Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold107
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: 2327068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 7 of 15
Found at i:931842 original size:226 final size:224
Alignment explanation
Indices: 931448--931894 Score: 777
Period size: 226 Copynumber: 2.0 Consensus size: 224
931438 CAAGACATAA
*
931448 GTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCTAAGTTCATGGTCA
1 GTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTTCATGGTCA
931513 TTTCGTAATGACCACCCGAGACTTATAGGACGAGCGATTCGTCCAATAGTCTTTCATCCCCGCAT
66 TTTCGTAATGACCACCCGAGACTTATAGGACGAGCGATTCGTCCAATAGTCTTTCATCCCCGCAT
*
931578 ATTGACTATCCCCTTTTATTCAAGTTGAGTGAGCTTTGGCTCTTCGGATCATCCGAAGTACTCAT
131 ATTGACTATCCCCTTTTATTCAAGTCGAGTGAGCTTTGGCTCTTCGGATCATCCGAAGTACTCA-
*
931643 TAAAAAAGTCGAGCGCACGTCGCGACAATAG
195 T-AAAAAGCCGAGCGCACGTCGCGACAATAG
*
931674 GTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAGTTCATGGTCA
1 GTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTTCATGGTCA
* * *
931739 TTTCGTAATGACTACCCGAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCGTCCCCGCAT
66 TTTCGTAATGACCACCCGAGACTTATAGGACGAGCGATTCGTCCAATAGTCTTTCATCCCCGCAT
** *
931804 ATTGACTATCCCCTTTTATTCAAGTCGAGTGAGCTTTGGCTCTTCGGATTGTCTGAAGTACTCAT
131 ATTGACTATCCCCTTTTATTCAAGTCGAGTGAGCTTTGGCTCTTCGGATCATCCGAAGTACTCAT
*
931869 AAAAAGCCGAGCGCACGTTGCGACAA
196 AAAAAGCCGAGCGCACGTCGCGACAA
931895 GTGCCATCCA
Statistics
Matches: 210, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
224 24 0.11
225 1 0.00
226 185 0.88
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (224 bp):
GTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTTCATGGTCA
TTTCGTAATGACCACCCGAGACTTATAGGACGAGCGATTCGTCCAATAGTCTTTCATCCCCGCAT
ATTGACTATCCCCTTTTATTCAAGTCGAGTGAGCTTTGGCTCTTCGGATCATCCGAAGTACTCAT
AAAAAGCCGAGCGCACGTCGCGACAATAG
Found at i:934038 original size:13 final size:13
Alignment explanation
Indices: 934020--934047 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
934010 ATACAAAGAT
934020 CAATGTATCGATA
1 CAATGTATCGATA
934033 CAATGTATCGATA
1 CAATGTATCGATA
934046 CA
1 CA
934048 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:934044 original size:33 final size:33
Alignment explanation
Indices: 934002--934067 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
933992 AATTTCCCAG
934002 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
**
934035 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
934068 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:934123 original size:19 final size:19
Alignment explanation
Indices: 934099--934161 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
934089 AGCGATACAT
934099 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
934118 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
934131 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
934150 TGTATCGATACA
1 TGTATCGATACA
934162 GTTACTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
16 6 0.17
18 1 0.03
19 20 0.56
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:934132 original size:32 final size:32
Alignment explanation
Indices: 934091--934161 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
934081 AGCTTCGTAG
*
934091 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCAATACAACACTTATGTAT
934123 CGATACATTGTATCAATACAACACTTATGTAT
1 CGATACATTGTATCAATACAACACTTATGTAT
934155 CGATACA
1 CGATACA
934162 GTTACTGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCAATACAACACTTATGTAT
Found at i:934834 original size:17 final size:17
Alignment explanation
Indices: 934812--934845 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
934802 ATGTGATTTG
934812 TCGCAATTATAATGAGC
1 TCGCAATTATAATGAGC
934829 TCGCAATTATAATGAGC
1 TCGCAATTATAATGAGC
934846 GTTCTTGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (17 bp):
TCGCAATTATAATGAGC
Found at i:939910 original size:16 final size:16
Alignment explanation
Indices: 939889--939980 Score: 96
Period size: 16 Copynumber: 5.8 Consensus size: 16
939879 TAAGTTTCGA
939889 TCATTTCGGGTTTGGG
1 TCATTTCGGGTTTGGG
* *
939905 TTATTTCGGGTTTGGA
1 TCATTTCGGGTTTGGG
*
939921 TCATTTCGGCTTTGGG
1 TCATTTCGGGTTTGGG
* * * *
939937 TCATTTTGGATTCGGA
1 TCATTTCGGGTTTGGG
*
939953 TCATTTCGGATTTGGG
1 TCATTTCGGGTTTGGG
*
939969 TCA-ATCGGGTTT
1 TCATTTCGGGTTT
939981 AACACTCGGG
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
15 7 0.11
16 55 0.89
ACGTcount: A:0.12, C:0.13, G:0.30, T:0.45
Consensus pattern (16 bp):
TCATTTCGGGTTTGGG
Found at i:939928 original size:32 final size:32
Alignment explanation
Indices: 939882--939980 Score: 119
Period size: 32 Copynumber: 3.1 Consensus size: 32
939872 TCATTTTTAA
* * *
939882 GTTTCGATCATTTCGGGTTTGGGTTATTTCGG
1 GTTTGGATCATTTCGGATTTGGGTCATTTCGG
* *
939914 GTTTGGATCATTTCGGCTTTGGGTCATTTTGG
1 GTTTGGATCATTTCGGATTTGGGTCATTTCGG
* * *
939946 ATTCGGATCATTTCGGATTTGGGTCA-ATCGG
1 GTTTGGATCATTTCGGATTTGGGTCATTTCGG
939977 GTTT
1 GTTT
939981 AACACTCGGG
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
31 5 0.09
32 51 0.91
ACGTcount: A:0.12, C:0.13, G:0.30, T:0.44
Consensus pattern (32 bp):
GTTTGGATCATTTCGGATTTGGGTCATTTCGG
Found at i:940031 original size:52 final size:53
Alignment explanation
Indices: 939942--940046 Score: 142
Period size: 52 Copynumber: 2.0 Consensus size: 53
939932 TTGGGTCATT
*
939942 TTGGATTCGGATCATTTCGGATTTGGGTCAATCGGGTTTAACACTCGGGTTAA
1 TTGGATTCGGATCATTTCGGATTCGGGTCAATCGGGTTTAACACTCGGGTTAA
* * * *
939995 TTGG-TTCGGGTCA-TTCTGGATTCGGGTCAGTTGGGTTTAACATTCGGGTTAA
1 TTGGATTCGGATCATTTC-GGATTCGGGTCAATCGGGTTTAACACTCGGGTTAA
940047 ATCAAGTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 3 0.07
52 39 0.85
53 4 0.09
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.37
Consensus pattern (53 bp):
TTGGATTCGGATCATTTCGGATTCGGGTCAATCGGGTTTAACACTCGGGTTAA
Found at i:940820 original size:16 final size:16
Alignment explanation
Indices: 940769--940840 Score: 83
Period size: 16 Copynumber: 4.5 Consensus size: 16
940759 CGAGTTAATT
940769 GTTC-GGTCATTTCGG
1 GTTCGGGTCATTTCGG
* *
940784 GTTCAGATCATTTCGG
1 GTTCGGGTCATTTCGG
*
940800 GTTCGGGTCATTTTGG
1 GTTCGGGTCATTTCGG
* *
940816 GTTCGGGGCATTTTGG
1 GTTCGGGTCATTTCGG
940832 GTTTCGGGT
1 G-TTCGGGT
940841 TGGTCGATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
15 4 0.08
16 39 0.80
17 6 0.12
ACGTcount: A:0.08, C:0.15, G:0.36, T:0.40
Consensus pattern (16 bp):
GTTCGGGTCATTTCGG
Found at i:941365 original size:29 final size:29
Alignment explanation
Indices: 941333--941417 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
941323 AAAATGCACA
*
941333 AAATTACATTAATGGTCCTAAAACATG-G
1 AAATTACATAAATGGTCCTAAAACATGTG
* *
941361 CAAATTAC-TAGAATGATCCTAAAATATGTG
1 -AAATTACATA-AATGGTCCTAAAACATGTG
* * *
941391 AAAATGCATAAATGGTCCTAAATCATG
1 AAATTACATAAATGGTCCTAAAACATG
941418 AAAATTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 1 0.02
29 41 0.91
30 3 0.07
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (29 bp):
AAATTACATAAATGGTCCTAAAACATGTG
Found at i:941453 original size:15 final size:15
Alignment explanation
Indices: 941433--941464 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
941423 TTATTAGAAA
941433 ATGACATTAAAGTGC
1 ATGACATTAAAGTGC
941448 ATGACATTAAAGTGC
1 ATGACATTAAAGTGC
941463 AT
1 AT
941465 TAAGTGACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (15 bp):
ATGACATTAAAGTGC
Found at i:944591 original size:19 final size:18
Alignment explanation
Indices: 944569--944627 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 18
944559 TTATAACAAA
944569 TAAAAATAATTAATTATAT
1 TAAAAATAATTAA-TATAT
944588 TAAAAATATATTTAA-ATAT
1 TAAAAATA-A-TTAATATAT
*
944607 TAATAAATTATTAATATAT
1 TAA-AAATAATTAATATAT
944626 TA
1 TA
944628 TGTGATATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 4 0.11
19 22 0.63
20 5 0.14
21 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAAATAATTAATATAT
Found at i:944815 original size:30 final size:30
Alignment explanation
Indices: 944781--944850 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
944771 ATTATTTTTT
**
944781 TATTATATTTTAAAAATAAAAAAATTAAAA
1 TATTATATTTTAAAAATAAAAAAACCAAAA
* **
944811 TATTA-AATTTAAAAATATGAAAACCAAAA
1 TATTATATTTTAAAAATAAAAAAACCAAAA
944840 TATT-TATTTTA
1 TATTATATTTTA
944851 TTATAGCTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 28 0.85
30 5 0.15
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (30 bp):
TATTATATTTTAAAAATAAAAAAACCAAAA
Found at i:945536 original size:31 final size:31
Alignment explanation
Indices: 945467--945548 Score: 130
Period size: 31 Copynumber: 2.6 Consensus size: 31
945457 GTTTAGTTTC
* *
945467 TAATAAAATT-TTATTTAATTTGAATTAAAT
1 TAATTAAATTATTATTTAATTTAAATTAAAT
945497 TAATTTAAATTATTATTTAATTTAAATTAAAT
1 TAA-TTAAATTATTATTTAATTTAAATTAAAT
945529 TAATTAAATTATTATTTAAT
1 TAATTAAATTATTATTTAAT
945549 AATAAAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
30 3 0.06
31 23 0.48
32 22 0.46
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (31 bp):
TAATTAAATTATTATTTAATTTAAATTAAAT
Found at i:945554 original size:27 final size:31
Alignment explanation
Indices: 945472--945548 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 31
945462 GTTTCTAATA
*
945472 AAATT-TTATTTAATTTGAATTAAATTAATTT
1 AAATTATTATTTAA-TTAAATTAAATTAATTT
945503 AAATTATTATTTAATTTAAATTAAATTAA-TT
1 AAATTATTATTTAA-TTAAATTAAATTAATTT
945534 AAATTATTATTTAAT
1 AAATTATTATTTAAT
945549 AATAAAAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 1 0.02
31 21 0.48
32 22 0.50
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (31 bp):
AAATTATTATTTAATTAAATTAAATTAATTT
Found at i:945658 original size:31 final size:29
Alignment explanation
Indices: 945594--945662 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
945584 ATATATAAAT
* * *
945594 ATTAATATATAATAATTTTTAAATTTTTT
1 ATTAATATTTAATAATATTTAAATTTTTA
*
945623 ATTAATATTTAAATAATAATTTACATTTTTA
1 ATTAATATTT-AATAAT-ATTTAAATTTTTA
945654 ATTAA-ATTT
1 ATTAATATTT
945663 TAAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.26
30 10 0.29
31 15 0.44
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (29 bp):
ATTAATATTTAATAATATTTAAATTTTTA
Found at i:949038 original size:27 final size:27
Alignment explanation
Indices: 949008--949079 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
948998 AATTGTATTT
949008 ATATTAAATAATAAAAT-ATAAATTAAA
1 ATATTAAATAATAAAATAAT-AATTAAA
** *
949035 ATA-TATTTATACAAAATAATAATTAAA
1 ATATTAAATA-ATAAAATAATAATTAAA
949062 ATATTAAA-AAT-AAATAAT
1 ATATTAAATAATAAAATAAT
949080 TAAGATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
25 7 0.19
26 5 0.14
27 20 0.56
28 4 0.11
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (27 bp):
ATATTAAATAATAAAATAATAATTAAA
Found at i:949068 original size:35 final size:36
Alignment explanation
Indices: 948979--949070 Score: 98
Period size: 35 Copynumber: 2.5 Consensus size: 36
948969 ATAAATGATA
* **
948979 AATAATTCATAAATATTAAAATTGTATTTATATTAAAT
1 AATAATT-A-AAATATTAAAATTATATTTATACAAAAT
* *
949017 AATAAAATATAA-ATTAAAA-TATATTTATACAAAAT
1 AAT-AATTAAAATATTAAAATTATATTTATACAAAAT
949052 AATAATTAAAATATTAAAA
1 AATAATTAAAATATTAAAA
949071 ATAAATAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
34 6 0.13
35 23 0.51
36 7 0.16
37 2 0.04
38 4 0.09
39 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (36 bp):
AATAATTAAAATATTAAAATTATATTTATACAAAAT
Found at i:949071 original size:21 final size:21
Alignment explanation
Indices: 949047--949092 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
949037 ATATTTATAC
949047 AAAAT-AATAATTAAAATATTA
1 AAAATAAATAATTAAAAT-TTA
*
949068 AAAATAAATAATTAAGATTTA
1 AAAATAAATAATTAAAATTTA
949089 AAAA
1 AAAA
949093 AAAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATAAATAATTAAAATTTA
Found at i:949093 original size:22 final size:23
Alignment explanation
Indices: 949047--949102 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
949037 ATATTTATAC
949047 AAAAT-AATAATTAAAATATT-A
1 AAAATAAATAATTAAAATATTAA
*
949068 AAAATAAATAATTAAGAT-TTAAA
1 AAAATAAATAATTAAAATATT-AA
*
949091 AAAAAAAATAAT
1 AAAATAAATAAT
949103 GGAGGAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 7 0.23
22 11 0.37
23 12 0.40
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATAAATAATTAAAATATTAA
Found at i:949701 original size:18 final size:18
Alignment explanation
Indices: 949680--949751 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 18
949670 ATTATATTTA
949680 AAATATTTATATTTATAT
1 AAATATTTATATTTATAT
* *
949698 AAATTTTTA-ATATA-AT
1 AAATATTTATATTTATAT
949714 -AATAATTTATA-TTATAT
1 AAAT-ATTTATATTTATAT
* *
949731 TAATTTTAATATATTTATAT
1 AAATATT--TATATTTATAT
949751 A
1 A
949752 TTAATATTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
15 3 0.07
16 8 0.20
17 9 0.22
18 11 0.27
19 4 0.10
20 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATATTTATATTTATAT
Found at i:949759 original size:33 final size:34
Alignment explanation
Indices: 949672--949760 Score: 101
Period size: 33 Copynumber: 2.6 Consensus size: 34
949662 TTATGATTAT
*
949672 TATATTTAAAATATTTATATTTATATAAATTTTTAA
1 TATATTT-ATATATTTATA-TTATATAAATTTTTAA
* * *
949708 TATAATAATA-ATTTATATTATATTAA-TTTTAA
1 TATATTTATATATTTATATTATATAAATTTTTAA
*
949740 TATATTTATATATTAATATTA
1 TATATTTATATATTTATATTA
949761 CTTTTATGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
32 14 0.31
33 17 0.38
34 7 0.16
35 2 0.04
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (34 bp):
TATATTTATATATTTATATTATATAAATTTTTAA
Found at i:955212 original size:16 final size:16
Alignment explanation
Indices: 955187--955217 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
955177 TTCCATTCAA
*
955187 TTTTCTCATTTTTTAT
1 TTTTCACATTTTTTAT
955203 TTTTCACATTTTTTA
1 TTTTCACATTTTTTA
955218 ACAAACAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTCACATTTTTTAT
Found at i:955249 original size:2 final size:2
Alignment explanation
Indices: 955242--955268 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
955232 CATAAAGTTT
955242 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
955269 CAATTTCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:956042 original size:2 final size:2
Alignment explanation
Indices: 956035--956061 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
956025 CCTGAATTAA
956035 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
956062 ATTCCAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:958507 original size:17 final size:17
Alignment explanation
Indices: 958487--958521 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
958477 TTTATATGTT
**
958487 TTTTTCTTTTTTTTTTC
1 TTTTTCTTCCTTTTTTC
958504 TTTTTCTTCCTTTTTTC
1 TTTTTCTTCCTTTTTTC
958521 T
1 T
958522 CCATCTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTCCTTTTTTC
Found at i:959080 original size:9 final size:9
Alignment explanation
Indices: 959066--959096 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
959056 TGTTTATATA
959066 TTTTTTATT
1 TTTTTTATT
959075 TTTTTTATT
1 TTTTTTATT
*
959084 TTTTTAATT
1 TTTTTTATT
959093 TTTT
1 TTTT
959097 CATAACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTATT
Found at i:960839 original size:9 final size:9
Alignment explanation
Indices: 960825--960864 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
960815 AGAGGAATAG
960825 GAAAAAGAA
1 GAAAAAGAA
960834 GAAAAAGAAA
1 GAAAAAG-AA
960844 GAAAAAGAA
1 GAAAAAGAA
960853 GAGAAAA-AA
1 GA-AAAAGAA
960862 GAA
1 GAA
960865 GGTGTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.03
9 15 0.52
10 13 0.45
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
GAAAAAGAA
Found at i:960845 original size:10 final size:10
Alignment explanation
Indices: 960825--960860 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
960815 AGAGGAATAG
960825 GAAAAAG-AA
1 GAAAAAGAAA
960834 GAAAAAGAAA
1 GAAAAAGAAA
960844 GAAAAAGAAGA
1 GAAAAAGAA-A
960855 GAAAAA
1 GAAAAA
960861 AGAAGGTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 7 0.28
10 11 0.44
11 7 0.28
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:960849 original size:19 final size:18
Alignment explanation
Indices: 960825--960864 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
960815 AGAGGAATAG
960825 GAAAAAGAAGAAAAAGAAA
1 GAAAAAGAAGAAAAA-AAA
*
960844 GAAAAAGAAGAGAAAAAA
1 GAAAAAGAAGAAAAAAAA
960862 GAA
1 GAA
960865 GGTGTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
GAAAAAGAAGAAAAAAAA
Found at i:960862 original size:12 final size:11
Alignment explanation
Indices: 960825--960865 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
960815 AGAGGAATAG
960825 GAAAAAG-A-A
1 GAAAAAGAAGA
960834 GAAAAAGAA-A
1 GAAAAAGAAGA
960844 GAAAAAGAAGA
1 GAAAAAGAAGA
960855 GAAAAAAGAAG
1 G-AAAAAGAAG
960866 GTGTTTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 7 0.24
10 11 0.38
11 2 0.07
12 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAGA
Found at i:964447 original size:29 final size:29
Alignment explanation
Indices: 964389--964448 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
964379 TAAATTCAAA
* ***
964389 AATATTCGAAGGATATTTTTTTTAATAAG
1 AATATTCCAAGGATATTTTCAATAATAAG
964418 AATATTCCAAGGATATTTGTCAATAA-AAG
1 AATATTCCAAGGATATTT-TCAATAATAAG
964447 AA
1 AA
964449 ATCTTGTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (29 bp):
AATATTCCAAGGATATTTTCAATAATAAG
Found at i:966850 original size:3 final size:3
Alignment explanation
Indices: 966842--966871 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
966832 GCGATGTTGC
966842 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
966872 GAGATGACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:969520 original size:33 final size:31
Alignment explanation
Indices: 969448--969530 Score: 107
Period size: 34 Copynumber: 2.6 Consensus size: 31
969438 TTGTTCATAG
969448 ATAAATAAA-AAAATTTTACTTATTAAAAAA
1 ATAAATAAATAAAATTTTACTTATTAAAAAA
*
969478 ATAATATAAATATAATATTTTATTTA-TAAAATAA
1 ATAA-ATAAATA-AA-ATTTTACTTATTAAAA-AA
969512 ATAAATAAATAAAATTTTA
1 ATAAATAAATAAAATTTTA
969531 ATATTTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
30 4 0.09
31 11 0.23
32 3 0.06
33 14 0.30
34 15 0.32
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (31 bp):
ATAAATAAATAAAATTTTACTTATTAAAAAA
Found at i:969622 original size:22 final size:23
Alignment explanation
Indices: 969596--969653 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
969586 TTTTCTTCAT
*
969596 TTTCTTTCCTTT-ATTCATTTTC
1 TTTCTTTCCTTTCACTCATTTTC
*
969618 TTTCTTT-CTTTCACTCTTTTTC
1 TTTCTTTCCTTTCACTCATTTTC
*
969640 TCTCTTTCCATTTC
1 TTTCTTTCC-TTTC
969654 CTTCCCTCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 21 0.70
23 1 0.03
24 4 0.13
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTCTTTCCTTTCACTCATTTTC
Found at i:969630 original size:18 final size:18
Alignment explanation
Indices: 969569--969652 Score: 57
Period size: 18 Copynumber: 4.6 Consensus size: 18
969559 ACAACAGTTC
*
969569 TCTTTCCTTTCTCTTT-TT
1 TCTTTCATTT-TCTTTCTT
*
969587 TTTCTTCATTTTCTTTCCTT
1 TCT-TTCATTTTCTTT-CTT
*
969607 T-ATTCATTTTCTTTCTT
1 TCTTTCATTTTCTTTCTT
* *
969624 TCTTTCACTCTT-TTTCTC
1 TCTTTCA-TTTTCTTTCTT
969642 TCTTTCCATTT
1 TCTTT-CATTT
969653 CCTTCCCTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
17 4 0.08
18 35 0.66
19 11 0.21
20 3 0.06
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (18 bp):
TCTTTCATTTTCTTTCTT
Found at i:970290 original size:8 final size:8
Alignment explanation
Indices: 970279--970317 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
970269 TAAAAATTAA
*
970279 AAAAAAAG
1 AAAAAAAC
970287 AAAAAAAC
1 AAAAAAAC
970295 AAAAAAAC
1 AAAAAAAC
*
970303 AAAAAAAG
1 AAAAAAAC
970311 AAAAAAA
1 AAAAAAA
970318 TTCTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.90, C:0.05, G:0.05, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:970410 original size:28 final size:28
Alignment explanation
Indices: 970359--970458 Score: 86
Period size: 29 Copynumber: 3.7 Consensus size: 28
970349 AAGAAAATAA
*
970359 GTTAAA-AAATTTGG-TTTAAAAAAATGG
1 GTTAAAGAAAATTGGCTTT-AAAAAATGG
970386 GTTAAAGAAAATTGGCTTCTAAAAAATGG
1 GTTAAAGAAAATTGGCTT-TAAAAAATGG
* * * * *
970415 TTTAAAGAAACTTGGGTTT-ATAAATAG
1 GTTAAAGAAAATTGGCTTTAAAAAATGG
970442 GTT-AA-AAAATTGG-TTTA
1 GTTAAAGAAAATTGGCTTTA
970459 CAAGCTGCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
24 3 0.05
25 7 0.11
26 2 0.03
27 14 0.23
28 8 0.13
29 26 0.43
30 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (28 bp):
GTTAAAGAAAATTGGCTTTAAAAAATGG
Found at i:973720 original size:20 final size:20
Alignment explanation
Indices: 973676--973723 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
973666 GGCAAAATGT
*
973676 GTATCGATACAAGTTCAGGAA
1 GTATCGATACAACTTCA-GAA
973697 GTATCGATACATACTTCA-AA
1 GTATCGATACA-ACTTCAGAA
973717 GTATCGA
1 GTATCGA
973724 GATTGTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 9 0.36
21 11 0.44
22 5 0.20
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (20 bp):
GTATCGATACAACTTCAGAA
Found at i:985589 original size:13 final size:13
Alignment explanation
Indices: 985571--985595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
985561 AGGCATGATT
985571 GTATCGATACAAC
1 GTATCGATACAAC
985584 GTATCGATACAA
1 GTATCGATACAA
985596 TGTCCTATGT
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:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (13 bp):
GTATCGATACAAC
Found at i:986950 original size:19 final size:19
Alignment explanation
Indices: 986905--986961 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
986895 CTACCAGTTT
986905 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGTC
986925 CATGTATCGATACAATGAT-
1 CATGTATCGATACAATG-TC
*
986944 TATGTATCGATACAATGT
1 CATGTATCGATACAATGT
986962 ATCGATACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 1 0.03
19 18 0.51
20 16 0.46
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
CATGTATCGATACAATGTC
Found at i:986963 original size:13 final size:13
Alignment explanation
Indices: 986945--986971 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
986935 TACAATGATT
986945 ATGTATCGATACA
1 ATGTATCGATACA
986958 ATGTATCGATACA
1 ATGTATCGATACA
986971 A
1 A
986972 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:986967 original size:32 final size:33
Alignment explanation
Indices: 986926--986990 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
986916 ACAATTGTCC
* *
986926 ATGTATCGATACAATG-ATTATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
*
986958 ATGTATCGATACAAAGCATAATGTATTGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
986991 TTTGAGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:987611 original size:31 final size:31
Alignment explanation
Indices: 987570--987638 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
987560 AAAAAATTTC
987570 TCCCCCTTGATAATCGATTAAAAAGATTTTT
1 TCCCCCTTGATAATCGATTAAAAAGATTTTT
*
987601 TCCCCTTTGATAATCGATTAAAAAGATTTTT
1 TCCCCCTTGATAATCGATTAAAAAGATTTTT
987632 TCCCCCT
1 TCCCCCT
987639 AAATAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (31 bp):
TCCCCCTTGATAATCGATTAAAAAGATTTTT
Found at i:989565 original size:27 final size:27
Alignment explanation
Indices: 989527--989594 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
989517 CAAAGAATAT
989527 TGTATCGATACATCTGGATTTTCTAGA
1 TGTATCGATACATCTGGATTTTCTAGA
989554 TGTATCGATACATCTGGATTTTCTAGA
1 TGTATCGATACATCTGGATTTTCTAGA
989581 TGTATCGATACATC
1 TGTATCGATACATC
989595 CTTCAATTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (27 bp):
TGTATCGATACATCTGGATTTTCTAGA
Found at i:989697 original size:20 final size:20
Alignment explanation
Indices: 989672--989718 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
989662 CTATAGACTT
989672 TAATTCACATAAAACAA-ATA
1 TAATTCA-ATAAAACAACATA
*
989692 TAATTCAATAACACAACATA
1 TAATTCAATAAAACAACATA
*
989712 AAATTCA
1 TAATTCA
989719 TCAAATAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (20 bp):
TAATTCAATAAAACAACATA
Found at i:995990 original size:13 final size:13
Alignment explanation
Indices: 995972--995996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
995962 CATTTTATGG
995972 TGTATCGATACAA
1 TGTATCGATACAA
995985 TGTATCGATACA
1 TGTATCGATACA
995997 TACTGTGTGT
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:996012 original size:32 final size:33
Alignment explanation
Indices: 995949--996016 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
995939 CGTTACAAGC
**
995949 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
995982 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
996014 CAA
1 CAA
996017 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:996098 original size:20 final size:21
Alignment explanation
Indices: 996048--996100 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
996038 GCCAATGACC
**
996048 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
* *
996069 AGTATTGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
996089 TGTATCGATACA
1 TGTATCGATACA
996101 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:996106 original size:13 final size:13
Alignment explanation
Indices: 996088--996112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
996078 ACATTTGGTC
996088 ATGTATCGATACA
1 ATGTATCGATACA
996101 ATGTATCGATAC
1 ATGTATCGATAC
996113 TGTGCAACAT
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):
ATGTATCGATACA
Found at i:998581 original size:13 final size:13
Alignment explanation
Indices: 998563--998601 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
998553 ATAATCCCCT
998563 TGTATCGATACAG
1 TGTATCGATACAG
*
998576 TGTATCGATACAA
1 TGTATCGATACAG
998589 TGTATCGATACAG
1 TGTATCGATACAG
998602 AGAATGCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1003132 original size:9 final size:9
Alignment explanation
Indices: 1003118--1003148 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1003108 TCTGAGTCAC
*
1003118 CATCATCAT
1 CATCATCTT
1003127 CATCATCTT
1 CATCATCTT
1003136 CATCATCTT
1 CATCATCTT
1003145 CATC
1 CATC
1003149 GCCCTTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (9 bp):
CATCATCTT
Found at i:1004768 original size:13 final size:13
Alignment explanation
Indices: 1004750--1004774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1004740 CATTTTATGG
1004750 TGTATCGATACAA
1 TGTATCGATACAA
1004763 TGTATCGATACA
1 TGTATCGATACA
1004775 TACTGTGTGT
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:1004790 original size:32 final size:33
Alignment explanation
Indices: 1004727--1004794 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1004717 CGTTACAAGC
**
1004727 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
1004760 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
1004792 CAA
1 CAA
1004795 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:1005713 original size:20 final size:19
Alignment explanation
Indices: 1005688--1005740 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1005678 ATTAGAAGTA
1005688 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGTC--C
1005708 ATGTATCGATACAATGTCC
1 ATGTATCGATACAATGTCC
*
1005727 ATATATCGATACAA
1 ATGTATCGATACAA
1005741 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 14 0.45
20 15 0.48
21 2 0.06
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACAATGTCC
Found at i:1005735 original size:19 final size:19
Alignment explanation
Indices: 1005691--1005740 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
1005681 AGAAGTAATG
*
1005691 TATCGATACAATTCATCATG
1 TATCGATACAATTCA-CATA
1005711 TATCGATACAATGTC-CATA
1 TATCGATACAAT-TCACATA
1005730 TATCGATACAA
1 TATCGATACAA
1005741 ACAGTGGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 14 0.50
20 12 0.43
21 2 0.07
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (19 bp):
TATCGATACAATTCACATA
Found at i:1005815 original size:19 final size:18
Alignment explanation
Indices: 1005768--1005824 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 18
1005758 ACTGCAAGTT
1005768 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
1005787 TCCAATGTATCGATACAATG
1 T-C-ATGTATCGATACAATG
*
1005807 ATCATGTATCAATACAAT
1 -TCATGTATCGATACAAT
1005825 ATATCGATAC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 15 0.44
20 4 0.12
21 15 0.44
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1013864 original size:53 final size:53
Alignment explanation
Indices: 1013807--1013941 Score: 252
Period size: 53 Copynumber: 2.5 Consensus size: 53
1013797 TAATGCACAG
*
1013807 TATCGATACAATGTATCGATACATGACCACTATATCGATACTTGCAAAGATTA
1 TATCGATACATTGTATCGATACATGACCACTATATCGATACTTGCAAAGATTA
*
1013860 TATCGATACATTGTATCGATACATGACCACTGTATCGATACTTGCAAAGATTA
1 TATCGATACATTGTATCGATACATGACCACTATATCGATACTTGCAAAGATTA
1013913 TATCGATACATTGTATCGATACATGACCA
1 TATCGATACATTGTATCGATACATGACCA
1013942 AATGTATCGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 80 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (53 bp):
TATCGATACATTGTATCGATACATGACCACTATATCGATACTTGCAAAGATTA
Found at i:1020137 original size:13 final size:13
Alignment explanation
Indices: 1020118--1020156 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1020108 ACAACATTCT
1020118 CTGTATCGATACA
1 CTGTATCGATACA
*
1020131 TTGTATCGATACA
1 CTGTATCGATACA
1020144 CTGTATCGATACA
1 CTGTATCGATACA
1020157 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:1022718 original size:13 final size:13
Alignment explanation
Indices: 1022700--1022725 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1022690 ACATACAAGA
1022700 TGTATCGATACAT
1 TGTATCGATACAT
1022713 TGTATCGATACAT
1 TGTATCGATACAT
1022726 GACAAAATGT
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:1022741 original size:33 final size:32
Alignment explanation
Indices: 1022680--1022747 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
1022670 CCTTAACTGT
* *
1022680 TTGTATTGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAAATGTATCGATACA
1022712 TTGTATCGATACATGACAAAATGTATCGATACA
1 TTGTATCGATACAT-ACAAAATGTATCGATACA
1022745 TTG
1 TTG
1022748 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATACAAAATGTATCGATACA
Found at i:1023839 original size:20 final size:20
Alignment explanation
Indices: 1023816--1023855 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1023806 TACCGATATT
1023816 TTTCATAATATATCGATACA
1 TTTCATAATATATCGATACA
* *
1023836 TTTCATCATGTATCGATACA
1 TTTCATAATATATCGATACA
1023856 ATGTCCTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTCATAATATATCGATACA
Found at i:1023962 original size:13 final size:13
Alignment explanation
Indices: 1023944--1023970 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1023934 TACACGAAGC
1023944 ATGTATCGATACA
1 ATGTATCGATACA
1023957 ATGTATCGATACA
1 ATGTATCGATACA
1023970 A
1 A
1023971 AGCATTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1023981 original size:18 final size:17
Alignment explanation
Indices: 1023925--1024007 Score: 84
Period size: 18 Copynumber: 4.8 Consensus size: 17
1023915 ACAATTGAGT
1023925 ATGTATCGATACACGAAGC
1 ATGTATCGATACA--AAGC
1023944 ATGTATCGATAC--A--
1 ATGTATCGATACAAAGC
1023957 ATGTATCGATACAAAGC
1 ATGTATCGATACAAAGC
1023974 ATTGTATCGATACAAAGC
1 A-TGTATCGATACAAAGC
1023992 ATAATGTATCGATACA
1 ---ATGTATCGATACA
1024008 TCTAGATATG
Statistics
Matches: 56, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
13 12 0.21
15 2 0.04
17 1 0.02
18 16 0.29
19 12 0.21
20 12 0.21
21 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (17 bp):
ATGTATCGATACAAAGC
Found at i:1024001 original size:20 final size:20
Alignment explanation
Indices: 1023956--1024007 Score: 90
Period size: 18 Copynumber: 2.7 Consensus size: 20
1023946 GTATCGATAC
1023956 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
1023976 --TGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
1023994 AATGTATCGATACA
1 AATGTATCGATACA
1024008 TCTAGATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 18 0.60
20 12 0.40
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGCAT
Found at i:1025657 original size:141 final size:139
Alignment explanation
Indices: 1025486--1025992 Score: 590
Period size: 141 Copynumber: 3.6 Consensus size: 139
1025476 AATATAATAT
* * *
1025486 TTTATTTTTTTAATTTTCAAAAATCTCATTTCATACCTTAATGGAGAACTGCAAAGATACGAAAA
1 TTTA-TTTTTTAATCTTCAAAAAT-TCATTTCGTACCTTAATGGAGAA-TGAAAAGATACGAAAA
* * * * *
1025551 GTTTTGAAGATTTCTATACCCCTACGGAAAACCATAAAAATATTAAAAATATTGAAAAATTAATA
63 GTTTTAAAGATTTCTATACCCCTACGGAAAATCATAAAAATATTAGAAATCTTGAAAAATTAAGA
1025616 TAATAATTTTTA
128 TAATAATTTTTA
* * * *
1025628 TTTATTTTTTAATCTTCAAAAAATTCATTTTGTAACTTAATTGAGAAT-AAAAAATACACGAAAA
1 TTTATTTTTTAATCTTC-AAAAATTCATTTCGTACCTTAATGGAGAATGAAAAGAT--ACGAAAA
** *
1025692 GTTTTAAAGATTTCTATACCCCTACAAAAAATCATAAAAATAATAGAAATCTTGAAAAATTAAGA
63 GTTTTAAAGATTTCTATACCCCTACGGAAAATCATAAAAATATTAGAAATCTTGAAAAATTAAGA
1025757 TAATAATTTTTA
128 TAATAATTTTTA
* * * * ** *
1025769 TTTAATTTTTAATC-TCCAAAATTAATTTCGTTCCTTAATGGAGAACCAAAAAGATACGAAATGT
1 TTTATTTTTTAATCTTCAAAAATTCATTTCGTACCTTAATGGAGAA-TGAAAAGATACGAAAAGT
* * *
1025833 TTTAAAGATTTCTATACCCCTATGGTAGAATCATAAGAATATTAGAAATCTTGAAAAATTAAGAT
65 TTTAAAGATTTCTATACCCCTACGG-AAAATCATAAAAATATTAGAAATCTTGAAAAATTAAGAT
1025898 AATAATTTTTA
129 AATAATTTTTA
* * * * * *
1025909 TTTGA-TATTTAATTTTCAAAAAACTT-ATTTTGTACCATAATGGAGAATCGAAAAGATTCAAAA
1 TTT-ATTTTTTAATCTTC-AAAAA-TTCATTTCGTACCTTAATGGAGAAT-GAAAAGATACGAAA
*
1025972 AGTTTTAAAGATTTATATACC
62 AGTTTTAAAGATTTCTATACC
1025993 TCAATGAATA
Statistics
Matches: 311, Mismatches: 43, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
139 58 0.19
140 60 0.19
141 129 0.41
142 62 0.20
143 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.37
Consensus pattern (139 bp):
TTTATTTTTTAATCTTCAAAAATTCATTTCGTACCTTAATGGAGAATGAAAAGATACGAAAAGTT
TTAAAGATTTCTATACCCCTACGGAAAATCATAAAAATATTAGAAATCTTGAAAAATTAAGATAA
TAATTTTTA
Found at i:1026856 original size:2 final size:2
Alignment explanation
Indices: 1026811--1026837 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1026801 CACACACACG
1026811 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1026838 CAATGCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1026875 original size:21 final size:21
Alignment explanation
Indices: 1026846--1026886 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1026836 ATCAATGCAA
1026846 ACTCAATATATTCCATAACATG
1 ACTCAATATATT-CATAACATG
*
1026868 ACTC-ATATGTTCATAACAT
1 ACTCAATATATTCATAACAT
1026887 CATGGAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (21 bp):
ACTCAATATATTCATAACATG
Found at i:1027148 original size:20 final size:21
Alignment explanation
Indices: 1027106--1027148 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
1027096 CTTTTTCTTT
*
1027106 TTTTCTTTTTAATTTTCTATC
1 TTTTCTTTTTAATTTTATATC
* *
1027127 TTTT-TTTTTCATTTTATTTC
1 TTTTCTTTTTAATTTTATATC
1027147 TT
1 TT
1027149 CCATGCCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTTTTTAATTTTATATC
Found at i:1027355 original size:16 final size:16
Alignment explanation
Indices: 1027322--1027359 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1027312 AAATTTAAAA
* *
1027322 TAAAA-TAAGTAAATT
1 TAAAATTAAGAAAAGT
1027337 TAAAATTAAGAAAAGT
1 TAAAATTAAGAAAAGT
1027353 TAAAATT
1 TAAAATT
1027360 TTAAATCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (16 bp):
TAAAATTAAGAAAAGT
Found at i:1031159 original size:33 final size:33
Alignment explanation
Indices: 1031122--1031188 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1031112 TTCAACGATC
1031122 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1031155 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1031188 T
1 T
1031189 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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1031160 original size:13 final size:13
Alignment explanation
Indices: 1031142--1031166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1031132 CATAAAATGT
1031142 TGTATCGATACAA
1 TGTATCGATACAA
1031155 TGTATCGATACA
1 TGTATCGATACA
1031167 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:1031250 original size:13 final size:13
Alignment explanation
Indices: 1031232--1031256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1031222 ATTACTCATA
1031232 TGTATCGATACAT
1 TGTATCGATACAT
1031245 TGTATCGATACA
1 TGTATCGATACA
1031257 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1031393 original size:52 final size:52
Alignment explanation
Indices: 1031265--1031385 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1031255 CACTGATCTT
*
1031265 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1031317 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1031369 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1031386 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1038674 original size:23 final size:24
Alignment explanation
Indices: 1038630--1038674 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
1038620 TTTTTTCTTG
* *
1038630 AAAATTTTCCTATTTCCGAAATAA
1 AAAATTTTCCTACTTCAGAAATAA
*
1038654 AAAATTTT-CTACTTCATAAAT
1 AAAATTTTCCTACTTCAGAAAT
1038675 GTTTTTATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (24 bp):
AAAATTTTCCTACTTCAGAAATAA
Found at i:1039056 original size:166 final size:164
Alignment explanation
Indices: 1038438--1039726 Score: 1475
Period size: 165 Copynumber: 7.8 Consensus size: 164
1038428 AATTTCTTTT
* * *
1038438 ATTTT-ATGAGTTATTG-ATTTTCTTTTAG-AATTTTTCATGTTTTCGAAATAC-GAAATTTTCT
1 ATTTTCATGAGTT-TTGAATTTT-TTTTGGAAATTCTTC-TATTTTCGAAATACAG-AATTTTCT
* * * * * *
1038499 ATTCTATAAATGTTTTAGCGGGATTTTTTTTGGTTTTTAATTTCTAAAATTCATCAAATATTATT
62 ACTCCATAAATGTTTTCGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATT
* * *
1038564 ATTTAATTCATATTCAATCAGTTTTTAAAAATTTATTC
127 ATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTC
* * * * *
1038602 ATTTTCATGAGTTTTGATTTTTTTCTTGAAAATT-TTCCTATTTCCGAAATAAAAAATTTTCTAC
1 ATTTTCATGAGTTTTGAATTTTTT-TTGGAAATTCTT-CTATTTTCGAAATACAGAATTTTCTAC
* ** *
1038666 TTCATAAATGTTTTTATGAGGATTTTTCTTGGTTTTTAATTTTTAAAA-T-ATCAAATATTA-TA
64 TCCATAAATG-TTTTCGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTA
* *
1038728 TTTTATTCATATTAAATCAGTTTTCAAAAATTTATTC
128 TTTAATTCATATTAAATCAGTTTTCAAAAATTCATTC
* *
1038765 ATTTTCAT-AGGTTTGGAATTTTTCTTGGAAATTC-TCTTATTTTCGAAATACA-AATTTTTCTA
1 ATTTTCATGA-GTTTTGAATTTTTTTTGGAAATTCTTC-TATTTTCGAAATACAGAA-TTTTCTA
* *
1038827 CTCCATAAATATTTTCGAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTA
63 CTCCATAAATGTTTTCGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTA
*
1038892 TTTAATTCATATTAAATCAGTTGTCAAAAATTCATTC
128 TTTAATTCATATTAAATCAGTTTTCAAAAATTCATTC
* * * *
1038929 ATTTTCATAAGTTTTGAAGTTTTTTTTGGAAATTCTTCTATTTTTGAGATATAGAATTTTCTACT
1 ATTTTCATGAGTTTTGAA-TTTTTTTTGGAAATTCTTCTATTTTCGAAATACAGAATTTTCTACT
* *
1038994 CCATAAATGTTTTCGGGGAGATTTTTCTTAGTTTTTAATTTTTACAATTCAT-ATAATATTATTA
65 CCATAAATGTTTTCGGGG-GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA-AATATTATTA
* *
1039058 TTTAATTCATAGTAAATCA-ATTTCTAAAAATTCATTC
128 TTTAATTCATATTAAATCAGTTTTC-AAAAATTCATTC
* * * * * *
1039095 ATTTTTATGAGTTTTGAATTTTGATCTTGAAAATTC-TCTTATTTTTGAAACACAGAGTTTTCTA
1 ATTTTCATGAGTTTTGAATTTT--TTTTGGAAATTCTTC-TATTTTCGAAATACAGAATTTTCTA
* * * * *
1039159 CTCTATAAATATTTTTGGAAGGATTTTTCTTGGTTTTTAATTTTCAAAATTCATCAAATATTATT
63 CTCCATAAATGTTTTCGG-GGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATT
1039224 ATTTAATTCATATTAAATCAGTTTT-AAAAATTCATTC
127 ATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTC
* * * *
1039261 ATTTTCATGAGTTTTAAATTTTTTTCTTGAAAATTC-TCCAATTTCTG-AATAC-GAAATTTTCT
1 ATTTTCATGAGTTTTGAA-TTTTTT-TTGGAAATTCTTCTATTTTC-GAAATACAG-AATTTTCT
* * * * * *
1039323 ATTTCAAAAATGTTTTTAGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTTATGAAATATTA-
62 ACTCCATAAATG-TTTTCGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTAT
* * *
1039387 CATTTAATTCATATTAAATTAGTTGTCAAAAATTCATTC
126 TATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTC
* * * * * * *
1039426 ATTTTCATTAGTTTGGAATTTTTTCTTAGAAATTCTCCTCTTTTCAAAATA-TGAAGTTTTCTAC
1 ATTTTCATGAGTTTTGAATTTTTT-TTGGAAATTCTTCTATTTTCGAAATACAGAA-TTTTCTAC
* **
1039490 TCCATAAATGTTTTCGAGGGGATTTTTCTTAGTTTTTTGTTTTTAAAATTCATCAAATATTATTA
64 TCCATAAATGTTTTCG-GGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTA
* *
1039555 TTTAATTCATATTAAATCATTTTTTAAAAATTCATTC
128 TTTAATTCATATTAAATCAGTTTTCAAAAATTCATTC
* * *
1039592 ATTTTCATGAGTTTTGAATTTTTCTTGGAAATTCTTCTATTTTCGAAACACAGAGTTTTCTACTC
1 ATTTTCATGAGTTTTGAATTTTTTTTGGAAATTCTTCTATTTTCGAAATACAGAATTTTCTACTC
* * * *
1039657 CATAAATGTTTTTGAGGGAATTTTTCTTGGTTTTTAATTTTTAAAATTCATCTAATATTGTTATT
66 CATAAATGTTTTCG-GGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATT
*
1039722 AAATT
130 TAATT
1039727 GTCATAAAAT
Statistics
Matches: 960, Mismatches: 125, Indels: 79
0.82 0.11 0.07
Matches are distributed among these distances:
161 36 0.04
162 40 0.04
163 66 0.07
164 118 0.12
165 353 0.37
166 234 0.24
167 108 0.11
168 5 0.01
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (164 bp):
ATTTTCATGAGTTTTGAATTTTTTTTGGAAATTCTTCTATTTTCGAAATACAGAATTTTCTACTC
CATAAATGTTTTCGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT
AATTCATATTAAATCAGTTTTCAAAAATTCATTC
Found at i:1039488 original size:497 final size:492
Alignment explanation
Indices: 1038477--1039726 Score: 1664
Period size: 497 Copynumber: 2.5 Consensus size: 492
1038467 ATTTTTCATG
* * * * * * *
1038477 TTTTCGAAATACGAAATTTTCTATTCTATAAATGTTTTAGCGGGATTTTTTTTGGTTTTTAATTT
1 TTTTCGAAATATG-AATTTTCTACTCCATAAATGTTTTCGGGGGATTTTTCTTAGTTTTTAATTT
* * * *
1038542 CTAAAATTCATCAAATATTATTATTTAATTCATATTCAATCAGTTTTTAAAAATTTATTCATTTT
65 TTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAATTCATTCATTTT
* * * * * * * *
1038607 CATGAGTTTTGATTTTTTTCTTGAAAATTTTCCTATTTCCGAAATAAAAAATTTTCTACT-TCAT
130 CATGAGTTTTGA-ATTTTTCTTGAAAATTCTCTTATTTTCGAAACACAGAGTTTTCTACTCT-AT
*
1038671 AAATGTTTTT-ATGAGGATTTTTCTTGGTTTTTAATTTTTAAAA-T-ATCAAATATTA-TATTTT
193 AAATGTTTTTGA--AGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA
* * *
1038732 ATTCATATTAAATCAGTTTTCAAAAATTTATTCATTTTCATAGGTTTGGAATTTTTCTTGGAAAT
256 ATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATAGGTTTGAAATTTTTCTTGAAAAT
** * *
1038797 TCTCTTATTTTCGAAATACAAATTTTTCTACTCCATAAATATTTTCGAGGGATTTTTCTTGGTTT
321 TCTCCAATTTTCGAAATACAAATTTTTCTACTCCAAAAATATTTTAGAGGGATTTTTCTTGGTTT
*
1038862 TTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTGTCAAAAATTCAT
386 TTAATTTTTAAAATTCATCAAATATTATCATTTAATTCATATTAAATCAGTTGTCAAAAATTCAT
* * *
1038927 TCATTTTCATAAGTTTTGAAGTTTTTTTTGGAAATTCTTCTA
451 TCATTTTCATAAGTTTGGAAGTTTTTTTTAGAAATTCTCCTA
* *
1038969 TTTTTGAGATATAGAATTTTCTACTCCATAAATGTTTTCGGGGAGATTTTTCTTAGTTTTTAATT
1 TTTTCGAAATAT-GAATTTTCTACTCCATAAATGTTTTCGGGG-GATTTTTCTTAGTTTTTAATT
* * *
1039034 TTTACAATTCAT-ATAATATTATTATTTAATTCATAGTAAATCAATTTCTAAAAATTCATTCATT
64 TTTAAAATTCATCA-AATATTATTATTTAATTCATATTAAATCAATTTTTAAAAATTCATTCATT
* *
1039098 TTTATGAGTTTTGAATTTTGATCTTGAAAATTCTCTTATTTTTGAAACACAGAGTTTTCTACTCT
128 TTCATGAGTTTTGAATTTT--TCTTGAAAATTCTCTTATTTTCGAAACACAGAGTTTTCTACTCT
* *
1039163 ATAAATATTTTTGGAAGGATTTTTCTTGGTTTTTAATTTTCAAAATTCATCAAATATTATTATTT
191 ATAAATGTTTTT-GAAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT
*
1039228 AATTCATATTAAATCAGTTTT-AAAAATTCATTCATTTTCAT-GAGTTTTAAATTTTTTTCTTGA
255 AATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATAG-GTTTGAAA--TTTTTCTTGA
* * * *
1039291 AAATTCTCCAA-TTTCTG-AATACGAAA-TTTTCTATTTCAAAAATGTTTTTAGGGGGATTTTTC
317 AAATTCTCCAATTTTC-GAAATAC-AAATTTTTCTACTCCAAAAAT-ATTTTAGAGGGATTTTTC
* * *
1039353 TTGGTTTTTAATTTTTAAAATTTATGAAATATTA-CATTTAATTCATATTAAATTAGTTGTCAAA
379 TTGGTTTTTAATTTTTAAAATTCATCAAATATTATCATTTAATTCATATTAAATCAGTTGTCAAA
* *
1039417 AATTCATTCATTTTCATTAGTTTGGAA-TTTTTTCTTAGAAATTCTCCTC
444 AATTCATTCATTTTCATAAGTTTGGAAGTTTTTT-TTAGAAATTCTCCTA
* **
1039466 TTTTCAAAATATGAAGTTTTCTACTCCATAAATGTTTTCGAGGGGATTTTTCTTAGTTTTTTGTT
1 TTTTCGAAATATGAA-TTTTCTACTCCATAAATGTTTTCG-GGGGATTTTTCTTAGTTTTTAATT
*
1039531 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCATTTTTTAAAAATTCATTCATTT
64 TTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAATTCATTCATTT
* *
1039596 TCATGAGTTTTGAATTTTTCTTGGAAATTCT-TCTATTTTCGAAACACAGAGTTTTCTACTCCAT
129 TCATGAGTTTTGAATTTTTCTTGAAAATTCTCT-TATTTTCGAAACACAGAGTTTTCTACTCTAT
* * * *
1039660 AAATGTTTTTGAGGGAATTTTTCTTGGTTTTTAATTTTTAAAATTCATCTAATATTGTTATTAAA
193 AAATGTTTTTGAAGG-ATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAA
1039725 TT
257 TT
1039727 GTCATAAAAT
Statistics
Matches: 666, Mismatches: 69, Indels: 43
0.86 0.09 0.06
Matches are distributed among these distances:
492 39 0.06
493 88 0.13
494 79 0.12
495 100 0.15
496 46 0.07
497 241 0.36
498 73 0.11
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (492 bp):
TTTTCGAAATATGAATTTTCTACTCCATAAATGTTTTCGGGGGATTTTTCTTAGTTTTTAATTTT
TAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAATTCATTCATTTTC
ATGAGTTTTGAATTTTTCTTGAAAATTCTCTTATTTTCGAAACACAGAGTTTTCTACTCTATAAA
TGTTTTTGAAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCA
TATTAAATCAGTTTTCAAAAATTCATTCATTTTCATAGGTTTGAAATTTTTCTTGAAAATTCTCC
AATTTTCGAAATACAAATTTTTCTACTCCAAAAATATTTTAGAGGGATTTTTCTTGGTTTTTAAT
TTTTAAAATTCATCAAATATTATCATTTAATTCATATTAAATCAGTTGTCAAAAATTCATTCATT
TTCATAAGTTTGGAAGTTTTTTTTAGAAATTCTCCTA
Found at i:1040078 original size:11 final size:10
Alignment explanation
Indices: 1040061--1040109 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
1040051 ACAAGTAAAA
1040061 AAAAAAAGAG
1 AAAAAAAGAG
*
1040071 AGAAAAAAAAG
1 A-AAAAAAGAG
1040082 AAGAAAAAGAG
1 AA-AAAAAGAG
1040093 AGAAAAAAG-G
1 A-AAAAAAGAG
1040103 AAAAAAA
1 AAAAAAA
1040110 ACAAAGCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 6 0.18
10 4 0.12
11 23 0.68
12 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:1040078 original size:13 final size:13
Alignment explanation
Indices: 1040060--1040100 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
1040050 AACAAGTAAA
1040060 AAAAAAAAGAGAG
1 AAAAAAAAGAGAG
1040073 AAAAAAAAGA-AG
1 AAAAAAAAGAGAG
1040085 ---AAAAAGAGAG
1 AAAAAAAAGAGAG
1040095 AAAAAA
1 AAAAAA
1040101 GGAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
9 7 0.29
10 2 0.08
12 2 0.08
13 13 0.54
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAG
Found at i:1040110 original size:22 final size:20
Alignment explanation
Indices: 1040057--1040110 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 20
1040047 TTCAACAAGT
1040057 AAAAAAAAAAAGAGAGAAAA
1 AAAAAAAAAAAGAGAGAAAA
1040077 AAAAGAAGAAAAAGAGAGAAAA
1 AAAA-AA-AAAAAGAGAGAAAA
*
1040099 AAGGAAAAAAAA
1 AA-AAAAAAAAA
1040111 CAAAGCAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.13
21 7 0.23
22 18 0.60
23 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAGAGAGAAAA
Found at i:1041235 original size:153 final size:150
Alignment explanation
Indices: 1040959--1041377 Score: 583
Period size: 153 Copynumber: 2.8 Consensus size: 150
1040949 AGGTTTTTCA
* *
1040959 AAAATTAAAAATCAAATAAAAACTAAATAAAAATTATTGTCCTAATTTTCTAAAATTTCTAATAT
1 AAAATTAAAAATCAAATAAAAACTAAATAAAAAATATTATCCTAATTTTC-AAAATTTCTAATAT
**
1041024 TCTTATGGGTAT-TCATAAAGGTATGAAAATTTTTAAAACTTTTTGTATCTATTCGGTTTTCCAT
65 TCTTATGGGTATCT-ATAGGGGTATGAAAATTTTTAAAACTTTTTGTATCTATTCGGTTTTCCAT
*
1041088 TAAGGTATGAAATGAATTTTTT
129 TAAAGTATGAAATGAATTTTTT
* *
1041110 GAAAATTACAAATCAGATAAAAACTAAATAAAAAAGTATTATCCTAATTTTTCAAAATTTCTAAT
1 -AAAATTAAAAATCAAATAAAAACTAAATAAAAAA-TATTATCCTAA-TTTTCAAAATTTCTAAT
* * * * * *
1041175 ATTCTTATGGGTATCTATAGGGGTATGAAAATTTTCAAAACCTTTCGTATTTTTTTGGTTTTCCA
63 ATTCTTATGGGTATCTATAGGGGTATGAAAATTTTTAAAACTTTTTGTATCTATTCGGTTTTCCA
1041240 TTAAAGTATGAAATGAATTTTTT
128 TTAAAGTATGAAATGAATTTTTT
* * * *
1041263 AGAATTTAAAAATCACATAAAAATTAAATAAAAAATATTAT-CTCAATTTTCAAAATTTTTAATA
1 A-AAATTAAAAATCAAATAAAAACTAAATAAAAAATATTATCCT-AATTTTCAAAATTTCTAATA
*
1041327 TT-TCTATGGGTATCCATAGGGGTATGAAAATTTTTAAAACTTTTTGTATCT
64 TTCT-TATGGGTATCTATAGGGGTATGAAAATTTTTAAAACTTTTTGTATCT
1041378 CCTAATTTTT
Statistics
Matches: 238, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
150 1 0.00
151 63 0.26
152 40 0.17
153 128 0.54
154 6 0.03
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (150 bp):
AAAATTAAAAATCAAATAAAAACTAAATAAAAAATATTATCCTAATTTTCAAAATTTCTAATATT
CTTATGGGTATCTATAGGGGTATGAAAATTTTTAAAACTTTTTGTATCTATTCGGTTTTCCATTA
AAGTATGAAATGAATTTTTT
Found at i:1043034 original size:73 final size:73
Alignment explanation
Indices: 1042863--1043673 Score: 489
Period size: 73 Copynumber: 11.1 Consensus size: 73
1042853 ATGTTACGAC
* ** * * *
1042863 ACCTACCACAAAGCCCACACAAACTTATGGCACCTATCTACCTTCAGTTCTCAAAAAGCA-AGAC
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAAA--ATAG-G
1042927 AT-TTTTTCTT
63 ATGTTTTTCTT
* * * * * *
1042937 ATCGACCACAAAGCCTATATAAGCTGGTGGCACCTATCTACCTCGAGTCCTCAAAAAATAGGATG
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAAAATAGGATG
*
1043002 CTTTTCTT
66 TTTTTCTT
* * * * * ** * *
1043010 ACTTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTCCAATCTTTAAAAAGCAAGACG
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAAAATAGGATG
1043075 TTTTTCTT
66 TTTTTCTT
* * * ** * * **
1043083 ACCTACCACAAAACCTAAACAAGCTAATGGCACCTATCTACCT--A-T--TCAAAGAGCAGAACA
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAA-A-AATAGGA
1043143 T-TTTTTCTT
64 TGTTTTTCTT
* ** * * ** * *
1043152 ACCTACCACAAAGCCTACACAAGCTGGTGGCTTCTATCCACCTCCAGTCCTCAAAGAGCAGAACG
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAAAATAGGATG
*
1043217 -CTTTCTT
66 TTTTTCTT
* * * * * ** * ** * *
1043224 ATCTACCACAAAACTCACACAAG-TTGTGGCACCTATCTACCTCTAACCCTCAAAGAGCAAGACG
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAAAATAGGATG
1043288 TTTTTCTT
66 TTTTTCTT
* * * ** *
1043296 ACCTATCACAAAGCCCACAAAAGCTGGTAGTGCCTATCTACCTCCAGTCCTCAAAGAGTATAACG
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAA-A-AAT-A-G
** * *
1043361 TTTTTTTTTTTTT
62 -GATGTTTTTCTT
* * * * * * * * * *
1043374 ACATATCATAAAGCCCATACAAGTTGATGGCACTTATCTACCTCTAGTCTTCAAAAAGCAT-GAC
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAAA--ATAG-G
*
1043438 ATTTTTTTCTT
63 ATGTTTTTCTT
* * * * * * * * ** **
1043449 ACCTACCACAAAACCCATATAAGTTGGTGGCACCTATCTAGCACCAGTCCTCAAAGAGTAAAACA
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAAAATAGGATG
*
1043514 CTTTTCTT
66 TTTTTCTT
* * * * * * * * *
1043522 ACTTACCACAAAG-CC-TACAAGCTCGTGTCACCTATTTACCTCTAG-CCTTCAAAGAACAAGAT
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCC-TCAAAAAATAGGAT
1043584 GTTTTTCTT
65 GTTTTTCTT
* * * *
1043593 ACCTACCATAAAGCCCACATAAGCTGGTGGCACCTATCTACCTCTAGTCCTCAAAGAATAGGATG
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAAAATAGGATG
*
1043658 TTTTTCGT
66 TTTTTCTT
1043666 ACCTACCA
1 ACCTACCA
1043674 TATGTTTTTT
Statistics
Matches: 561, Mismatches: 152, Indels: 49
0.74 0.20 0.06
Matches are distributed among these distances:
68 4 0.01
69 45 0.08
70 6 0.01
71 84 0.15
72 59 0.11
73 201 0.36
74 53 0.09
75 55 0.10
76 1 0.00
77 1 0.00
78 52 0.09
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.28
Consensus pattern (73 bp):
ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAAAATAGGATG
TTTTTCTT
Found at i:1043320 original size:144 final size:145
Alignment explanation
Indices: 1042863--1043649 Score: 616
Period size: 144 Copynumber: 5.4 Consensus size: 145
1042853 ATGTTACGAC
* ** * * *
1042863 ACCTACCACAAAGCCCACACAAACTTATGGCACCTATCTACCTTCAGTTCTCAAAAAGCAAGACA
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAGCAA-AC-
* * * * * * * *
1042928 TTTTTTCTTATCGACCACAAAGCCTATATAAGCTGGTGGCACCTATCTACCTCGAGTCC-TCAAA
64 GTCTTTCTTATCTACCACAAAACC-ATACAAGCTTGTGGCACCTATCTACCTCTA-ACCTTCAAA
* ** * * *
1042992 AAATAGGA-TGCTTTTCTT
127 GAGCAAGACAGTTTTTCTT
* * * * * *
1043010 ACTTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTCCAATCTTTAAAAAGCAAGACG
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAGCAA-ACG
* * * **
1043075 TTTTTCTTACCTACCACAAAACCTAAACAAGCTAATGGCACCTATCTA-C-CT-A--TTCAAAGA
65 TCTTTCTTATCTACCACAAAACC-ATACAAGCTTGTGGCACCTATCTACCTCTAACCTTCAAAGA
*
1043135 GC-AGAACATTTTTTCTT
129 GCAAG-ACAGTTTTTCTT
* ** *
1043152 ACCTACCACAAAGCCTACACAAGCTGGTGGCTTCTATCCACCTCCAGTCCTCAAAGAGCAGAACG
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAGCA-AACG
* *
1043217 -CTTTCTTATCTACCACAAAACTCACACAAG-TTGTGGCACCTATCTACCTCTAACCCTCAAAGA
65 TCTTTCTTATCTACCACAAAAC-CATACAAGCTTGTGGCACCTATCTACCTCTAACCTTCAAAGA
1043280 GCAAGAC-GTTTTTCTT
129 GCAAGACAGTTTTTCTT
* * * ** *
1043296 ACCTATCACAAAGCCCACAAAAGCTGGTAGTGCCTATCTACCTCCAGTCCTCAAAGAGTATAACG
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAGCA-AACG
* * * * * * **
1043361 TTTTTTTTTTTTTACATATCATAAAGCCCATACAAG-TTGATGGCACTTATCTACCTCTAGTCTT
65 -TCTTTCTTATCTAC-CA-CA-AAA--CCATACAAGCTTG-TGGCACCTATCTACCTCTAACCTT
* * *
1043425 CAAAAAGCATGACATTTTTTTCTT
123 CAAAGAGCAAGACA-GTTTTTCTT
* * * * * * *
1043449 ACCTACCACAAAACCCATATAAGTTGGTGGCACCTATCTAGCACCAGTCCTCAAAGAGTAAAAC-
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAG-CAAACG
* * * * * *
1043513 ACTTTTCTTA-CTTACCACAAAGCC-TACAAGCTCGTGTCACCTATTTACCTCTAGCCTTCAAAG
65 TC-TTTCTTATC-TACCACAAAACCATACAAGCTTGTGGCACCTATCTACCTCTAACCTTCAAAG
* *
1043576 AACAAGA-TGTTTTTCTT
128 AGCAAGACAGTTTTTCTT
* * *
1043593 ACCTACCATAAAGCCCACATAAGCTGGTGGCACCTATCTACCTCTAGTCCTCAAAGA
1 ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAGA
1043650 ATAGGATGTT
Statistics
Matches: 514, Mismatches: 101, Indels: 53
0.77 0.15 0.08
Matches are distributed among these distances:
140 15 0.03
141 33 0.06
142 63 0.12
143 2 0.00
144 122 0.24
145 12 0.02
146 87 0.17
147 60 0.12
148 2 0.00
149 5 0.01
150 12 0.02
151 33 0.06
152 8 0.02
153 59 0.11
154 1 0.00
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (145 bp):
ACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAGCAAACGT
CTTTCTTATCTACCACAAAACCATACAAGCTTGTGGCACCTATCTACCTCTAACCTTCAAAGAGC
AAGACAGTTTTTCTT
Found at i:1043334 original size:213 final size:215
Alignment explanation
Indices: 1042863--1043338 Score: 530
Period size: 213 Copynumber: 2.2 Consensus size: 215
1042853 ATGTTACGAC
* * * * * *
1042863 ACCTACCACAAAGCCCACACAAACTTATGGCACCTATCTACCTTCAGTTCTCAAAAAGCA-AGAC
1 ACCTACCACAAAACCCAAACAAGCTAATAGCACCTATCTACC-T-A--T-TCAAAGAGCAGA-AC
* * * * *
1042927 ATTTTTTCTTATCGACCACAAAGCCTATATAAGCTGGTGGCACCTATCTACCTCGAGTCCTCAAA
60 ATTTTTTCTTACCGACCACAAAGCCTACACAAGCTGGTGGCACCTATCCACCTCCAGTCCTCAAA
* * * *
1042992 AAATAGGATGCTTTTCTTACTTACCACAAAGCCCACACAAGCTAGTGGCACCTATCTACCTCCAA
125 AAACAGAACGCTTTTCTTACTTACCACAAAACCCACACAAGCTAGTGGCACCTATCTACCTCCAA
* * *
1043057 TCTTTAAAAAGCAAGACGTTTTTCTT
190 CCCTCAAAAAGCAAGACGTTTTTCTT
* *
1043083 ACCTACCACAAAACCTAAACAAGCTAATGGCACCTATCTACCTATTCAAAGAGCAGAACATTTTT
1 ACCTACCACAAAACCCAAACAAGCTAATAGCACCTATCTACCTATTCAAAGAGCAGAACATTTTT
* ** * *
1043148 TCTTACCTACCACAAAGCCTACACAAGCTGGTGGCTTCTATCCACCTCCAGTCCTCAAAGAGCAG
66 TCTTACCGACCACAAAGCCTACACAAGCTGGTGGCACCTATCCACCTCCAGTCCTCAAAAAACAG
* * *
1043213 AACGC-TTTCTTA-TCTACCACAAAACTCACACAAG-TTGTGGCACCTATCTACCTCTAACCCTC
131 AACGCTTTTCTTACT-TACCACAAAACCCACACAAGCTAGTGGCACCTATCTACCTCCAACCCTC
*
1043275 AAAGAGCAAGACGTTTTTCTT
195 AAAAAGCAAGACGTTTTTCTT
* * ** **
1043296 ACCTATCACAAAGCCCACAA-AAGCTGGTAGTGCCTATCTACCT
1 ACCTACCACAAAACCCA-AACAAGCTAATAGCACCTATCTACCT
1043339 CCAGTCCTCA
Statistics
Matches: 218, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
213 76 0.35
214 27 0.12
215 74 0.34
216 2 0.01
218 1 0.00
219 1 0.00
220 37 0.17
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.25
Consensus pattern (215 bp):
ACCTACCACAAAACCCAAACAAGCTAATAGCACCTATCTACCTATTCAAAGAGCAGAACATTTTT
TCTTACCGACCACAAAGCCTACACAAGCTGGTGGCACCTATCCACCTCCAGTCCTCAAAAAACAG
AACGCTTTTCTTACTTACCACAAAACCCACACAAGCTAGTGGCACCTATCTACCTCCAACCCTCA
AAAAGCAAGACGTTTTTCTT
Found at i:1049364 original size:13 final size:13
Alignment explanation
Indices: 1049346--1049370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1049336 TTAGAAGCAA
1049346 TGTATCGATACAT
1 TGTATCGATACAT
1049359 TGTATCGATACA
1 TGTATCGATACA
1049371 ATGTCCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1049464 original size:19 final size:19
Alignment explanation
Indices: 1049421--1049475 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1049411 TGCCAGTTTT
* **
1049421 ATGTATTGATATAATTGTCC
1 ATGTATCGATATAA-TGAAC
1049441 ATGTATCGATATAATGAAC
1 ATGTATCGATATAATGAAC
*
1049460 ATGTATCGATACAATG
1 ATGTATCGATATAATG
1049476 TATCGATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGTATCGATATAATGAAC
Found at i:1049478 original size:13 final size:13
Alignment explanation
Indices: 1049460--1049486 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1049450 TATAATGAAC
1049460 ATGTATCGATACA
1 ATGTATCGATACA
1049473 ATGTATCGATACA
1 ATGTATCGATACA
1049486 A
1 A
1049487 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1052856 original size:20 final size:20
Alignment explanation
Indices: 1052828--1052902 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1052818 TTTTACCATG
1052828 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1052848 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1052868 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1052888 ATGTATCGATACATT
1 ATGTATCGATACATT
1052903 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1052895 original size:40 final size:39
Alignment explanation
Indices: 1052828--1052905 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1052818 TTTTACCATG
* *
1052828 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1052868 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1052906 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1053851 original size:22 final size:22
Alignment explanation
Indices: 1053817--1053870 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1053807 AGCCTTTGAC
1053817 CATGCA-TTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
1053838 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
1053860 CATGCATTTTT
1 CATGCATTTTT
1053871 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:1060033 original size:21 final size:21
Alignment explanation
Indices: 1060009--1060055 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1059999 AAATGAACAG
1060009 AAAAAGTGCAAAAAC-AAAATAA
1 AAAAAG-G-AAAAACAAAAATAA
*
1060031 AAAAAGGAACAACAAAAATAA
1 AAAAAGGAAAAACAAAAATAA
1060052 AAAA
1 AAAA
1060056 TGAGGACATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 12 0.52
22 6 0.26
ACGTcount: A:0.77, C:0.09, G:0.09, T:0.06
Consensus pattern (21 bp):
AAAAAGGAAAAACAAAAATAA
Found at i:1061372 original size:27 final size:27
Alignment explanation
Indices: 1061333--1062571 Score: 1796
Period size: 27 Copynumber: 45.0 Consensus size: 27
1061323 AGTGTGACCT
* *
1061333 CTTTAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1061360 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1061387 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1061414 CTTTTAAGTCCATAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1061442 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1061469 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1061497 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1061524 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1061551 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1061579 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1061606 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1061633 CTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1061661 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1061688 CTTTTTAAGTCCACAACTCCGTGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
1061716 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1061744 CTTTTAAGACCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1061771 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1061798 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1061826 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1061853 CTTTTTAAGTCTACAACTCCGTGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
*
1061881 CTTTTAAGTCCACAACTCCGTCGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1061908 CTTTTAAGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1061935 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1061963 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1061990 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
1062017 CTCTTAAGTCCAC-GGTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1062044 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1062071 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
1062098 CTCTTAAGTCCACAACTCCGTGGCATAT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1062126 CTTTTAAGTCCACAACTCTGTGGCACCGGCATCC
1 CTTTTAAGTCCACAACTCCGT------GGCA-CC
*
1062160 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1062187 CTTTTAAGTCCACAACTCTGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1062214 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1062242 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1062269 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * * *
1062296 CTTTTAAGTTCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1062324 CTTTTAAGTCCGCAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1062351 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1062379 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
1062406 CTTTTAAATCCACAACTCTATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1062433 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1062460 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1062488 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1062515 CTTTTAAAATCCACAACTCTGTGGCACT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1062543 CTTTTAAAATCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1062571 C
1 C
1062572 ATTTCAAAGC
Statistics
Matches: 1099, Mismatches: 90, Indels: 45
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.01
27 662 0.60
28 404 0.37
34 24 0.02
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1061465 original size:55 final size:54
Alignment explanation
Indices: 1061333--1062571 Score: 1796
Period size: 55 Copynumber: 22.5 Consensus size: 54
1061323 AGTGTGACCT
* *
1061333 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1061387 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * **
1061442 CTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
1061497 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1061551 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
1061606 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
1061661 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACC
* *
1061716 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1061771 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
1061826 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCTACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACC
* *
1061881 CTTTTAAGTCCACAACTCCGTCGCACCCTTTTAAGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1061935 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* **
1061990 CTTTTAAGTCCACAACTCCGTGGCACCCTCTTAAGTCCAC-GGTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
1062044 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* ** *
1062098 CTCTTAAGTCCACAACTCCGTGGCATATCTTTTAAGTCCACAACTCTGTGGCACCGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGT------GGCA-CC
* * *
1062160 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1062214 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
1062269 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTTCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1062324 CTTTTAAGTCCGCAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * **
1062379 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAATCCACAACTCTATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
1062433 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
1062488 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCTGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
1062543 CTTTTAAAATCCACAACTCTGTGGCACCC
1 CTTTT-AAGTCCACAACTCCGTGGCACCC
1062572 ATTTCAAAGC
Statistics
Matches: 1075, Mismatches: 85, Indels: 48
0.89 0.07 0.04
Matches are distributed among these distances:
53 9 0.01
54 383 0.36
55 512 0.48
56 122 0.11
61 24 0.02
62 25 0.02
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1061472 original size:82 final size:81
Alignment explanation
Indices: 1061333--1062568 Score: 1808
Period size: 82 Copynumber: 15.0 Consensus size: 81
1061323 AGTGTGACCT
* *
1061333 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1061398 ACAACTCCGTGGCATC
66 ACAACTCCGTGGCATC
* * *
1061414 CTTTTAAGTCCATAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
1061479 CCACAACTCCGTGGCATT
64 CCACAACTCCGTGGCATC
1061497 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1061562 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCAT-C
*
1061579 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
1061644 ATAACTCCATGGCATC
66 ACAACTCCGTGGCATC
1061660 TCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
1 -CTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
1061725 CCACAACTCCGTGGCATCC
64 CCACAACTCCGTGGCAT-C
* *
1061744 CTTTTAAGACCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1061809 ATAACTCCGTGGCATC
66 ACAACTCCGTGGCATC
*
1061825 TCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCTACAACTCCGTGGCACCCTTTTAAGT
1 -CTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* *
1061890 CCACAACTCCGTCGCACC
64 CCACAACTCCGTGGCATC
* *
1061908 CTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1061973 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCATC
* ** *
1061990 CTTTTAAGTCCACAACTCCGTGGCACCCTCTTAAGTCCAC-GGTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1062054 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCATC
* **
1062071 CTTTTAAGTCCACAACTCCGTGGCACCCTCTTAAGTCCACAACTCCGTGGCATATCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1062136 CACAACTCTGTGGCACCGGCATCC
65 CACAACTCCGT------GGCAT-C
* * *
1062160 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGCGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1062225 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCAT-C
* *
1062242 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
1062307 ATAACTCCATGGCATC
66 ACAACTCCGTGGCATC
* * *
1062323 TCTTTTAAGTCCGCAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGA
1 -CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGT
*
1062388 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCATC
* ** *
1062406 CTTTTAAATCCACAACTCTATGGCACCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1062471 ATAACTCCGTGGCATC
66 ACAACTCCGTGGCATC
* * * * *
1062487 TCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCTGTGGCACTCTTTTAAAA
1 -CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAG
*
1062552 TCCACAACTCTGTGGCA
63 TCCACAACTCCGTGGCA
1062569 CCCATTTCAA
Statistics
Matches: 1057, Mismatches: 76, Indels: 41
0.90 0.06 0.03
Matches are distributed among these distances:
81 193 0.18
82 536 0.51
83 237 0.22
84 18 0.02
88 24 0.02
89 49 0.05
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCATC
Found at i:1063174 original size:32 final size:32
Alignment explanation
Indices: 1062554--1063167 Score: 1009
Period size: 32 Copynumber: 19.2 Consensus size: 32
1062544 TTTTAAAATC
* *
1062554 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1062585 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1062617 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1062649 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1062681 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
1062713 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1062745 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1062777 GACAAGTCGGTGGCAA-CCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
* **
1062809 CACAAGTCGGTGGTAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1062841 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1062873 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1062905 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1062937 CACAAGTCGGTGGCAA-CCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
* *
1062969 CACAAGTCGGTGGAAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1063001 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1063033 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1063065 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1063097 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * ** * *
1063129 CACGAGTCAGTGGCAATTCTTTTCAAGGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1063161 CATAAGT
1 CACAAGT
1063168 TAGTGGCGCC
Statistics
Matches: 546, Mismatches: 32, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
31 18 0.03
32 525 0.96
33 3 0.01
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1063771 original size:20 final size:20
Alignment explanation
Indices: 1063743--1063817 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1063733 TTTTACCTTG
1063743 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1063763 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1063783 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1063803 ATGTATCGATACATT
1 ATGTATCGATACATT
1063818 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1063810 original size:40 final size:39
Alignment explanation
Indices: 1063743--1063820 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1063733 TTTTACCTTG
* *
1063743 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1063783 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1063821 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1064767 original size:22 final size:22
Alignment explanation
Indices: 1064733--1064786 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1064723 AGCCTTTGAC
1064733 CATGCA-TTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
1064754 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
1064776 CATGCATTTTT
1 CATGCATTTTT
1064787 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:1072605 original size:26 final size:26
Alignment explanation
Indices: 1072572--1072649 Score: 156
Period size: 26 Copynumber: 3.0 Consensus size: 26
1072562 TTATAGTCGT
1072572 TTATAGCCATTAGAAGCAATGTATCG
1 TTATAGCCATTAGAAGCAATGTATCG
1072598 TTATAGCCATTAGAAGCAATGTATCG
1 TTATAGCCATTAGAAGCAATGTATCG
1072624 TTATAGCCATTAGAAGCAATGTATCG
1 TTATAGCCATTAGAAGCAATGTATCG
1072650 ATACAATTCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (26 bp):
TTATAGCCATTAGAAGCAATGTATCG
Found at i:1072702 original size:33 final size:33
Alignment explanation
Indices: 1072643--1072707 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1072633 TTAGAAGCAA
* *
1072643 TGTATCGATACAATTCATCGTATATCGATACAT
1 TGTATCGATACAATTCACCATATATCGATACAT
*
1072676 TGTATCGATACAATGTC-CCATGTATCGATACA
1 TGTATCGATACAAT-TCACCATATATCGATACA
1072708 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATTCACCATATATCGATACAT
Found at i:1072781 original size:19 final size:21
Alignment explanation
Indices: 1072757--1072809 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
1072747 TATAATTATC
*
1072757 CATGTATCGATACAATG-A-A
1 CATGTATCGATACAAAGCATA
1072776 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAAAGCATA
1072797 -ATGTATCGATACA
1 CATGTATCGATACA
1072810 TCTTGGTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (21 bp):
CATGTATCGATACAAAGCATA
Found at i:1078953 original size:30 final size:29
Alignment explanation
Indices: 1078897--1079180 Score: 220
Period size: 29 Copynumber: 9.7 Consensus size: 29
1078887 TCGACACCCC
* * * *
1078897 TAGTGGTATCCTTTCTTAAAGCCCACGACT
1 TAGTGGCACCCTTT-TTAAAGTCCACAACT
* * *
1078927 TATTGGCATCCCTTTTGAAAGTCCACGACT
1 TAGTGGCA-CCCTTTTTAAAGTCCACAACT
* * *
1078957 TAGTGGCATCTCTTTTCAAAGTCTACAACT
1 TAGTGGCA-CCCTTTTTAAAGTCCACAACT
* *
1078987 TCGTGGTACCCTTTTTTAAAGTCCACAACT
1 TAGTGGCACCC-TTTTTAAAGTCCACAACT
*
1079017 CTA-TGGCA-CCTTTTTAAAGTCCACAACC
1 -TAGTGGCACCCTTTTTAAAGTCCACAACT
** * *
1079045 CCGTGGCACCCCTTTTAAAGTTCACAACT
1 TAGTGGCACCCTTTTTAAAGTCCACAACT
* *
1079074 TCGTGGCACCCTTTTTAAAGCCCACAACT
1 TAGTGGCACCCTTTTTAAAGTCCACAACT
** *
1079103 CT-GTGGCACATTTTTTAAAGTCCATAACT
1 -TAGTGGCACCCTTTTTAAAGTCCACAACT
* * *
1079132 CCA-TGGCACCCCTTTTAAAGTCCACAAAT
1 -TAGTGGCACCCTTTTTAAAGTCCACAACT
1079161 CT-GTGGCA-CCTCTTTTAAAG
1 -TAGTGGCACCCT-TTTTAAAG
1079181 CTTACACAAG
Statistics
Matches: 206, Mismatches: 39, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
28 24 0.12
29 105 0.51
30 71 0.34
31 6 0.03
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (29 bp):
TAGTGGCACCCTTTTTAAAGTCCACAACT
Found at i:1079089 original size:87 final size:87
Alignment explanation
Indices: 1078906--1079181 Score: 292
Period size: 87 Copynumber: 3.1 Consensus size: 87
1078896 CTAGTGGTAT
* * * * ** * *
1078906 CCTTTCTTAAAGCCCACGACT-TATTGGCATCCCTTTTGAAAGTCCACGACTTAGTGGCATCTCT
1 CCTTTTTTAAAGCCCACAACTCTA-TGGCA--CCTTTTTAAAGTCCACAACTCCGTGGCACCCCT
*
1078970 TTTCAAAG-TCTACAACTTCGTGGTAC
63 TTT-AAAGTTC-ACAACTTCGTGGCAC
* *
1078996 CCTTTTTTAAAGTCCACAACTCTATGGCACCTTTTTAAAGTCCACAACCCCGTGGCACCCCTTTT
1 CCTTTTTTAAAGCCCACAACTCTATGGCACCTTTTTAAAGTCCACAACTCCGTGGCACCCCTTTT
1079061 AAAGTTCACAACTTCGTGGCAC
66 AAAGTTCACAACTTCGTGGCAC
* * * *
1079083 CC-TTTTTAAAGCCCACAACTCTGTGGCACATTTTTTAAAGTCCATAACTCCATGGCACCCCTTT
1 CCTTTTTTAAAGCCCACAACTCTATGGCAC-CTTTTTAAAGTCCACAACTCCGTGGCACCCCTTT
* *
1079147 TAAAGTCCACAA-ATCTGTGGCA-
65 TAAAGTTCACAACTTC-GTGGCAC
*
1079169 CCTCTTTTAAAGC
1 CCTTTTTTAAAGC
1079182 TTACACAAGT
Statistics
Matches: 161, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
86 29 0.18
87 76 0.47
88 31 0.19
90 23 0.14
91 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (87 bp):
CCTTTTTTAAAGCCCACAACTCTATGGCACCTTTTTAAAGTCCACAACTCCGTGGCACCCCTTTT
AAAGTTCACAACTTCGTGGCAC
Found at i:1079199 original size:31 final size:29
Alignment explanation
Indices: 1079000--1079204 Score: 90
Period size: 29 Copynumber: 7.0 Consensus size: 29
1078990 TGGTACCCTT
* * * *
1079000 TTTTAAAGTCCACAACTCTATGGCA-CCT
1 TTTTAAAGTACACAAATCAATGGCACCCC
* ** **
1079028 TTTTAAAGTCCACAACCCCGTGGCACCCC
1 TTTTAAAGTACACAAATCAATGGCACCCC
* * * *
1079057 TTTTAAAGTTCACAACTTC-GTGGCACCCT
1 TTTTAAAGTACACAA-ATCAATGGCACCCC
** * ** ***
1079086 TTTTAAAGCCCACAACTCTGTGGCACATT
1 TTTTAAAGTACACAAATCAATGGCACCCC
* * * *
1079115 TTTTAAAGTCCATAACTCCATGGCACCCC
1 TTTTAAAGTACACAAATCAATGGCACCCC
* ** *
1079144 TTTTAAAGTCCACAAATCTGTGGCACCTC
1 TTTTAAAGTACACAAATCAATGGCACCCC
* *
1079173 TTTTAAAGCTTACACAAGTCAATGGCAACCC
1 TTTTAAAG--TACACAAATCAATGGCACCCC
1079204 T
1 T
1079205 CTCAAAAGCC
Statistics
Matches: 141, Mismatches: 31, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
28 24 0.17
29 100 0.71
30 1 0.01
31 16 0.11
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (29 bp):
TTTTAAAGTACACAAATCAATGGCACCCC
Found at i:1079288 original size:66 final size:65
Alignment explanation
Indices: 1079184--1079702 Score: 239
Period size: 64 Copynumber: 8.1 Consensus size: 65
1079174 TTTAAAGCTT
* * ** * *
1079184 ACACAAGTCAATGGCAACCCTCTCAAAAGCCCATACAAGTCTATGGTAACCTTTTTC-AAAGGCC
1 ACACAAGTCAATGGCAACCATCTCAAAAGCCCACACAAGTAGATGGTAACCCTTCTCTAAA-GCC
1079248 C
65 C
* * * *
1079249 ACATAAGTTAATGGCAATCCATCTCTAAGGCCCACACAAGTAGATGGTAACCCTTCTCTAAAGCC
1 ACACAAGTCAATGGCAA-CCATCTCAAAAGCCCACACAAGTAGATGGTAACCCTTCTCTAAAGCC
1079314 C
65 C
* * ** * * * * * *
1079315 ACACAAGTCGATGGCAACCCT-TTTAAAGCCTACCCAAGTCGGTGGCAA-CCTT-T-TAAAAGGC
1 ACACAAGTCAATGGCAACCATCTCAAAAGCCCACACAAGTAGATGGTAACCCTTCTCT-AAAGCC
1079376 C
65 C
* * ** * * ** * * *
1079377 ATACAGGTCGCTGGGAACCCTTCTCTGAAGCCCACACAAGTTGGTGGCAACCCTT-TC-AAAGCC
1 ACACAAGTCAATGGCAA-CCATCTCAAAAGCCCACACAAGTAGATGGTAACCCTTCTCTAAAGCC
1079440 C
65 C
* * * * * *** * * * * *
1079441 ACATAAGTCGATGGC-ACCCTCTTAAAAGCCTATGTAAGTCGGTGG-CACCCTT-TTTAAAAGCT
1 ACACAAGTCAATGGCAACCATCTCAAAAGCCCACACAAGTAGATGGTAACCCTTCTCT-AAAGCC
1079503 C
65 C
* * * * * * *
1079504 ACACAAGTCAGTGGCAACCCTTCTCAAAAGCCCATATAAGTCGATGGCAACCTTTCTCT-AAGAC
1 ACACAAGTCAATGGCAA-CCATCTCAAAAGCCCACACAAGTAGATGGTAACCCTTCTCTAAAG-C
*
1079568 CT
64 CC
* * * * *
1079570 ACACAAGTCAGTGGCAAGCC-TTTC-AAAGCCCACACAAGTCGGTGG-CACCC-TCT-TAAAAGC
1 ACACAAGTCAATGGCAA-CCATCTCAAAAGCCCACACAAGTAGATGGTAACCCTTCTCT-AAAGC
1079630 CC
64 CC
* ** * * * *
1079632 ACACAAATCGGTGGC-ACCCTCTTAAAAGCCTACACAAGTCA-ATGGTAACCC-TCTCAAAAGCC
1 ACACAAGTCAATGGCAACCATCTCAAAAGCCCACACAAGT-AGATGGTAACCCTTCTCTAAAGCC
1079694 C
65 C
1079695 ACACAAGT
1 ACACAAGT
1079703 TGATGGCATC
Statistics
Matches: 352, Mismatches: 81, Indels: 44
0.74 0.17 0.09
Matches are distributed among these distances:
60 2 0.01
61 12 0.03
62 75 0.21
63 53 0.15
64 77 0.22
65 53 0.15
66 75 0.21
67 5 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (65 bp):
ACACAAGTCAATGGCAACCATCTCAAAAGCCCACACAAGTAGATGGTAACCCTTCTCTAAAGCCC
Found at i:1079335 original size:33 final size:33
Alignment explanation
Indices: 1079184--1079710 Score: 359
Period size: 33 Copynumber: 16.5 Consensus size: 33
1079174 TTTAAAGCTT
* *
1079184 ACACAAGTCAATGGCAACCC-TCTCAAAAGCCC
1 ACACAAGTCGATGGCAACCCTTCTCTAAAGCCC
* * * * *
1079216 ATACAAGTCTATGGTAACCTTTTTC-AAAGGCCC
1 ACACAAGTCGATGGCAACCCTTCTCTAAA-GCCC
* ** * * *
1079249 ACATAAGTTAATGGCAATCCATCTCTAAGGCCC
1 ACACAAGTCGATGGCAACCCTTCTCTAAAGCCC
* *
1079282 ACACAAGTAGATGGTAACCCTTCTCTAAAGCCC
1 ACACAAGTCGATGGCAACCCTTCTCTAAAGCCC
*
1079315 ACACAAGTCGATGGCAACCCTT-T-TAAAGCCT
1 ACACAAGTCGATGGCAACCCTTCTCTAAAGCCC
* * *
1079346 ACCCAAGTCGGTGGCAA-CCTT-T-TAAAAGGCC
1 ACACAAGTCGATGGCAACCCTTCTCT-AAAGCCC
* * * * *
1079377 ATACAGGTCGCTGGGAACCCTTCTCTGAAGCCC
1 ACACAAGTCGATGGCAACCCTTCTCTAAAGCCC
* *
1079410 ACACAAGTTGGTGGCAACCCTT-TC-AAAGCCC
1 ACACAAGTCGATGGCAACCCTTCTCTAAAGCCC
* *
1079441 ACATAAGTCGATGGC-ACCC-TCT-TAAAAGCCT
1 ACACAAGTCGATGGCAACCCTTCTCT-AAAGCCC
*** * * *
1079472 ATGTAAGTCGGTGGC-ACCCTT-TTTAAAAGCTC
1 ACACAAGTCGATGGCAACCCTTCTCT-AAAGCCC
*
1079504 ACACAAGTC-AGTGGCAACCCTTCTCAAAAGCCC
1 ACACAAGTCGA-TGGCAACCCTTCTCTAAAGCCC
* * * *
1079537 ATATAAGTCGATGGCAACCTTTCTCT-AAGACCT
1 ACACAAGTCGATGGCAACCCTTCTCTAAAG-CCC
*
1079570 ACACAAGTC-AGTGGCAAGCCTT-TC-AAAGCCC
1 ACACAAGTCGA-TGGCAACCCTTCTCTAAAGCCC
*
1079601 ACACAAGTCGGTGGC-ACCC-TCT-TAAAAGCCC
1 ACACAAGTCGATGGCAACCCTTCTCT-AAAGCCC
* * *
1079632 ACACAAATCGGTGGC-ACCC-TCT-TAAAAGCCT
1 ACACAAGTCGATGGCAACCCTTCTCT-AAAGCCC
* * *
1079663 ACACAAGTCAATGGTAACCC-TCTCAAAAGCCC
1 ACACAAGTCGATGGCAACCCTTCTCTAAAGCCC
*
1079695 ACACAAGTTGATGGCA
1 ACACAAGTCGATGGCA
1079711 TCTCTTTCTA
Statistics
Matches: 389, Mismatches: 81, Indels: 50
0.75 0.16 0.10
Matches are distributed among these distances:
29 2 0.01
30 15 0.04
31 142 0.37
32 79 0.20
33 146 0.38
34 5 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (33 bp):
ACACAAGTCGATGGCAACCCTTCTCTAAAGCCC
Found at i:1079353 original size:31 final size:31
Alignment explanation
Indices: 1079134--1079710 Score: 332
Period size: 31 Copynumber: 18.2 Consensus size: 31
1079124 CCATAACTCC
* *
1079134 ATGGCACCCCTTTTAAAGTCCACA-AA-TCTG
1 ATGGCAACCCTTTTAAAGCCCACACAAGTC-G
** *
1079164 -TGGC-ACCTCTTTTAAAGCTTACACAAGTCA
1 ATGGCAACC-CTTTTAAAGCCCACACAAGTCG
** * *
1079194 ATGGCAACCCTCTCAAAAGCCCATACAAGTCT
1 ATGGCAACCCT-TTTAAAGCCCACACAAGTCG
* * * **
1079226 ATGGTAACCTTTTTCAAAGGCCCACATAAGTTA
1 ATGGCAACCCTTTT-AAA-GCCCACACAAGTCG
* * * *
1079259 ATGGCAATCCATCTCTAAGGCCCACACAAGTAG
1 ATGGCAA-CCCT-TTTAAAGCCCACACAAGTCG
*
1079292 ATGGTAACCCTTCTCTAAAGCCCACACAAGTCG
1 ATGGCAACCCTT-T-TAAAGCCCACACAAGTCG
* *
1079325 ATGGCAACCCTTTTAAAGCCTACCCAAGTCG
1 ATGGCAACCCTTTTAAAGCCCACACAAGTCG
* * * *
1079356 GTGGCAA-CCTTTTAAAAGGCCATACAGGTCG
1 ATGGCAACCCTTTT-AAAGCCCACACAAGTCG
* * * *
1079387 CTGGGAACCCTTCTCTGAAGCCCACACAAGTTG
1 ATGGCAACCCTT-T-TAAAGCCCACACAAGTCG
* * *
1079420 GTGGCAACCCTTTCAAAGCCCACATAAGTCG
1 ATGGCAACCCTTTTAAAGCCCACACAAGTCG
* * ***
1079451 ATGGC-ACCCTCTTAAAAGCCTATGTAAGTCG
1 ATGGCAACCCT-TTTAAAGCCCACACAAGTCG
* *
1079482 GTGGC-ACCCTTTTTAAAAGCTCACACAAGTC-
1 ATGGCAACCC-TTTT-AAAGCCCACACAAGTCG
* * *
1079513 AGTGGCAACCCTTCTCAAAAGCCCATATAAGTCG
1 A-TGGCAACCCTT-T-TAAAGCCCACACAAGTCG
* *
1079547 ATGGCAA-CCTTTCTCTAAGACCTACACAAGTC-
1 ATGGCAACCCTTT-T-AAAG-CCCACACAAGTCG
* *
1079579 AGTGGCAAGCCTTTCAAAGCCCACACAAGTCG
1 A-TGGCAACCCTTTTAAAGCCCACACAAGTCG
* * *
1079611 GTGGC-ACCCTCTTAAAAGCCCACACAAATCG
1 ATGGCAACCCT-TTTAAAGCCCACACAAGTCG
* * * *
1079642 GTGGC-ACCCTCTTAAAAGCCTACACAAGTCA
1 ATGGCAACCCT-TTTAAAGCCCACACAAGTCG
* ** *
1079673 ATGGTAACCCTCTCAAAAGCCCACACAAGTTG
1 ATGGCAACCCT-TTTAAAGCCCACACAAGTCG
1079705 ATGGCA
1 ATGGCA
1079711 TCTCTTTCTA
Statistics
Matches: 424, Mismatches: 92, Indels: 60
0.74 0.16 0.10
Matches are distributed among these distances:
28 2 0.00
29 16 0.04
30 17 0.04
31 159 0.38
32 94 0.22
33 122 0.29
34 12 0.03
35 2 0.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (31 bp):
ATGGCAACCCTTTTAAAGCCCACACAAGTCG
Found at i:1079408 original size:95 final size:95
Alignment explanation
Indices: 1079199--1079724 Score: 322
Period size: 95 Copynumber: 5.5 Consensus size: 95
1079189 AGTCAATGGC
* * * * * * **
1079199 AACCC-TCTCAAAAGCCCATACAAGTCTATGGTAACCTTTTTCAAAGGCCCACATAAGTTAATGG
1 AACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACC-CTTTCAAA-GCCCACACAAGTCGATGG
* * * * *
1079263 CAATCCATCTCT--AAGGCCCACACAAGTAGATGGT
64 CAA-CC-TCT-TAAAAGG-CCATACAGGTCGCTGGG
* * * *
1079297 AACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCTTTTAAAGCCTACCCAAGTCGGTGGCA
1 AACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCTTTCAAAGCCCACACAAGTCGATGGCA
*
1079362 ACCTTTTAAAAGGCCATACAGGTCGCTGGG
66 ACCTCTTAAAAGGCCATACAGGTCGCTGGG
* * * *
1079392 AACCCTTCTCTGAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAGCCCACATAAGTCGATGGCA
1 AACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCTTTCAAAGCCCACACAAGTCGATGGCA
* ** * *
1079457 CCCTCTTAAAA-GCCTATGTAAGTCGGT-GG
66 ACCTCTTAAAAGGCC-ATACAGGTCGCTGGG
* * * * *
1079486 CACCCTT-TTTAAAAGCTCACACAAGTC-AGTGGCAACCCTTCTCAAAAGCCCATATAAGTCGAT
1 AACCCTTCTCT-AAAGCCCACACAAGTCGA-TGGCAACCCTT-TC-AAAGCCCACACAAGTCGAT
* ** * * * *
1079549 GGCAACCTTTCTCTAAGACCTACACAAGTCAG-TGGC
62 GGCAACCTCT-TAAAAGGCC-ATACAGGTC-GCTGGG
* * * * *
1079585 AAGCCTT-TC-AAAGCCCACACAAGTCGGTGGC-ACCCTCTTAAAAGCCCACACAAATCGGTGGC
1 AACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCT-TTCAAAGCCCACACAAGTCGATGGC
* * * ** *
1079647 ACCCTCTTAAAA-GCCTACACAAGTCAATGGT
65 AACCTCTTAAAAGGCC-ATACAGGTCGCTGGG
* * * * *
1079678 AACCC-TCTCAAAAGCCCACACAAGTTGATGGCATCTCTTTCTAAGCC
1 AACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCTTTCAAAGCC
1079725 TAATGTCATT
Statistics
Matches: 338, Mismatches: 72, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
92 1 0.00
93 23 0.07
94 66 0.20
95 116 0.34
96 38 0.11
97 38 0.11
98 21 0.06
99 35 0.10
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (95 bp):
AACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCTTTCAAAGCCCACACAAGTCGATGGCA
ACCTCTTAAAAGGCCATACAGGTCGCTGGG
Found at i:1079700 original size:191 final size:190
Alignment explanation
Indices: 1079282--1079710 Score: 460
Period size: 191 Copynumber: 2.3 Consensus size: 190
1079272 TCTAAGGCCC
* * *
1079282 ACACAAGT-AGATGGTAACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCTTTTAAAGCCT
1 ACACAAGTCA-ATGGTAACCCTTCTCAAAAGCCCACACAAGTCGATGGCAACCCTTTAAAAGCCC
* * * * * * *
1079346 ACCCAAGTCGGTGGCAACCTTTTAAAAGGCCATACAGGTCGCTGGGAACCCTTCTCTGAAGCCCA
65 ACACAAGTCGATGGCAACCTTTTAAAAGACCACACAAGTCGCTGGCAACCCTTCTCTAAAGCCCA
* * * *
1079411 CACAAGTTGGTGGCAACCCTTTCAAAGCCCACATAAGTCGATGGCACCCTCTTAAAAGCCT
130 CACAAGTCGGTGGCAACCCTTTAAAAGCCCACACAAATCGATGGCACCCTCTTAAAAGCCT
*** ** * * * *
1079472 ATGTAAGTCGGTGG-CACCCTTTTTAAAAGCTCACACAAGTC-AGTGGCAACCCTTCTCAAAAGC
1 ACACAAGTCAATGGTAACCCTTCTCAAAAGCCCACACAAGTCGA-TGGCAACCCTT-T-AAAAGC
* * ** *
1079535 CCATATAAGTCGATGGCAACCTTTCTCTAAGACCTACACAAGTCAG-TGGCAAGCCTT-TC-AAA
63 CCACACAAGTCGATGGCAACCTTT-TAAAAGACC-ACACAAGTC-GCTGGCAACCCTTCTCTAAA
*
1079597 GCCCACACAAGTCGGTGGC-ACCCTCTTAAAAGCCCACACAAATCGGTGGCACCCTCTTAAAAGC
125 GCCCACACAAGTCGGTGGCAACCCT-TTAAAAGCCCACACAAATCGATGGCACCCTCTTAAAAGC
1079661 CT
189 CT
*
1079663 ACACAAGTCAATGGTAACCC-TCTCAAAAGCCCACACAAGTTGATGGCA
1 ACACAAGTCAATGGTAACCCTTCTCAAAAGCCCACACAAGTCGATGGCA
1079711 TCTCTTTCTA
Statistics
Matches: 190, Mismatches: 39, Indels: 19
0.77 0.16 0.08
Matches are distributed among these distances:
188 1 0.01
189 33 0.17
190 14 0.07
191 112 0.59
192 13 0.07
193 16 0.08
194 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (190 bp):
ACACAAGTCAATGGTAACCCTTCTCAAAAGCCCACACAAGTCGATGGCAACCCTTTAAAAGCCCA
CACAAGTCGATGGCAACCTTTTAAAAGACCACACAAGTCGCTGGCAACCCTTCTCTAAAGCCCAC
ACAAGTCGGTGGCAACCCTTTAAAAGCCCACACAAATCGATGGCACCCTCTTAAAAGCCT
Found at i:1079850 original size:52 final size:51
Alignment explanation
Indices: 1079780--1080081 Score: 201
Period size: 52 Copynumber: 5.8 Consensus size: 51
1079770 TATCTTTCTG
* *
1079780 AGTCCAATGTCACTGGCCTTGAATCAGCATATTAGCACTCTTCTCATATTTT
1 AGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTCTTCTCAT-TTTT
* * *
1079832 AGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAC-CTTTTTTATCTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTC-TTCTCAT-TTTT
** * * * * * * * * * *
1079884 AGTCTGATATCGTTAGCCTTGAATTAGTATATTGGCATTTTTATCATTCCTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTCTTCTCATT-TTT
* * * * * * *
1079936 AGCCCAATATCGCTAGCCTTGAATCAGCATATCGACATTCTTCTAATTTTT
1 AGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTCTTCTCATTTTT
* * * * * * * **
1079987 AAATCCAATGTCGTTGGCCCTGAATCAGCACATTGGCATTCTTCTTATCCTCA
1 -AGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTCTTCTCAT-TTTT
* * * * *
1080040 AGTCCAAGGTCTCTGGTCGTGAATCAGCATATTGGTACTCTT
1 AGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTCTT
1080082 TTCACCCTTA
Statistics
Matches: 192, Mismatches: 53, Indels: 10
0.75 0.21 0.04
Matches are distributed among these distances:
51 3 0.02
52 188 0.98
53 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (51 bp):
AGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTCTTCTCATTTTT
Found at i:1083888 original size:158 final size:158
Alignment explanation
Indices: 1083595--1084144 Score: 698
Period size: 158 Copynumber: 3.5 Consensus size: 158
1083585 TTTTCTCGAT
* * * * * *
1083595 GATACTCCAACCCTATTATTTTCGAGGGAATACTCTAGCCCCGTTTTTATTTCCAAAATTATTAA
1 GATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCGCTTTTATTTCCAAAA-TATTAA
** * * *
1083660 ATTTACCA--TTGGAGATACTCCAATCCTGTTATTTCTGAA-AGGATACTCCAACCCCACTTTTA
65 ATTTTTCATCTTAG-GATACTCCAACCCTGTTATTTCT-AAGAGGATACTCCAACACCACTTTTA
* *
1083722 TTTACAAAAATATCAAATTTTTCATTGCGAA
128 TTTCCAAAAATATCAAATTTTTCATTGCGAG
* * *
1083753 GATACTCCAA-CCTCGTTATTTTTAAGGGGATACTCCAACCCCGCTTTTGTTTTCAAAATATTAA
1 GATACTCCAACCCT-GTTATTTTCAAGGGGATACTCCAACCCCGCTTTTATTTCCAAAATATTAA
* * *
1083817 ATTTTTCATCTTAGGATACTCCAACCCCGTTATTTCTAAGCGGATACTCCAACTCCACTTTTATT
65 ATTTTTCATCTTAGGATACTCCAACCCTGTTATTTCTAAGAGGATACTCCAACACCACTTTTATT
* *
1083882 TCCAAAAAAATCAAATTTTTCATTGTGAG
130 TCCAAAAATATCAAATTTTTCATTGCGAG
* *
1083911 GATACTCCAACCCTGTTATTTTCAAGGGCATACTCCAACCCTGCTTTTATTTCCAAAATATTAAA
1 GATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCGCTTTTATTTCCAAAATATTAAA
* * **
1083976 TTTTTCATCTTAGGGATACTCCAACCCTGTTATTT-TGAGGGGATACTCCAACACTGCTTTTATT
66 TTTTTCATCTTA-GGATACTCCAACCCTGTTATTTCTAAGAGGATACTCCAACACCACTTTTATT
* *
1084040 TCCAAAAATATCAAATTTTTCACTGCGGG
130 TCCAAAAATATCAAATTTTTCATTGCGAG
* * * * *
1084069 GATACTCTAA-TCTCGTTATTTTCAAGAGGATACTCCAATCCCGCTTTTATTTTCAAAATATTAA
1 GATACTCCAACCCT-GTTATTTTCAAGGGGATACTCCAACCCCGCTTTTATTTCCAAAATATTAA
1084133 ATTTTTCATCTT
65 ATTTTTCATCTT
1084145 GGGGATACCC
Statistics
Matches: 343, Mismatches: 42, Indels: 14
0.86 0.11 0.04
Matches are distributed among these distances:
157 19 0.06
158 297 0.87
159 27 0.08
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (158 bp):
GATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAACCCCGCTTTTATTTCCAAAATATTAAA
TTTTTCATCTTAGGATACTCCAACCCTGTTATTTCTAAGAGGATACTCCAACACCACTTTTATTT
CCAAAAATATCAAATTTTTCATTGCGAG
Found at i:1084149 original size:79 final size:78
Alignment explanation
Indices: 1083595--1084160 Score: 523
Period size: 79 Copynumber: 7.2 Consensus size: 78
1083585 TTTTCTCGAT
* * * * *
1083595 GATACTCCAACCCTATTATTTTCGAG-GGAATACTCTAGCCCCGTTTTTATTTCCAAAATTATTA
1 GATACTCCAACCCTGTTATTTTCAAGAGG-ATACTCCA-ACCCGCTTTTATTTCCAAAA-TATTA
** *
1083659 AATTTACCA--TTGGA
63 AATTTTTCATCTTGGG
* * * * *
1083673 GATACTCCAATCCTGTTATTTCTGAA-AGGATACTCCAACCCCACTTTTATTTACAAAAATATCA
1 GATACTCCAACCCTGTTATTT-TCAAGAGGATACTCCAA-CCCGCTTTTATTT-CCAAAATATTA
*
1083737 AATTTTTCA--TTGCGAA
63 AATTTTTCATCTTG-G-G
* * * *
1083753 GATACTCCAA-CCTCGTTATTTTTAAGGGGATACTCCAACCCCGCTTTTGTTTTCAAAATATTAA
1 GATACTCCAACCCT-GTTATTTTCAAGAGGATACTCCAA-CCCGCTTTTATTTCCAAAATATTAA
*
1083817 ATTTTTCATCTT-AG
64 ATTTTTCATCTTGGG
* * * * *
1083831 GATACTCCAACCCCGTTA-TTTCTAAGCGGATACTCCAACTCCACTTTTATTTCCAAAAAAATCA
1 GATACTCCAACCCTGTTATTTTC-AAGAGGATACTCCAAC-CCGCTTTTATTTCC-AAAATATTA
*
1083895 AATTTTTCAT-TGTGAG
63 AATTTTTCATCT-TGGG
1083911 GATACTCCAACCCTGTTATTTTCAAG-GGCATACTCCAACCCTGCTTTTATTTCCAAAATATTAA
1 GATACTCCAACCCTGTTATTTTCAAGAGG-ATACTCCAACCC-GCTTTTATTTCCAAAATATTAA
*
1083975 ATTTTTCATCTTAGG
64 ATTTTTCATCTTGGG
* * * *
1083990 GATACTCCAACCCTGTTATTTT-GAGGGGATACTCCAACACTGCTTTTATTTCCAAAAATATCAA
1 GATACTCCAACCCTGTTATTTTCAAGAGGATACTCCAAC-CCGCTTTTATTTCC-AAAATATTAA
*
1084054 ATTTTTCA-CTGCGGG
64 ATTTTTCATCT-TGGG
* * *
1084069 GATACTCTAA-TCTCGTTATTTTCAAGAGGATACTCCAATCCCGCTTTTATTTTCAAAATATTAA
1 GATACTCCAACCCT-GTTATTTTCAAGAGGATACTCCAA-CCCGCTTTTATTTCCAAAATATTAA
1084133 ATTTTTCATCTTGGG
64 ATTTTTCATCTTGGG
1084148 GATAC-CCTAACCC
1 GATACTCC-AACCC
1084161 GTTTTTATTT
Statistics
Matches: 408, Mismatches: 50, Indels: 58
0.79 0.10 0.11
Matches are distributed among these distances:
77 4 0.01
78 120 0.29
79 164 0.40
80 113 0.28
81 7 0.02
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (78 bp):
GATACTCCAACCCTGTTATTTTCAAGAGGATACTCCAACCCGCTTTTATTTCCAAAATATTAAAT
TTTTCATCTTGGG
Found at i:1090376 original size:32 final size:32
Alignment explanation
Indices: 1090340--1090401 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1090330 AGCAACCTTC
* **
1090340 TTCAAAGTCCATAACTCGGTGGCATCTCTTTT
1 TTCAAAATCCATAACTCAATGGCATCTCTTTT
* *
1090372 TTCAAAATCCATGACTTAATGGCATCTCTT
1 TTCAAAATCCATAACTCAATGGCATCTCTT
1090402 CTCAAAATCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (32 bp):
TTCAAAATCCATAACTCAATGGCATCTCTTTT
Found at i:1090779 original size:62 final size:62
Alignment explanation
Indices: 1090439--1091564 Score: 1171
Period size: 62 Copynumber: 18.3 Consensus size: 62
1090429 CTTTTAACCT
* * * * * ***
1090439 TTTAGTCCTCAAAAAGGAGGATGCCTTTTTGTTTTTAAAGCTCACACGAGTTGGTGGCATTT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * ** * * * * *
1090501 TTTAGTCCTCAAAAAGTAGGACACC-TTTTCCTTTCAAAGCCTACACAAGTTGGTGGTACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * *
1090562 TTTATTCCTCAATGAGCAGGATGCC-TTTTC-TTTCAAAGCCTACACGAGTTGGTGGCAACT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* ** * * *
1090622 TTTAGTCCTCAAAGAGTAGGATGCC-TTTTCTTTTCAAAGCTTACTCGAGTTGATAGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * * *
1090683 TTTAGTCCTCAAAGAACAGGATG-TTTTTTTTTTTCAAAGCCCGCACGAGTTGGGGGTAACC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* *
1090744 TTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * *
1090806 TTTAGTCTTTAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATGAGGTTAGTGACACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGA-GTTGGTGGCACCC
* * * *
1090869 TTTAGTCCTCAAAGAGCAAGATG-TTTTTTTTTTTCAAAGCCTACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* ** * *
1090930 CTTAGTCCTCAAAGAGCAGGACACCTTTTT-TTTTTAAAGCCTACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * *
1090991 TTTAGTCCTCAAAGAGTAAGATGCCTTTTTTCTTTTCAAAGCCCACAGGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * *
1091054 TTTAGTCCTTAAAGAGAAGG-CGCCTTTTTTCTTTTCAAAACCTACA-GAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
** *
1091115 TTTAGTCCTCAAAGAGCAGGATGTATTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATG-CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * ** * * *
1091178 TTTAGTCCTCAAAAAGTAGGACACCTTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCATCT
1 TTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * * * *
1091241 TTTAGTCCTCAAAGAGTATGACGCCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * *
1091303 TTTAGTCCTTAAAGGGCAAGATGCCTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA-CT
1 TTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * *
1091365 TTTAGTCCTCAAAGAGCAAGATGCTTTTTTTCTTTTTAAAGTCCACACGAGTTGGTGACACCT
1 TTTAGTCCTCAAAGAGCAGGATGC-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * * * *
1091428 TTTAGTCTTTAAAAAGCAAGATGCC-TTTT-TTTT-AAAGCCCACACAAGTTGATGGCATCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * *
1091487 TTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTTGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
*
1091549 TTTAGCCCTCAAAGAG
1 TTTAGTCCTCAAAGAG
1091565 TAGTGACGCT
Statistics
Matches: 904, Mismatches: 143, Indels: 34
0.84 0.13 0.03
Matches are distributed among these distances:
59 43 0.05
60 62 0.07
61 264 0.29
62 317 0.35
63 218 0.24
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (62 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
Found at i:1091731 original size:44 final size:43
Alignment explanation
Indices: 1091681--1091803 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 43
1091671 GAGCAAGACG
* *
1091681 CATTTTCTTATTTTCCCTTTGTCCTTAAAGAGTAGGACGTACTT
1 CATTTTCTT-TTTTCCCTTTGTCCTCAAAGAGTAGGACGCACTT
* * *
1091725 CATTTTCTTCTTTTCCCTTTGCCCTCAAAGAGAAAGACGCACTT
1 CATTTTCTT-TTTTCCCTTTGTCCTCAAAGAGTAGGACGCACTT
*
1091769 CATTTCCTTTTTT-CCTTTGTCCTCAAAGAGTAGGA
1 CATTTTCTTTTTTCCCTTTGTCCTCAAAGAGTAGGA
1091804 TGCATTTTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 19 0.28
43 4 0.06
44 46 0.67
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.41
Consensus pattern (43 bp):
CATTTTCTTTTTTCCCTTTGTCCTCAAAGAGTAGGACGCACTT
Found at i:1092630 original size:22 final size:20
Alignment explanation
Indices: 1092598--1092654 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
1092588 CATAAGAAAA
1092598 TGTATCGATACATGTT-TACAAT
1 TGTATCGATACAT-TTCT-C-AT
*
1092620 TGTATCTATACATTTCTCAT
1 TGTATCGATACATTTCTCAT
1092640 TGTATCGATACATTT
1 TGTATCGATACATTT
1092655 TGGGTTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
21 3 0.09
22 13 0.41
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAT
Found at i:1095215 original size:80 final size:79
Alignment explanation
Indices: 1095011--1095357 Score: 307
Period size: 79 Copynumber: 4.4 Consensus size: 79
1095001 ACCAAAAAGC
* * ** * * * *
1095011 ATCAAATTTTTC-TCG--GGGATACTCTAACCCCGTTATTTCGAA-AAGATACACTAGCCCCATT
1 ATCAAATTTTTCATCGTAGGGATACTCTAA-CCCATTATTTCTAAGGGGATACTCCAACCCCACT
1095072 TTTATTTTCAAAAAT
65 TTTATTTTCAAAAAT
* * * *
1095087 ATTAAA-TTTACAAT--TAGGGATATTCTAACCCTATTATTTCTGAGGGGATACTCCAACCCCAC
1 ATCAAATTTTTC-ATCGTAGGGATACTCTAACCC-ATTATTTCTAAGGGGATACTCCAACCCCAC
*
1095149 TTTTATTTCCAAAAAT
64 TTTTATTTTCAAAAAT
* * *
1095165 ATCAAATTTTTCATCGTAGGGATACTCTAACCCTCTTATTT-TCAAGGGGATACTCCAACTCCTC
1 ATCAAATTTTTCATCGTAGGGATACTCTAACCC-ATTATTTCT-AAGGGGATACTCCAACCCCAC
1095229 TTTTATTTTC-AAAAT
64 TTTTATTTTCAAAAAT
* * * * * * * * *
1095244 ATTAAATTTTTTATCTTGGGGATACTATAATCCCATTATTTCTGAGGGAATACTCCAAGCCCATT
1 ATCAAATTTTTCATCGTAGGGATACTCTAA-CCCATTATTTCTAAGGGGATACTCCAACCCCACT
1095309 TTTATTTTCAAAAAT
65 TTTATTTTCAAAAAT
* * * *
1095324 ATAAAAATTTTTCCTTGTAGGGATACTCCAACCC
1 AT-CAAATTTTTCATCGTAGGGATACTCTAACCC
1095358 CACTTTTATT
Statistics
Matches: 216, Mismatches: 41, Indels: 24
0.77 0.15 0.09
Matches are distributed among these distances:
75 4 0.02
76 8 0.04
77 20 0.09
78 34 0.16
79 66 0.31
80 64 0.30
81 20 0.09
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (79 bp):
ATCAAATTTTTCATCGTAGGGATACTCTAACCCATTATTTCTAAGGGGATACTCCAACCCCACTT
TTATTTTCAAAAAT
Found at i:1095216 original size:28 final size:30
Alignment explanation
Indices: 1095183--1095240 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
1095173 TTTCATCGTA
*
1095183 GGGATACTCTAAC-CCTC-TTATTTTCAAG
1 GGGATACTCCAACTCCTCTTTATTTTCAAG
1095211 GGGATACTCCAACTCCTCTTTTATTTTCAA
1 GGGATACTCCAACTCCTC-TTTATTTTCAA
1095241 AATATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.46
29 4 0.15
31 10 0.38
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (30 bp):
GGGATACTCCAACTCCTCTTTATTTTCAAG
Found at i:1095297 original size:79 final size:79
Alignment explanation
Indices: 1095071--1095357 Score: 309
Period size: 79 Copynumber: 3.6 Consensus size: 79
1095061 CTAGCCCCAT
* * *
1095071 TTTTATTTTCAAAAATATTAAA-TTTACA-ATTAGGGATATTCTAACCCTATTATTTCTGAGGGG
1 TTTTATTTTCAAAAATATTAAATTTTTCATCTTAGGGATACTCTAACCCTATTATTTCTGAGGGG
*
1095134 ATACTCCAACCCCAC
66 ATACTCCAA-CCCTC
* * * * *
1095149 TTTTATTTCCAAAAATATCAAATTTTTCATCGTAGGGATACTCTAACCCTCTTATTT-TCAAGGG
1 TTTTATTTTCAAAAATATTAAATTTTTCATCTTAGGGATACTCTAACCCTATTATTTCT-GAGGG
1095213 GATACTCCAACTCCTC
65 GATACTCCAAC-CCTC
* * *
1095229 TTTTATTTTC-AAAATATTAAATTTTTTATCTTGGGGATACTATAATCCC-ATTATTTCTGAGGG
1 TTTTATTTTCAAAAATATTAAATTTTTCATCTTAGGGATACTCTAA-CCCTATTATTTCTGAGGG
*
1095292 AATACTCCAAGCCCAT-
65 GATACTCCAA-CCC-TC
* * *
1095308 TTTTATTTTCAAAAATATAAAAATTTTTCCT-TGTAGGGATACTCCAACCC
1 TTTTATTTTCAAAAATAT-TAAATTTTTCATCT-TAGGGATACTCTAACCC
1095358 CACTTTTATT
Statistics
Matches: 174, Mismatches: 24, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
78 20 0.11
79 68 0.39
80 66 0.38
81 20 0.11
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (79 bp):
TTTTATTTTCAAAAATATTAAATTTTTCATCTTAGGGATACTCTAACCCTATTATTTCTGAGGGG
ATACTCCAACCCTC
Done.