTTGTGG
1 GCTTTGAAATGGGTTGCCACCAACTTGTGG
* *
1031517 GCTTTGAAA-GGG-TGCCACGAAGTTGTGG
1 GCTTTGAAATGGGTTGCCACCAACTTGTGG
* *
1031545 ACTTTTAAA-GGGT
1 GCTTTGAAATGGGT
1031558 CCACAGAGTT
Statistics
Matches: 159, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
28 73 0.46
29 1 0.01
30 12 0.08
31 1 0.01
32 72 0.45
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (30 bp):
GCTTTGAAATGGGTTGCCACCAACTTGTGG
Found at i:1031572 original size:27 final size:28
Alignment explanation
Indices: 1031445--1031749 Score: 294
Period size: 28 Copynumber: 10.9 Consensus size: 28
1031435 TCAAATGAGT
* * * * *
1031445 TGCCACCGACTTGTGGACTTTGAAATGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
** * * *
1031473 TGCCACTAACTTGTGGGCTTTGAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* * * *
1031501 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* *
1031529 TGCCACGAAGTTGTGGACTTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* * *
1031557 T-CCACAGAGTTATGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* **
1031583 TGCCACGGAGTTGTGGAATTTGAAAAGAAA
1 TGCCACGGAGTTGTGGACTTT-AAAAG-GG
*
1031613 TGCCACGGAGTTGCGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
**
1031640 TGCCACAAAGTTGTGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
1031667 TGCCACGGAGTTGTAGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* *
1031695 TGCCATGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
1031723 TGCCACGGAGTTATGGACTTTGAAAAG
1 TGCCACGGAGTTGTGGACTTT-AAAAG
1031750 AAATGCCACT
Statistics
Matches: 236, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.03
27 65 0.28
28 134 0.57
29 12 0.05
30 17 0.07
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGG
Found at i:1041605 original size:13 final size:13
Alignment explanation
Indices: 1041587--1041611 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1041577 TTTTCATAAA
1041587 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
1041600 AAAAAAAGAAAA
1 AAAAAAAGAAAA
1041612 TTCAGATCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:1041996 original size:20 final size:19
Alignment explanation
Indices: 1041954--1041990 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1041944 TTCTCAAATT
1041954 AAAAAAAACTACAAAAAAG
1 AAAAAAAACTACAAAAAAG
*
1041973 AAAAAAAATTA-AAAAAAG
1 AAAAAAAACTACAAAAAAG
1041991 GGAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.81, C:0.05, G:0.05, T:0.08
Consensus pattern (19 bp):
AAAAAAAACTACAAAAAAG
Found at i:1042044 original size:7 final size:7
Alignment explanation
Indices: 1042032--1042072 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
1042022 TGTAGATAGT
1042032 AAAAGAA
1 AAAAGAA
1042039 AAAAGAA
1 AAAAGAA
1042046 AAAATGAA
1 AAAA-GAA
1042054 AAAAGAA
1 AAAAGAA
*
1042061 AAGATGAA
1 AA-AAGAA
1042069 AAAA
1 AAAA
1042073 TGAATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 17 0.57
8 13 0.43
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (7 bp):
AAAAGAA
Found at i:1042054 original size:8 final size:8
Alignment explanation
Indices: 1042032--1042081 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
1042022 TGTAGATAGT
1042032 AAAA-GAA
1 AAAATGAA
1042039 AAAA-GAA
1 AAAATGAA
1042046 AAAATGAA
1 AAAATGAA
1042054 AAAA-GAA
1 AAAATGAA
*
1042061 AAGATGAA
1 AAAATGAA
1042069 AAAATGAA
1 AAAATGAA
*
1042077 TAAAT
1 AAAAT
1042082 ATTGTATGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.45
8 21 0.55
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (8 bp):
AAAATGAA
Found at i:1042056 original size:15 final size:15
Alignment explanation
Indices: 1042032--1042072 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
1042022 TGTAGATAGT
1042032 AAAA-GAAAAAAGAA
1 AAAATGAAAAAAGAA
1042046 AAAATGAAAAAAGAA
1 AAAATGAAAAAAGAA
*
1042061 AAGATGAAAAAA
1 AAAATGAAAAAA
1042073 TGAATAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (15 bp):
AAAATGAAAAAAGAA
Done.