Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold205
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: 1179939
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.30
Warning! 53951 characters in sequence are not A, C, G, or T
File 6 of 7
Found at i:888799 original size:61 final size:62
Alignment explanation
Indices: 888726--888846 Score: 174
Period size: 61 Copynumber: 2.0 Consensus size: 62
888716 TTAAAAGGCG
* *
888726 TCCTACTCTTTGAGGACTAGAA-AATGCCACTAACTTGTGTGGGCTTT-AAAAGGAAAAGGTA
1 TCCTACTCTTTGAGGACTA-AAGAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGTA
* **
888787 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGG
1 TCCTACTCTTTGAGGACTAAAGAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGG
888847 CATCTTGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
60 2 0.04
61 39 0.74
62 12 0.23
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (62 bp):
TCCTACTCTTTGAGGACTAAAGAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGTA
Found at i:888915 original size:109 final size:108
Alignment explanation
Indices: 888745--888946 Score: 316
Period size: 109 Copynumber: 1.9 Consensus size: 108
888735 TTGAGGACTA
* * * *
888745 GAAAATGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAGG
1 GAAAATGCCACCAACTTGTGTGGCCTTTAAAAAGAAAAAGTATCCTGCTCTTTGAGGACTAAAGG
*
888810 GTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGGCATCTT
66 GTGCCACCAACTCGTGTGGACTTTGAAAAGGAAAAGGCATCTT
*
888853 GAAAGTGCCACCAACTTGTGTGGCCTTTAAAAAGAAAAAG-ACGTCCTGCTCTTTGAGGACTAAA
1 GAAAATGCCACCAACTTGTGTGGCCTTTAAAAAGAAAAAGTA--TCCTGCTCTTTGAGGACTAAA
*
888917 TGGTGCCACCAACTCGTGTGGACTTTGAAA
64 GGGTGCCACCAACTCGTGTGGACTTTGAAA
888947 GGCGTCCTGC
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
107 1 0.01
108 35 0.41
109 49 0.58
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (108 bp):
GAAAATGCCACCAACTTGTGTGGCCTTTAAAAAGAAAAAGTATCCTGCTCTTTGAGGACTAAAGG
GTGCCACCAACTCGTGTGGACTTTGAAAAGGAAAAGGCATCTT
Found at i:888979 original size:55 final size:55
Alignment explanation
Indices: 888889--889209 Score: 345
Period size: 55 Copynumber: 5.6 Consensus size: 55
888879 TTAAAAAGAA
* * * *
888889 AAAGACGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGACTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG
* ** * *
888944 AAAGGCGTCCTGCTATTTGAGGACTAAAAAATGCCACCAACTTATGTAGGCTTTGAAAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G
* * * * *
889004 AAAAGGCATCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTTA
1 -AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG
**
889060 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTAGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGT-GTGGGCTTTG
*
889116 AAAAAGGAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 ----A--AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * *
889177 AAAGACGTCCTACTCTTTGAGGACTAAAGGGTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTG
889210 AAAGGAGAGA
Statistics
Matches: 220, Mismatches: 33, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
55 112 0.51
56 9 0.04
57 1 0.00
60 2 0.01
61 55 0.25
62 41 0.19
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (55 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG
Found at i:889169 original size:117 final size:116
Alignment explanation
Indices: 888858--889204 Score: 511
Period size: 117 Copynumber: 3.0 Consensus size: 116
888848 ATCTTGAAAG
* *
888858 TGCCACCAACTTGTGTGGCCTTT-AAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAATGGTG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTG
* *
888922 CCACCAACTCGTGTGGACTTTGAAAGGCGTCCTGCTATTTGAGGACTAAAAAA
64 CCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAAAA
* * * *
888975 TGCCACCAACTTATGTAGGCTTTG-AAAAGAAAAGGCATCCTACTCTTTGAGGACTAGAAGGTGC
1 TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGC
*
889039 CACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAA
65 CACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAAAA
*
889091 TGCCACCAACTTGTAGTGGGCTTTGAAAAAG-GAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTG
1 TGCCACCAACTTGT-GTGGGCTTTGAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTG
* * *
889155 CCACCAACTTGTGTGGGCTTTGAAAGACGTCCTACTCTTTGAGGACTAAA
64 CCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAA
889205 GGGTGAAAGG
Statistics
Matches: 207, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
116 91 0.44
117 110 0.53
118 6 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (116 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCC
ACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAAAA
Found at i:890308 original size:11 final size:11
Alignment explanation
Indices: 890292--890334 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
890282 TTTTTCCTTT
890292 TTGTTTTTTTG
1 TTGTTTTTTTG
890303 TTGTTTTTTTG
1 TTGTTTTTTTG
*
890314 TTGTTGTTGTTG
1 TTGTT-TTTTTG
890326 TT-TTTTTTT
1 TTGTTTTTTT
890335 TAAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 4 0.14
11 18 0.62
12 7 0.24
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (11 bp):
TTGTTTTTTTG
Found at i:890323 original size:20 final size:19
Alignment explanation
Indices: 890289--890332 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
890279 CTTTTTTTCC
*
890289 TTTTTGTTTTTTTGTTGTT
1 TTTTTGTTTTGTTGTTGTT
890308 TTTTTGTTGTTGTTGTTGTT
1 TTTTTGTT-TTGTTGTTGTT
890328 TTTTT
1 TTTTT
890333 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (19 bp):
TTTTTGTTTTGTTGTTGTT
Found at i:904864 original size:51 final size:51
Alignment explanation
Indices: 904801--904916 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
904791 AAAATAGCAG
*
904801 GGTTGGAGTATCCCCAATTGTGAGAAA-TTGATGTTTTCA-AAATAAAATCG-
1 GGTTGGAGTATCCCCAATTGTGA-AAATTTGATATTTT-AGAAATAAAATCGA
* *
904851 GAGTTGGAGTATCCCCGATTGTGAAAATTTGGTATTTTAGAAATAAAATCGA
1 G-GTTGGAGTATCCCCAATTGTGAAAATTTGATATTTTAGAAATAAAATCGA
*
904903 GGTTGGAATATCCC
1 GGTTGGAGTATCCC
904917 TTCAGAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
50 5 0.09
51 52 0.90
52 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTGTGAAAATTTGATATTTTAGAAATAAAATCGA
Found at i:904864 original size:79 final size:78
Alignment explanation
Indices: 904666--904867 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 78
904656 CTGATTATAG
* *
904666 AAAATTGGTGTTTTGAAAATAAAATCGG-GATTGGAGTATCCCCGTGAAAATAACGGGGTTAGAG
1 AAAATTGATGTTTT-AAAATAAAATCGGAG-TTGGAGTATCCCCGTGAAAATAACAGGGTTAGAG
904730 TATCCCCAATTATGA
64 TATCCCCAATTATGA
** ** * * * *
904745 AAAATTGATGTTTTAGAAAT-AAGGCCAAGGTTAGAATATCCCCGTGAAAATAGCAGGGTTGGAG
1 AAAATTGATGTTTTA-AAATAAAATCGGA-GTTGGAGTATCCCCGTGAAAATAACAGGGTTAGAG
*
904809 TATCCCCAATTGTGA
64 TATCCCCAATTATGA
*
904824 GAAATTGATGTTTTCAAAATAAAATCGGAGTTGGAGTATCCCCG
1 AAAATTGATGTTTT-AAAATAAAATCGGAGTTGGAGTATCCCCG
904868 ATTGTGAAAA
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
78 4 0.04
79 90 0.90
80 6 0.06
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (78 bp):
AAAATTGATGTTTTAAAATAAAATCGGAGTTGGAGTATCCCCGTGAAAATAACAGGGTTAGAGTA
TCCCCAATTATGA
Found at i:904995 original size:108 final size:106
Alignment explanation
Indices: 904883--905132 Score: 261
Period size: 108 Copynumber: 2.3 Consensus size: 106
904873 GAAAATTTGG
* * *
904883 TATTTTAGAAATAAAATCGAGGTTGGAATATCCCTTCAGAAATAACGGGATGGGAGTATCCCCGA
1 TATTTTAGAAATAAAATCG-GGTTGGAGTATCCCCTCAGAAATAACGGGATGGGAGTATCCCCAA
** *
904948 TGACGTAACAGGATTGGAGTAACCCCCGATTATG-AAAAATCAA
65 TGAAATAACAGGATTGGAGT-ACCCCCAATTATGAAAAAAT-AA
* * ** * * * *
904991 TATTTTAGATATATAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTCAA
1 TATTTTAGAAATAAAATC-GGGTTGGAGTATCCCCTCAGAAATAACGGGATGGGAGTATCCCCAA
* * * *
905056 TGAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAAATGA
65 TGAAATAACAGGATTGGAGTACCCCCAATTATGAAAAAATAA
*
905098 TGTTTT-GAAAATAAAATCGGAGTTGGAGTATCCCC
1 TATTTTAG-AAATAAAATCGG-GTTGGAGTATCCCC
905133 GATTGTGGTA
Statistics
Matches: 115, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
106 3 0.03
107 36 0.31
108 75 0.65
109 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (106 bp):
TATTTTAGAAATAAAATCGGGTTGGAGTATCCCCTCAGAAATAACGGGATGGGAGTATCCCCAAT
GAAATAACAGGATTGGAGTACCCCCAATTATGAAAAAATAA
Found at i:905048 original size:28 final size:28
Alignment explanation
Indices: 905008--905083 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
904998 GATATATAGC
**
905008 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCAAGGAAATAA
* *
905036 CGGGGTTGGAGTATCCTCAATGAAATAA
1 CGGGGTTGGAGTATCCCCAAGGAAATAA
*
905064 CAGGGTTGGAGTATCCCCAA
1 CGGGGTTGGAGTATCCCCAA
905084 TTGTGAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCAAGGAAATAA
Found at i:905138 original size:51 final size:51
Alignment explanation
Indices: 905068--905236 Score: 182
Period size: 51 Copynumber: 3.3 Consensus size: 51
905058 AAATAACAGG
*
905068 GTTGGAGTATCCCCAATTGTGAAAAAATGATGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAAATGATGTTTTGAAAATAAAATCGGA
** *
905119 GTTGGAGTATCCCCGATTGTG-GTAAATCGATGCTTT-AGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAAAT-GATGTTTTGA-AAATAAAATCGGA
* * ** * * * *
905170 GTTGAAGTATCCTCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTGTGAAAAAATGATGTTTTGAAAATAAAATCGGA
905220 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
905237 GATGAAAAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
50 6 0.06
51 87 0.91
52 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAAATGATGTTTTGAAAATAAAATCGGA
Found at i:907566 original size:20 final size:20
Alignment explanation
Indices: 907554--907610 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
907544 TACATTGTAA
907554 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
*
907574 AATGTATCGATATAATGAGC
1 AATGTATCGATACAATGAGC
907594 AATGTATCGATACAATG
1 AATGTATCGATACAATG
907611 TATAGATACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:907609 original size:13 final size:13
Alignment explanation
Indices: 907593--907623 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
907583 ATATAATGAG
*
907593 CAATGTATCGATA
1 CAATGTATAGATA
907606 CAATGTATAGATA
1 CAATGTATAGATA
907619 CAATG
1 CAATG
907624 AGAAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATAGATA
Found at i:907619 original size:53 final size:53
Alignment explanation
Indices: 907554--907660 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
907544 TACATTGTAA
* * * * *
907554 AATGTATCGATACAATGAGCAATGTATCGATATAATG-AGCAATGTATCGATAC
1 AATGTATAGATACAATGAGAAATGTATCAATACAATGCA-AAATGTATCGATAC
907607 AATGTATAGATACAATGAGAAATGTATCAATACAATGCAAAATGTATCGATAC
1 AATGTATAGATACAATGAGAAATGTATCAATACAATGCAAAATGTATCGATAC
907660 A
1 A
907661 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 47 0.98
54 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (53 bp):
AATGTATAGATACAATGAGAAATGTATCAATACAATGCAAAATGTATCGATAC
Found at i:907624 original size:33 final size:33
Alignment explanation
Indices: 907573--907643 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
907563 ATACAATGAG
* * * *
907573 CAATGTATCGATATAATGAGCAATGTATCGATA
1 CAATGTATAGATACAATGAGAAATGTATCAATA
907606 CAATGTATAGATACAATGAGAAATGTATCAATA
1 CAATGTATAGATACAATGAGAAATGTATCAATA
907639 CAATG
1 CAATG
907644 CAAAATGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (33 bp):
CAATGTATAGATACAATGAGAAATGTATCAATA
Found at i:907632 original size:20 final size:20
Alignment explanation
Indices: 907607--907660 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
907597 GTATCGATAC
*
907607 AATGTATAGATACAATGAGA
1 AATGTATCGATACAATGAGA
*
907627 AATGTATCAATACAATGCA-A
1 AATGTATCGATACAATG-AGA
907647 AATGTATCGATACA
1 AATGTATCGATACA
907661 TCTGGGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:907723 original size:13 final size:13
Alignment explanation
Indices: 907676--907705 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
907666 GTAAACCCAG
*
907676 AATGTATTGATAC
1 AATGTATAGATAC
907689 AATGTATAGATAC
1 AATGTATAGATAC
907702 AATG
1 AATG
907706 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATAGATAC
Found at i:913794 original size:21 final size:21
Alignment explanation
Indices: 913768--913808 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
913758 TTTTTTTAAA
*
913768 AAAAGGGGGAAATTATTTTAT
1 AAAAGGGAGAAATTATTTTAT
*
913789 AAAAGGGAGAGATTATTTTA
1 AAAAGGGAGAAATTATTTTA
913809 AGGGGGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (21 bp):
AAAAGGGAGAAATTATTTTAT
Found at i:916065 original size:19 final size:19
Alignment explanation
Indices: 916018--916052 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
916008 ACCATAGAGC
916018 TTCA-TTTTTTCTATTTTT
1 TTCACTTTTTTCTATTTTT
916036 TTCACTTTTTTCT-TTTT
1 TTCACTTTTTTCTATTTT
916053 CTTTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (19 bp):
TTCACTTTTTTCTATTTTT
Found at i:916982 original size:30 final size:30
Alignment explanation
Indices: 916946--917041 Score: 147
Period size: 30 Copynumber: 3.2 Consensus size: 30
916936 CAAGTAAAGT
*
916946 AATCAAGATGTTGTAATGAAGACAAAAACG
1 AATCAAGATGCTGTAATGAAGACAAAAACG
*
916976 AATCAAGATGCTGTAATGAAGACAAAAATG
1 AATCAAGATGCTGTAATGAAGACAAAAACG
** *
917006 AATCAAGATGCTACAACGAAGACAAAAACG
1 AATCAAGATGCTGTAATGAAGACAAAAACG
917036 AATCAA
1 AATCAA
917042 ACAGCAAAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.17
Consensus pattern (30 bp):
AATCAAGATGCTGTAATGAAGACAAAAACG
Found at i:917156 original size:45 final size:46
Alignment explanation
Indices: 917105--917206 Score: 179
Period size: 45 Copynumber: 2.2 Consensus size: 46
917095 CAGCTGTTGT
917105 AATTAAGCTACTGAACAAGAAGAAGAAATGCATGAAAG-AAAAAGC
1 AATTAAGCTACTGAACAAGAAGAAGAAATGCATGAAAGAAAAAAGC
* *
917150 AATTAAGCTGCTGAACAAGAAGAAGAAATGCATGAAAGAAAAAAGT
1 AATTAAGCTACTGAACAAGAAGAAGAAATGCATGAAAGAAAAAAGC
917196 AATTAAGCTAC
1 AATTAAGCTAC
917207 AAAATGAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 37 0.70
46 16 0.30
ACGTcount: A:0.54, C:0.11, G:0.20, T:0.16
Consensus pattern (46 bp):
AATTAAGCTACTGAACAAGAAGAAGAAATGCATGAAAGAAAAAAGC
Found at i:917242 original size:24 final size:23
Alignment explanation
Indices: 917215--917268 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
917205 ACAAAATGAA
* *
917215 AAAGCAATTAAGCAGTAACAAATG
1 AAAGAAATTAA-CAGCAACAAATG
* *
917239 AAAGAAATTGACAGCATCAAATG
1 AAAGAAATTAACAGCAACAAATG
917262 AAAGAAA
1 AAAGAAA
917269 CCGACAGCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.57, C:0.11, G:0.17, T:0.15
Consensus pattern (23 bp):
AAAGAAATTAACAGCAACAAATG
Found at i:917263 original size:23 final size:23
Alignment explanation
Indices: 917233--917282 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
917223 TAAGCAGTAA
** *
917233 CAAATGAAAGAAATTGACAGCAT
1 CAAATGAAAGAAACCGACAGCAG
917256 CAAATGAAAGAAACCGACAGCAG
1 CAAATGAAAGAAACCGACAGCAG
917279 CAAA
1 CAAA
917283 AGGAGAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.54, C:0.18, G:0.18, T:0.10
Consensus pattern (23 bp):
CAAATGAAAGAAACCGACAGCAG
Found at i:917782 original size:18 final size:18
Alignment explanation
Indices: 917759--917793 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
917749 ACAAAAACAG
* *
917759 AAGCAACCAACGCCAAGA
1 AAGCAACAAACACCAAGA
917777 AAGCAACAAACACCAAG
1 AAGCAACAAACACCAAG
917794 CTAATTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.31, G:0.14, T:0.00
Consensus pattern (18 bp):
AAGCAACAAACACCAAGA
Found at i:921141 original size:32 final size:32
Alignment explanation
Indices: 921103--921175 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
921093 AGCGATACAT
*
921103 TATCGATACAAAACTTATGTATCAATACATTG
1 TATCGATACAAAACTTATGTATCAATACATTA
* *
921135 TATCGATACAATACTTATGTATCGATACATTA
1 TATCGATACAAAACTTATGTATCAATACATTA
921167 TATCGATAC
1 TATCGATAC
921176 CAATTATTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (32 bp):
TATCGATACAAAACTTATGTATCAATACATTA
Found at i:921148 original size:18 final size:19
Alignment explanation
Indices: 921125--921163 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
921115 ACTTATGTAT
921125 CAATACAT-TGTATCGATA
1 CAATACATATGTATCGATA
*
921143 CAATACTTATGTATCGATA
1 CAATACATATGTATCGATA
921162 CA
1 CA
921164 TTATATCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (19 bp):
CAATACATATGTATCGATA
Found at i:922449 original size:20 final size:19
Alignment explanation
Indices: 922424--922494 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
922414 ACCCTGAAAA
922424 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
922444 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
922463 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
922484 GTATCGATACA
1 GTATCGATACA
922495 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:922547 original size:53 final size:53
Alignment explanation
Indices: 922464--922600 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
922454 AAATTGCATA
*
922464 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
*
922518 GTATCGATACACACAATATGTATCGATACAAGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
*
922571 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
922601 TTGGAAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
Found at i:922656 original size:21 final size:21
Alignment explanation
Indices: 922632--922686 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
922622 TTTCACTATT
922632 CATCACTTTCATGTATCGATA
1 CATCACTTTCATGTATCGATA
922653 CATCACTTTCATGTATCGATA
1 CATCACTTTCATGTATCGATA
922674 CATCACTGTTCAT
1 CATCACT-TTCAT
922687 AGGTCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 28 0.85
22 5 0.15
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.38
Consensus pattern (21 bp):
CATCACTTTCATGTATCGATA
Found at i:922723 original size:38 final size:35
Alignment explanation
Indices: 922655--922724 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 35
922645 TATCGATACA
* *
922655 TCACTTTCATGTATCGATACATCACTGTTCATAGG
1 TCACTTTCATGTATCGAAAAATCACTGTTCATAGG
922690 TCACTGTTCATGTATCGTTAAAAATCACTGTTCAT
1 TCACT-TTCATGTATCG--AAAAATCACTGTTCAT
922725 CACTATTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 5 0.17
36 11 0.37
38 14 0.47
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (35 bp):
TCACTTTCATGTATCGAAAAATCACTGTTCATAGG
Found at i:922771 original size:13 final size:13
Alignment explanation
Indices: 922753--922778 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
922743 ACATATTTGT
922753 GTGTATCGATACA
1 GTGTATCGATACA
922766 GTGTATCGATACA
1 GTGTATCGATACA
922779 TCATAAATAG
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:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:924768 original size:186 final size:190
Alignment explanation
Indices: 924490--924915 Score: 558
Period size: 186 Copynumber: 2.3 Consensus size: 190
924480 TTTATGCCCA
* * * *
924490 CTCGAGCCATGTTTTCATATTCCTATAGTTTTACGT-AGAGGTATGAAAATTTTTAATACCTTTC
1 CTCGAGACATGTTTTCATATTCCTATGGTTTTACGTAAG-GGTATGAAAATCTTTAACACCTTTC
* * *
924554 ATATCCTCTGATTTTCCATCAGGTACGAAACATAATGTTCGAAATTTAGAAGTTAAATTTAAAAA
65 ATATCCTCTGATTTTCCATCAAGTACGAAACATAATGTTCGAAAATTAGAAGGTAAATTTAAAAA
* * *
924619 TTTATAAAAATTCGATTTCCCT-AAATTAATA-TTT-AAAAAATATGTGAT-GTTTATTTG
130 TTTAGAAAAATTCGATTTCCCTAAAATTAATATTTTGAAAAAATATATGATCGCTTATTTG
** * *
924676 CTCGAGTTATGTTTTCATATTCCTATGGTTTTTCGTAAGGGTATGAAAATCTTTAACACCTTTCG
1 CTCGAGACATGTTTTCATATTCCTATGGTTTTACGTAAGGGTATGAAAATCTTTAACACCTTTCA
* * * * *
924741 TATCTTAC-GGTTTTTCGTCAAGTACGAAACATAATTTTCGAAAATTAGAAGGTAAATTTAAAAA
66 TATCCT-CTGATTTTCCATCAAGTACGAAACATAATGTTCGAAAATTAGAAGGTAAATTTAAAAA
* * * *
924805 TTTAGAAATATTCGGTTTCCCTAAAATTAATATTTTGAAAAAATGTATGGTCGCTTATTTG
130 TTTAGAAAAATTCGATTTCCCTAAAATTAATATTTTGAAAAAATATATGATCGCTTATTTG
* *
924866 CTCGAGACATATTTTCATATTCCTATGGGTTTTCCGTAAGGGTATGAAAA
1 CTCGAGACATGTTTTCATATTCCTAT-GGTTTTACGTAAGGGTATGAAAA
924916 ATAAAAAATT
Statistics
Matches: 207, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
186 128 0.62
187 12 0.06
188 3 0.01
189 11 0.05
190 31 0.15
191 22 0.11
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (190 bp):
CTCGAGACATGTTTTCATATTCCTATGGTTTTACGTAAGGGTATGAAAATCTTTAACACCTTTCA
TATCCTCTGATTTTCCATCAAGTACGAAACATAATGTTCGAAAATTAGAAGGTAAATTTAAAAAT
TTAGAAAAATTCGATTTCCCTAAAATTAATATTTTGAAAAAATATATGATCGCTTATTTG
Found at i:931795 original size:30 final size:30
Alignment explanation
Indices: 931761--931836 Score: 143
Period size: 30 Copynumber: 2.5 Consensus size: 30
931751 TGAAGATGAT
931761 CGCCCATGACCTACTGAAGATCATGGAATC
1 CGCCCATGACCTACTGAAGATCATGGAATC
931791 CGCCCATGACCTACTGAAGATCATGGAATC
1 CGCCCATGACCTACTGAAGATCATGGAATC
*
931821 CGCCCATGTCCTACTG
1 CGCCCATGACCTACTG
931837 GATATGTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (30 bp):
CGCCCATGACCTACTGAAGATCATGGAATC
Found at i:936269 original size:52 final size:52
Alignment explanation
Indices: 936182--936306 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
936172 ATATGAAAAG
* *
936182 TTGCCTGCATGTATCGATACATTTAATAGTATATCGATACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATATATCGATAAATCTAGGCAAAT
* * *
936234 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATAAATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATATATCGATAAATCTAGGCAAAT
936286 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
936307 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATATATCGATAAATCTAGGCAAAT
Found at i:936319 original size:52 final size:51
Alignment explanation
Indices: 936182--936324 Score: 189
Period size: 52 Copynumber: 2.7 Consensus size: 51
936172 ATATGAAAAG
* *
936182 TTGCCTGCATGTATCGATACATTTAATAGTATATCGATACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATAAATCTAGGCAAAT
* * *
936234 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATAAATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATAAATCTAGGCAAAT
*
936286 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATA
936325 CAATGTATCG
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATAAATCTAGGCAAAT
Found at i:936333 original size:13 final size:13
Alignment explanation
Indices: 936315--936339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
936305 CAAAGATCAG
936315 TGTATCGATACAA
1 TGTATCGATACAA
936328 TGTATCGATACA
1 TGTATCGATACA
936340 TTTGAGTAAT
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:936406 original size:19 final size:19
Alignment explanation
Indices: 936382--936446 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
936372 TAGCTTAAAT
936382 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
936401 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
936414 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
936433 TGTATCGATACAAA
1 TGTATCGATACAAA
936447 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:936419 original size:13 final size:13
Alignment explanation
Indices: 936401--936425 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
936391 ACAAAACTTA
936401 TGTATCGATACAT
1 TGTATCGATACAT
936414 TGTATCGATACA
1 TGTATCGATACA
936426 ACACTTATGT
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:936421 original size:32 final size:32
Alignment explanation
Indices: 936380--936444 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
936370 AGTAGCTTAA
936380 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
936412 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
936444 A
1 A
936445 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:940645 original size:44 final size:44
Alignment explanation
Indices: 940588--940700 Score: 181
Period size: 44 Copynumber: 2.6 Consensus size: 44
940578 CATTTCAGCC
*
940588 TGACATATGGTTACCACCCTAGTCAGATTTTTCTCATTCTAATT
1 TGACATCTGGTTACCACCCTAGTCAGATTTTTCTCATTCTAATT
* * *
940632 TGACGTGTGGTTACCACCCTAGTCAGATTTTTCTCATTCTGATT
1 TGACATCTGGTTACCACCCTAGTCAGATTTTTCTCATTCTAATT
*
940676 TGACATCTGGTTATCACCCTAGTCA
1 TGACATCTGGTTACCACCCTAGTCA
940701 AATCCTCTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (44 bp):
TGACATCTGGTTACCACCCTAGTCAGATTTTTCTCATTCTAATT
Found at i:941185 original size:84 final size:84
Alignment explanation
Indices: 940807--941761 Score: 670
Period size: 83 Copynumber: 11.4 Consensus size: 84
940797 ACTTTCTTAC
* * * ** * * *
940807 CTTC-AGTTTGCCTATAGGTTTTGACCTTGGAGACTACCTCA-TCTCAAGTCTGCCTGTCGACTT
1 CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCCTC-AGTCTGCCTGTCGGCTT
* * * *
940870 TGACATT-GAGACTTTCCCAC
65 TGACCTTGGAGAC-TGCCTAA
* * * * * * * * * *
940890 CTTC-AGTCTGCTTGTCGGCTTTAACCCTGAAGAC-TGCTTACCTTAAGTCTTCCTGCCGGCTTT
1 CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCCTCAGTCTGCCTGTCGGCTTT
*
940953 GACCTTGGAGACTGCCTCAC
66 GACCTTGGAGACTGCCT-AA
* * * * * *
940973 CTT-AAGTCTGCCTATCAGCTTT-AACTCTGAAGACTTTCTTACCTTTAGTCTGCCTGTCGACTT
1 CTTCAAGTCTGCCTATCGGCTTTGACCT-TGGAGACTTTCTTACCCTCAGTCTGCCTGTCGGCTT
* * ** * *
941036 TAACCCTGGAGACCACATTCA
65 TGACCTTGGAGACTGC-CTAA
* * * * * * *
941057 CTTCAAGTCTGCCTGTCGGTTTTAACCCTGAAAACTTTCTTACCCTCAGTCTGCTTGTCGGCTTT
1 CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCCTCAGTCTGCCTGTCGGCTTT
941122 GACCTTGGAGACTGCCTAA
66 GACCTTGGAGACTGCCTAA
* * * * * ***
941141 CTTCAAGTTTGCCTATCGACGTTGACCTTAGAGACTTTCTTACCCTCAGTCTGCATGTCAAATTT
1 CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCCTCAGTCTGCCTGTCGGCTTT
* * *
941206 G-GCTTGGAGATTGCCTCA
66 GACCTTGGAGACTGCCTAA
* * *
941224 CCTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTA-CCTACAGTCTGCTTGTTGGCTT
1 CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCCT-CAGTCTGCCTGTCGGCTT
* *
941288 TGACCTTGG-GATTGCCTCA
65 TGACCTTGGAGACTGCCTAA
* * ** * * *
941307 -TCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTACATTCAGTCTGTCTATCAGCTT
1 CT-TCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCCTCAGTCTGCCTGTCGGCTT
** * * *
941371 TGACCTTAAACACT-ACTTA
65 TGACCTTGGAGACTGCCTAA
* * * * * * * *
941390 CCTCAAGTCTACTTGTCGGCTTTAACCCTGGAGACTTTCTTACCTTCAGTCTACCTGTCGGCTTT
1 CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCCTCAGTCTGCCTGTCGGCTTT
* * *
941455 GACCTTGGAGATTG-TTCAT
66 GACCTTGGAGACTGCCT-AA
* * * * *
941474 CTT-AAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACCCTTCAGTCTACCTGTCGACTT
1 CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCC-TCAGTCTGCCTGTCGGCTT
*
941538 TGACCTTGGAGACTGCCTCA
65 TGACCTTGGAGACTGCCTAA
* ** * * *
941558 -TCTCAAGTCTGCCTATCGGCTTTGACCTTAGAGACTACCTTA-TCTCAAGTCTGCTTGTCAGCT
1 CT-TCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCCTC-AGTCTGCCTGTCGGCT
* * * *
941621 TTGACCCTAGAGACTTTCCTAC
64 TTGACCTTGGAGAC-TGCCTAA
* * ** * * *
941643 CTTC-AGTCTGCCTATCGACTTTGACCCTGGAGACTACCTCA-TCTCAAGTCTGCCTATCGGCTT
1 CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCCTC-AGTCTGCCTGTCGGCTT
* *
941706 TGACCTTGGAGACTTTCCTAC
65 TGACCTTGGAGAC-TGCCTAA
* * *
941727 CTT-TAGTCTGCCTGTCGGCTTTGACCGTGGAGACT
1 CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACT
941762 ACCTCATCTC
Statistics
Matches: 693, Mismatches: 154, Indels: 49
0.77 0.17 0.05
Matches are distributed among these distances:
82 31 0.04
83 298 0.43
84 262 0.38
85 99 0.14
86 3 0.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (84 bp):
CTTCAAGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTTACCCTCAGTCTGCCTGTCGGCTTT
GACCTTGGAGACTGCCTAA
Found at i:941847 original size:42 final size:42
Alignment explanation
Indices: 940797--941855 Score: 660
Period size: 42 Copynumber: 25.3 Consensus size: 42
940787 AACCCTAGAA
* * * * *
940797 ACTTTCTTACCTTCAGTTTGCCTATAGGTTTTGACCTTGGAG
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * *
940839 AC-TACCT-CATCTCAAGTCTGCCTGTCGACTTTGACATT-GAG
1 ACTTTCCTACCT-TC-AGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * *
940880 ACTTTCCCACCTTCAGTCTGCTTGTCGGCTTTAACCCTGAAG
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * *
940922 AC-TGCTTACCTTAAGTCTTCCTGCCGGCTTTGACCTTGGAG
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * * *
940963 AC-TGCCTCACCTTAAGTCTGCCTATCAGCTTT-AACTCTGAAG
1 ACTTTCCT-ACCTTCAGTCTGCCTGTCGGCTTTGACCT-TGGAG
* * * * *
941005 ACTTTCTTACCTTTAGTCTGCCTGTCGACTTTAACCCTGGAG
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
** * * * * * * *
941047 AC-CACATTCACTTCAAGTCTGCCTGTCGGTTTTAACCCTGAAA
1 ACTTTCCTAC-CTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAG
* * *
941090 ACTTTCTTACCCTCAGTCTGCTTGTCGGCTTTGACCTTGGAG
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * * * *
941132 AC-TGCCTAACTTCAAGTTTGCCTATCGACGTTGACCTTAGAG
1 ACTTTCCTACCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * *** *
941174 ACTTTCTTACCCTCAGTCTGCATGTCAAATTTG-GCTTGGAG
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* *
941215 A-TTGCCTCACC-TCAAGTCTGCCTATCGGCTTTGACCTTGGAG
1 ACTTTCCT-ACCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * *
941257 ACTTTCTTACCTACAGTCTGCTTGTTGGCTTTGACCTTGG-G
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* *
941298 A-TTGCCT-CATCTCAAGTCTGCCTGTCGGCTTTGACCTTGGAG
1 ACTTTCCTACCT-TC-AGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * ** *
941340 ACTTTCCTACATTCAGTCTGTCTATCAGCTTTGACCTTAAAC
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * * *
941382 AC-TACTTACC-TCAAGTCTACTTGTCGGCTTTAACCCTGGAG
1 ACTTTCCTACCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAG
* *
941423 ACTTTCTTACCTTCAGTCTACCTGTCGGCTTTGACCTTGGAG
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * *
941465 A-TTGTTC-ATCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAG
1 ACTT-TCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * *
941506 ACTTTCTTACCCTTCAGTCTACCTGTCGACTTTGACCTTGGAG
1 ACTTTCCTA-CCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * *
941549 AC-TGCCT-CATCTCAAGTCTGCCTATCGGCTTTGACCTTAGAG
1 ACTTTCCTACCT-TC-AGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * * *
941591 AC-TACCTTATC-TCAAGTCTGCTTGTCAGCTTTGACCCTAGAG
1 ACTTTCC-TACCTTC-AGTCTGCCTGTCGGCTTTGACCTTGGAG
* * *
941633 ACTTTCCTACCTTCAGTCTGCCTATCGACTTTGACCCTGGAG
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * *
941675 AC-TACCT-CATCTCAAGTCTGCCTATCGGCTTTGACCTTGGAG
1 ACTTTCCTACCT-TC-AGTCTGCCTGTCGGCTTTGACCTTGGAG
* *
941717 ACTTTCCTACCTTTAGTCTGCCTGTCGGCTTTGACCGTGGAG
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * ** * *
941759 AC-TACCT-CATCTCAAGTTTGCCTGTCAACTTTGACCCTAGAG
1 ACTTTCCTACCT-TC-AGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * * *
941801 ACTTTTCTACCTTCAGTCTGCTTGTCAGCTTTAACCCTAGAG
1 ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
941843 ACTTTTCC-ACCTT
1 AC-TTTCCTACCTT
941856 TTGTCTACCC
Statistics
Matches: 780, Mismatches: 191, Indels: 92
0.73 0.18 0.09
Matches are distributed among these distances:
39 2 0.00
40 21 0.03
41 198 0.25
42 443 0.57
43 106 0.14
44 10 0.01
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (42 bp):
ACTTTCCTACCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAG
Found at i:942442 original size:20 final size:19
Alignment explanation
Indices: 942414--942459 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
942404 TTTGACATTA
942414 AAAAATAAAAAAATTAAAAT
1 AAAAATAAAAAAATT-AAAT
* *
942434 AAAATTAAAATAATTAAAT
1 AAAAATAAAAAAATTAAAT
942453 AAAAATA
1 AAAAATA
942460 TATACATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATAAAAAAATTAAAT
Found at i:942443 original size:19 final size:19
Alignment explanation
Indices: 942415--942456 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
942405 TTGACATTAA
942415 AAAATAAAAA-AATTAAAAT
1 AAAATAAAAATAATT-AAAT
*
942434 AAAATTAAAATAATTAAAT
1 AAAATAAAAATAATTAAAT
942453 AAAA
1 AAAA
942457 ATATATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAAAAATAATTAAAT
Found at i:942977 original size:30 final size:30
Alignment explanation
Indices: 942940--943007 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
942930 ACAATTAAAG
*
942940 TAATCAAGATGTTGTAATAAAGACAAAAA-
1 TAATCAAGATGTTGCAATAAAGACAAAAAC
*
942969 TGAATCAAGATGTTGCAATGAAGACAAAAAC
1 T-AATCAAGATGTTGCAATAAAGACAAAAAC
943000 TAATCAAG
1 TAATCAAG
943008 CAGCAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 1 0.03
30 33 0.94
31 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.22
Consensus pattern (30 bp):
TAATCAAGATGTTGCAATAAAGACAAAAAC
Found at i:943163 original size:58 final size:59
Alignment explanation
Indices: 943092--943211 Score: 197
Period size: 58 Copynumber: 2.1 Consensus size: 59
943082 AAACAGCTAC
*
943092 AATTAAACTGCTGAATAAGAAGAAGAAACGCATGAAAG-AAAAAGCAATTAAGCTGCAA
1 AATTAAACTGCTGAACAAGAAGAAGAAACGCATGAAAGAAAAAAGCAATTAAGCTGCAA
* * *
943150 AATTAAGCTGCTGAACCAGAAGAAGAAACGCATGAAAGAAAAAAGTAATTAAGCTGCAA
1 AATTAAACTGCTGAACAAGAAGAAGAAACGCATGAAAGAAAAAAGCAATTAAGCTGCAA
943209 AAT
1 AAT
943212 GAAAAAACAA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 35 0.61
59 22 0.39
ACGTcount: A:0.53, C:0.12, G:0.19, T:0.16
Consensus pattern (59 bp):
AATTAAACTGCTGAACAAGAAGAAGAAACGCATGAAAGAAAAAAGCAATTAAGCTGCAA
Found at i:943223 original size:24 final size:26
Alignment explanation
Indices: 943187--943244 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
943177 ACGCATGAAA
*
943187 GAAAAAAGTAATTAAGC-T-GCAAAAT
1 GAAAAAAGCAATTAAGCATAGC-AAAT
943212 GAAAAAA-CAATTAAGCAGTAGCAAAT
1 GAAAAAAGCAATTAAGCA-TAGCAAAT
943238 GAAAAAA
1 GAAAAAA
943245 ATCGACAGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 8 0.28
25 7 0.24
26 12 0.41
27 2 0.07
ACGTcount: A:0.60, C:0.09, G:0.16, T:0.16
Consensus pattern (26 bp):
GAAAAAAGCAATTAAGCATAGCAAAT
Found at i:943282 original size:23 final size:23
Alignment explanation
Indices: 943231--943282 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
943221 ATTAAGCAGT
* *
943231 AGCAAATGAAAAAAATCGACAGC
1 AGCAAATGAAAAAAACCGACAAC
* *
943254 ATCAAATGAAAGAAACCGACAAC
1 AGCAAATGAAAAAAACCGACAAC
943277 AGCAAA
1 AGCAAA
943283 AGGAGAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (23 bp):
AGCAAATGAAAAAAACCGACAAC
Found at i:943777 original size:18 final size:18
Alignment explanation
Indices: 943754--943788 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
943744 ACAAAAACAG
*
943754 AAGCAACCAACACCAAGA
1 AAGCAACAAACACCAAGA
943772 AAGCAACAAACACCAAG
1 AAGCAACAAACACCAAG
943789 CTAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.31, G:0.11, T:0.00
Consensus pattern (18 bp):
AAGCAACAAACACCAAGA
Found at i:944801 original size:187 final size:186
Alignment explanation
Indices: 944421--944806 Score: 469
Period size: 187 Copynumber: 2.1 Consensus size: 186
944411 TTTTAACACC
*
944421 TTTCGTATCCCTGATTTTTCATCAGGGACGAAACATAATGTTCAAAATTTAGAAGTTAAATTTAA
1 TTTCGTATCCCTGATTTTCCATCAGGGACGAAACATAATGTTCAAAATTTAGAAGTTAAATTTAA
* * **
944486 AAATTTAGAAAAATTTGATTTCCCTAAATTAATATTTTAAAAAAATATGTAATCATTTATTTGCT
66 AAATTTAGAAAAATTAGATTTCCCTAAATTAATATTTTAAAAAAATATGTAATAATTTATTCACT
* * * * * **
944551 CAAGTTATGTTTTCATATTCCTATGGTTTTCCGTAGGGGTATAAAATTTTTAACACC
131 CAAGTAATATTTTCATATTCCTATGGTTTTCCGTAAGGGTATAAAA-TATCAACAAA
* * **
944608 TTTCGTATCCCTGGTTTTCCATC-GGGTACGAAACATAATTTTTGAAATTTAGAAAG-TAAATTT
1 TTTCGTATCCCTGATTTTCCATCAGGG-ACGAAACATAATGTTCAAAATTTAG-AAGTTAAATTT
* * **
944671 AAAAATTTTA-AAAAATTA-AGTTTCCCTAAAATTAATATTTTTAAAAAATGTGTGGTAATTTAT
64 AAAAA-TTTAGAAAAATTAGA-TTTCCCT-AAATTAATATTTTAAAAAAATATGTAATAATTTAT
*
944734 TCACTCGAGTAATATTTTCATATTCCTATGGGTTTTCCGTAAGGGTATGAAAA-ATCAA-AAA
126 TCACTCAAGTAATATTTTCATATTCCTAT-GGTTTTCCGTAAGGGTAT-AAAATATCAACAAA
944795 TTTCGTATCCCT
1 TTTCGTATCCCT
944807 TGATGTTCTG
Statistics
Matches: 171, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
186 4 0.02
187 82 0.48
188 64 0.37
189 17 0.10
190 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (186 bp):
TTTCGTATCCCTGATTTTCCATCAGGGACGAAACATAATGTTCAAAATTTAGAAGTTAAATTTAA
AAATTTAGAAAAATTAGATTTCCCTAAATTAATATTTTAAAAAAATATGTAATAATTTATTCACT
CAAGTAATATTTTCATATTCCTATGGTTTTCCGTAAGGGTATAAAATATCAACAAA
Found at i:945902 original size:13 final size:13
Alignment explanation
Indices: 945884--945999 Score: 61
Period size: 13 Copynumber: 7.5 Consensus size: 13
945874 TTCAACGATT
945884 TGTATCGATATAA
1 TGTATCGATATAA
945897 TGTATCGATACATAA
1 TGTATCGAT--ATAA
945912 GTGTTGTATCGATATAA
1 ----TGTATCGATATAA
945929 TGTATCGATACATAA
1 TGTATCGAT--ATAA
*
945944 GTGTTGTATCGATACAA
1 ----TGTATCGATATAA
945961 TGTATCGATACATAA
1 TGTATCGAT--ATAA
945976 GTTTTGTATCGATATAA
1 ----TGTATCGATATAA
945993 TGTATCG
1 TGTATCG
946000 CTACGAAGCT
Statistics
Matches: 83, Mismatches: 2, Indels: 36
0.69 0.02 0.30
Matches are distributed among these distances:
13 34 0.41
15 11 0.13
17 11 0.13
19 27 0.33
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (13 bp):
TGTATCGATATAA
Found at i:945921 original size:19 final size:18
Alignment explanation
Indices: 945897--945989 Score: 89
Period size: 19 Copynumber: 5.6 Consensus size: 18
945887 ATCGATATAA
945897 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
945916 TGTATCGAT--ATAA---
1 TGTATCGATACATAAGTT
945929 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
945948 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
945961 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
945980 TGTATCGATA
1 TGTATCGATA
945990 TAATGTATCG
Statistics
Matches: 62, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
13 20 0.32
15 6 0.10
17 6 0.10
19 30 0.48
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:945924 original size:32 final size:32
Alignment explanation
Indices: 945883--945999 Score: 216
Period size: 32 Copynumber: 3.7 Consensus size: 32
945873 TTTCAACGAT
945883 TTGTATCGATATAATGTATCGATACATAAGTG
1 TTGTATCGATATAATGTATCGATACATAAGTG
945915 TTGTATCGATATAATGTATCGATACATAAGTG
1 TTGTATCGATATAATGTATCGATACATAAGTG
* *
945947 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATATAATGTATCGATACATAAGTG
945979 TTGTATCGATATAATGTATCG
1 TTGTATCGATATAATGTATCG
946000 CTACGAAGCT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 82 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (32 bp):
TTGTATCGATATAATGTATCGATACATAAGTG
Found at i:946062 original size:13 final size:13
Alignment explanation
Indices: 946044--946068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
946034 ATTACTCAAA
946044 TGTATCGATACAT
1 TGTATCGATACAT
946057 TGTATCGATACA
1 TGTATCGATACA
946069 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:946121 original size:52 final size:52
Alignment explanation
Indices: 946077--946205 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
946067 CACTGATCTT
*
946077 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
946129 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
946181 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
946206 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:948336 original size:24 final size:25
Alignment explanation
Indices: 948309--948359 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
948299 ATCAAAATTT
948309 TATTCATC-GGGGACACTCCAACCC
1 TATTCATCAGGGGACACTCCAACCC
*
948333 TATTCCTCTAAGGGGACACTCCAACCC
1 TATTCATC--AGGGGACACTCCAACCC
948360 CGTTTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
27 16 0.70
ACGTcount: A:0.25, C:0.37, G:0.16, T:0.22
Consensus pattern (25 bp):
TATTCATCAGGGGACACTCCAACCC
Found at i:960053 original size:38 final size:38
Alignment explanation
Indices: 960011--960155 Score: 143
Period size: 42 Copynumber: 3.6 Consensus size: 38
960001 GGCGTCCTCC
960011 ACAAAAAAAAAACAAACAAAAAAAAAGAAGAAAAAAAA
1 ACAAAAAAAAAACAAACAAAAAAAAAGAAGAAAAAAAA
*
960049 ACAAAACAAAAAA-AAACAAAACAAACAA-ACAAAAAAAAAA
1 ACAAAA-AAAAAACAAACAAAA-AAA-AAGA-AGAAAAAAAA
*
960089 GAAAAAAAAACAAACAAACAAATAAAAAAAGAAGAAGAAAAAA
1 -ACAAAAAAA-AAACAAAC-AA-AAAAAAAGAAGAA-AAAAAA
* *
960132 ATAAACAAACAAACAAA-AAAAAAA
1 ACAAA-AAAAAAACAAACAAAAAAA
960156 CAACAACAAC
Statistics
Matches: 90, Mismatches: 5, Indels: 23
0.76 0.04 0.19
Matches are distributed among these distances:
38 14 0.16
39 15 0.17
40 16 0.18
41 8 0.09
42 20 0.22
43 15 0.17
44 2 0.02
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.01
Consensus pattern (38 bp):
ACAAAAAAAAAACAAACAAAAAAAAAGAAGAAAAAAAA
Found at i:960170 original size:1 final size:1
Alignment explanation
Indices: 960013--960155 Score: 88
Period size: 1 Copynumber: 143.0 Consensus size: 1
960003 CGTCCTCCAC
* * * * * * * * *
960013 AAAAAAAAAACAAACAAAAAAAAAGAAGAAAAAAAAACAAAACAAAAAAAAACAAAACAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * * *
960078 CAAAAAAAAAAGAAAAAAAAACAAACAAACAAATAAAAAAAGAAGAAGAAAAAAATAAACAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
960143 AACAAAAAAAAAA
1 AAAAAAAAAAAAA
960156 CAACAACAAC
Statistics
Matches: 98, Mismatches: 44, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 98 1.00
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.01
Consensus pattern (1 bp):
A
Found at i:960170 original size:15 final size:15
Alignment explanation
Indices: 960011--960158 Score: 122
Period size: 16 Copynumber: 9.3 Consensus size: 15
960001 GGCGTCCTCC
960011 ACAAAAAAAAAACAA
1 ACAAAAAAAAAACAA
960026 ACAAAAAAAAAGA-AGA
1 ACAAAAAAAAA-ACA-A
*
960042 AAAAAAAACAAAACAA
1 ACAAAAAA-AAAACAA
960058 A-AAAAAACAAAACAA
1 ACAAAAAA-AAAACAA
*
960073 ACAAACAAAAAAAAAA
1 ACAAA-AAAAAAACAA
*
960089 GAAAAAAAAACAAACAA
1 -ACAAAAAAA-AAACAA
*
960106 ACAAATAAAAAAAGAAGA
1 ACAAA-AAAAAAA-CA-A
*
960124 AGAAAAAAATAAACAA
1 ACAAAAAAA-AAACAA
960140 ACAAACAAAAAAA-AA
1 ACAAA-AAAAAAACAA
960155 ACAA
1 ACAA
960159 CAACAACAAA
Statistics
Matches: 111, Mismatches: 9, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
15 33 0.30
16 40 0.36
17 30 0.27
18 8 0.07
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.01
Consensus pattern (15 bp):
ACAAAAAAAAAACAA
Found at i:960170 original size:38 final size:34
Alignment explanation
Indices: 960014--960170 Score: 145
Period size: 37 Copynumber: 4.3 Consensus size: 34
960004 GTCCTCCACA
* *
960014 AAAAAAAAACAAACAAAAAAAAAGAAGAAAAAAAAAC
1 AAAAAAAAA-AAACAAACAAACA-AA-AAAAAAAAAC
*
960051 AAAACAAAAAAAAACAAAACAAACAAACAAAAAAAA-
1 -AAA-AAAAAAAAAC-AAACAAACAAAAAAAAAAAAC
* *
960087 AAGAAAAAAAAACAAACAAACAAATAAAAAAAGAAG
1 AAAAAAAAAAAACAAACAAACAAA-AAAAAAA-AAC
960123 AAGAAAAAAATAAACAAACAAACAAAAAAAAAACAAC
1 AA-AAAAAAA-AAACAAACAAACAAAAAAAAAA-AAC
* *
960160 AACAACAAAAA
1 AAAAAAAAAAA
960171 GGGTCCGGAT
Statistics
Matches: 102, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
33 11 0.11
34 16 0.16
35 6 0.06
36 7 0.07
37 25 0.25
38 24 0.24
39 13 0.13
ACGTcount: A:0.83, C:0.11, G:0.04, T:0.01
Consensus pattern (34 bp):
AAAAAAAAAAAACAAACAAACAAAAAAAAAAAAC
Found at i:961641 original size:28 final size:28
Alignment explanation
Indices: 961603--961713 Score: 145
Period size: 28 Copynumber: 3.9 Consensus size: 28
961593 CATCTTTTCC
961603 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
*
961631 AAAGCCCACAAGTCAGTGGCACCCTTTTTC-
1 AAAGCCCACAAGTCAGTGGCAACC---TTCA
*
961661 AAAGCCCACAAATCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
961689 AAAGCCAACAAGTCCGTGGC-ACCTT
1 AAAGCCCACAAGTCAGTGGCAACCTT
961714 TTTTCTTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.11
28 40 0.55
30 22 0.30
31 3 0.04
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.17
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:961686 original size:58 final size:58
Alignment explanation
Indices: 961596--961718 Score: 201
Period size: 58 Copynumber: 2.1 Consensus size: 58
961586 CATTCCTCAT
* * *
961596 CTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACC
1 CTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCAACAAGTCAGTGGCACC
*
961654 CTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCAACAAGTCCGTGGCACC
1 CTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCAACAAGTCAGTGGCACC
*
961712 TTTTTTC
1 CTTTTTC
961719 TTTTTAAAGC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (58 bp):
CTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCAACAAGTCAGTGGCACC
Found at i:961761 original size:27 final size:27
Alignment explanation
Indices: 961720--961833 Score: 156
Period size: 27 Copynumber: 4.0 Consensus size: 27
961710 CCTTTTTTCT
*
961720 TTTTAAAGCCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
961748 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
961775 TTTTAAGTCCACAACTCCGTGGCACCTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCA-C----CC
*
961807 TTTCAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
961834 CCTTCTAAAG
Statistics
Matches: 79, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
27 48 0.61
28 5 0.06
31 1 0.01
32 25 0.32
ACGTcount: A:0.22, C:0.38, G:0.14, T:0.26
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:961777 original size:63 final size:64
Alignment explanation
Indices: 961595--961778 Score: 188
Period size: 58 Copynumber: 3.0 Consensus size: 64
961585 ACATTCCTCA
* * * * *
961595 TCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACC-----
1 TCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCAACAACTCCGTGGCACCTTTTT
*
961654 -CTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCAACAAGTCCGTGGCACCTTTTT
1 TCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCAACAACTCCGTGGCACCTTTTT
* * * ** *
961717 TCTTTTT-AAAGCCCACAACTCCGTGGCACCCTT-TTAAGTCC-ACAACTCCGTGGCACCCTTTT
1 TCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAG-CCAACAACTCCGTGGCACCTTTTT
961779 AAGTCCACAA
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
58 54 0.50
62 22 0.21
63 25 0.23
64 6 0.06
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (64 bp):
TCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTCAAAAGCCAACAACTCCGTGGCACCTTTTT
Found at i:961879 original size:33 final size:33
Alignment explanation
Indices: 961837--961931 Score: 181
Period size: 33 Copynumber: 2.9 Consensus size: 33
961827 GGCACCCCCT
961837 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
961870 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
*
961903 TCTAAAGCCTACACAAGTCGGTGGCAACC
1 TCTAAAGCCCACACAAGTCGGTGGCAACC
961932 CTTTTAAGTC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.18
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
Found at i:961994 original size:49 final size:49
Alignment explanation
Indices: 961934--962558 Score: 688
Period size: 49 Copynumber: 12.8 Consensus size: 49
961924 TGGCAACCCT
* ** *
961934 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
*
961983 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * * *
962025 ---AAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
962071 TTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCA-C--CA--
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
*
962115 -TTAAGTCCAATGTCGCTGGCTTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * *
962163 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC
962215 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 -TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
962265 TTTAAGTCCAATATCGCTGGCTTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * *
962314 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC
962366 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 -TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * *
962416 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTCGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCATC
** * * *
962468 TTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATC
1 TTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCATC
* * * *
962521 TTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
962559 ACATTTTTTT
Statistics
Matches: 489, Mismatches: 57, Indels: 57
0.81 0.09 0.09
Matches are distributed among these distances:
39 32 0.07
42 1 0.00
43 39 0.08
44 1 0.00
45 1 0.00
46 4 0.01
48 1 0.00
49 231 0.47
50 11 0.02
51 4 0.01
52 46 0.09
53 116 0.24
54 1 0.00
55 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
Found at i:962091 original size:88 final size:90
Alignment explanation
Indices: 961936--962509 Score: 522
Period size: 102 Copynumber: 6.0 Consensus size: 90
961926 GCAACCCTTT
* * *
961936 TAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCATCTTTAAGACCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
962001 GGCCTTGAATCAGCACATTGGCA-C
66 GGCCTTGAATCAGCACATTGGCACC
* * *
962025 -AAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCACT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
962089 GGCCTTGAATCAGCACATTGGCACC
66 GGCCTTGAATCAGCACATTGGCACC
* * * * * *
962114 ATTAAGTCCAATGTCGCTGGCTTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 --TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCG
* * *
962179 CTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT
64 CTGGCCTTGAATCAGCACATT---G-----G-CA-C--C
* * * * *
962218 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
*
962283 GGCTTTGAATCAGCACATTGGCACCTTCATC
66 GGCCTTGAATCAGCACATTGGCA----C--C
* * *
962314 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAAT
1 --TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC-TTTAAGACCAAT
962379 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
60 GTCGCTGGCCTTGAATCAGCACATTGGCA----C--C
* * * *
962416 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTCGTCATCTTTAAAACCCAAT
1 --TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTTAAGA-CCAAT
* *
962481 GTTGTTGGCCTTGAATCAGCACATTGGCA
60 GTCGCTGGCCTTGAATCAGCACATTGGCA
962510 TTCTTCTCAT
Statistics
Matches: 424, Mismatches: 34, Indels: 41
0.85 0.07 0.08
Matches are distributed among these distances:
88 81 0.19
89 1 0.00
92 72 0.17
93 2 0.00
94 1 0.00
95 1 0.00
96 3 0.01
98 38 0.09
99 1 0.00
100 2 0.00
101 14 0.03
102 208 0.49
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (90 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACC
Found at i:962291 original size:102 final size:100
Alignment explanation
Indices: 962029--962558 Score: 616
Period size: 102 Copynumber: 5.3 Consensus size: 100
962019 TGGCACAAGC
* * * * * *
962029 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTT-T-ATCTTTAAGACCAATGTCACTGGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCATCTTTAAGTCCAATATCGCTGGC
962092 CTTGAATCAGCACATTGGCA-C--CA---TTAAGT
66 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
962121 CCAATGTCGCTGGCTTTGAATCAGCACATTGGCACC-T-TCATCTTTAAGTCCAATATCGCTAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCATCTTTAAGTCCAATATCGCTGGC
* *
962184 CTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGT
66 CTTGAATCAGCACATTGGCACC--T-TCATC-TTTAAGT
962223 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T-TCATCTTTAAGTCCAATATCGCTGGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCATCTTTAAGTCCAATATCGCTGGC
*
962286 TTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
66 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * *
962321 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATGTCGCTG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGTCATC-TTTAAGTCCAATATCGCTG
962386 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
64 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * ** * * *
962423 CCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTCGTCATCTTTAAAACCCAATGTTGTTG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-GTCATCTTT-AAGTCCAATATCGCTG
* *
962488 GCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGT
64 GCCTTGAATCAGCACATTGGCA--CCT-TCATCTTTAAGT
* * *
962528 CTAATGTCGCTGACCGTGAATCAGCACATTG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTG
962559 ACATTTTTTT
Statistics
Matches: 385, Mismatches: 33, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
91 2 0.01
92 70 0.18
93 1 0.00
98 42 0.11
99 5 0.01
100 2 0.01
101 10 0.03
102 215 0.56
104 2 0.01
105 36 0.09
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (100 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCATCTTTAAGTCCAATATCGCTGGC
CTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:962339 original size:151 final size:150
Alignment explanation
Indices: 962029--962558 Score: 720
Period size: 151 Copynumber: 3.6 Consensus size: 150
962019 TGGCACAAGC
* * * *
962029 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACC-TT-T-ATCTTTAAGACCAATGTCACTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGG
*
962091 CCTTGAATCAGCACATTGGCA-C--CA---TTAAGTCCAATGTCGCTGGCTTTGAATCAGCACAT
66 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCTTTGAATCAGCACAT
962150 TGGCACCTTCATCTTTAAGT
131 TGGCACCTTCATCTTTAAGT
*
962170 CCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATGTCGCTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC-TTTAAGTCCAATGTCGCTG
962235 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCTTTGAATCAGCACA
65 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCTTTGAATCAGCACA
962300 TTGGCACCTTCATCTTTAAGT
130 TTGGCACCTTCATCTTTAAGT
962321 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATGTCGCTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC-TTTAAGTCCAATGTCGCTG
* * *
962386 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATA
65 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCTTTGAATCAGCACA
* **
962451 TTGGCGCCTTCGTCATCTTTAAAAC
130 TTGGCACC-T--TCATCTTT-AAGT
* * * * ** * * *
962476 CCAATGTTGTTGGCCTTGAATCAGCACATTGGC-ATTCTTCTCATCTTCAAGTCTAATGTCGCTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCT-TTGTCATCTTTAAGTCCAATGTCGCTG
* *
962540 ACCGTGAATCAGCACATTG
65 GCCTTGAATCAGCACATTG
962559 ACATTTTTTT
Statistics
Matches: 350, Mismatches: 24, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
141 33 0.09
142 2 0.01
143 1 0.00
144 3 0.01
145 39 0.11
146 1 0.00
148 2 0.01
151 187 0.53
152 1 0.00
154 43 0.12
155 38 0.11
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (150 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGG
CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCTTTGAATCAGCACAT
TGGCACCTTCATCTTTAAGT
Found at i:963225 original size:13 final size:13
Alignment explanation
Indices: 963207--963232 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
963197 TTCAACGATT
963207 TGTATCGATACAA
1 TGTATCGATACAA
963220 TGTATCGATACAA
1 TGTATCGATACAA
963233 AGTGGTGTAG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:963260 original size:19 final size:18
Alignment explanation
Indices: 963220--963269 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
963210 ATCGATACAA
963220 TGTATCGATACAAAGTGG
1 TGTATCGATACAAAGTGG
* **
963238 TGTAGCGATACATAAGTTT
1 TGTATCGATACA-AAGTGG
963257 TGTATCGATACAA
1 TGTATCGATACAA
963270 TGTATCGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (18 bp):
TGTATCGATACAAAGTGG
Found at i:978857 original size:5 final size:5
Alignment explanation
Indices: 978847--978899 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
978837 CGTCCTTCGT
* *
978847 AAAA- AAAA- AAAAA AAAAC AAAAC AAAAC AAAAC AAAAC AAAAA AACAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AA-AAC
978896 AAAA
1 AAAA
978900 AGGGTCCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
4 8 0.18
5 32 0.73
6 4 0.09
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:978862 original size:10 final size:10
Alignment explanation
Indices: 978847--978900 Score: 74
Period size: 10 Copynumber: 5.4 Consensus size: 10
978837 CGTCCTTCGT
978847 AAAAAAAA-A
1 AAAAAAAACA
978856 AAAAAAAACA
1 AAAAAAAACA
*
978866 AAACAAAACA
1 AAAAAAAACA
*
978876 AAACAAAACA
1 AAAAAAAACA
978886 AAAAAACAACA
1 AAAAAA-AACA
978897 AAAA
1 AAAA
978901 GGGTCCGGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
9 8 0.20
10 25 0.61
11 8 0.20
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:980430 original size:31 final size:30
Alignment explanation
Indices: 980333--980487 Score: 169
Period size: 28 Copynumber: 5.3 Consensus size: 30
980323 AACTGTTCCT
980333 CACCC-TTTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTTCAAAAGCCCACAAGTCAGTGG
*
980362 CAACC--TTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTTCAAAAGCCCACAAGTCAGTGG
* *
980390 CACCCTTTTCCAAAGCCCACAAGTTAGTGG
1 CACCCTTTTCAAAAGCCCACAAGTCAGTGG
* *
980420 CATCCCTTTTCCAAAGCCCACAAGCCAGTGG
1 CA-CCCTTTTCAAAAGCCCACAAGTCAGTGG
* * *
980451 CAACC--TTCAAAAGTCCACAACTCCA-TGG
1 CACCCTTTTCAAAAGCCCACAAGT-CAGTGG
*
980479 CACCTTTTT
1 CACCCTTTT
980488 TTTCTTTTTA
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
28 46 0.43
29 6 0.06
30 27 0.25
31 28 0.26
ACGTcount: A:0.30, C:0.35, G:0.15, T:0.21
Consensus pattern (30 bp):
CACCCTTTTCAAAAGCCCACAAGTCAGTGG
Found at i:980541 original size:34 final size:34
Alignment explanation
Indices: 980486--980592 Score: 144
Period size: 34 Copynumber: 3.1 Consensus size: 34
980476 TGGCACCTTT
*
980486 TTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTC
1 TTTTTCCTTTT-AAGCCCACAACTCTGTGGCACTC
*
980521 TTTTTCCTTTTAAGCCCACAACT-TCGTGGCACTA
1 TTTTTCCTTTTAAGCCCACAACTCT-GTGGCACTC
* * *
980555 TTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTTCCTTTTAAGCCCACAACTCTGTGGCACTC
980589 TTTT
1 TTTT
980593 AAGCCCACAA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
33 1 0.02
34 53 0.83
35 10 0.16
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.40
Consensus pattern (34 bp):
TTTTTCCTTTTAAGCCCACAACTCTGTGGCACTC
Found at i:980612 original size:27 final size:28
Alignment explanation
Indices: 980560--980633 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 28
980550 CACTATTTTT
* * *
980560 CCTTTTAAGTCCACAACTCCGTGGCAC-
1 CCTTTTAAGCCCACAAGTCCGCGGCACA
980587 CCTTTTAAGCCCACAAGT-CGACGGCACA
1 CCTTTTAAGCCCACAAGTCCG-CGGCACA
* *
980615 CCTTTCAAAGCCTACAAGT
1 CCTTT-TAAGCCCACAAGT
980634 TAGTGGCAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 21 0.54
28 5 0.13
29 11 0.28
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (28 bp):
CCTTTTAAGCCCACAAGTCCGCGGCACA
Found at i:980964 original size:87 final size:87
Alignment explanation
Indices: 980709--981015 Score: 339
Period size: 87 Copynumber: 3.4 Consensus size: 87
980699 CGTCTTCTTC
* * * * * *
980709 TAAGTCTAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGA-CTAATGTCGC
* *
980774 TGGCCTTGAATCAGCATATTGACA
64 TGGCCTTGAATCAGCACATTGGCA
* ** *
980798 CCTTTAAGTCCGATATCAATGGCCTTGAATCAGCATATTGGCACC-GGCATCTTTAAGACTAATG
1 ----TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG--TCTTTAAGACTAATG
* *
980862 TTGCTGGCCTGGAATCAGCACATTGGCA
60 TCGCTGGCCTTGAATCAGCACATTGGCA
* * *
980890 TAAGCCCAATATCGCTGGCTTTGAATCAGCGTATTGGCACCTTGTCTTTAAGTA-TAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAG-ACTAATGTCGCT
980954 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * *
980977 CAAGTCCAATATCGTTGGCCGTGAATCAGCATATTGGCA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
981016 TCTTTATCAC
Statistics
Matches: 181, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
87 72 0.40
88 36 0.20
89 1 0.01
92 28 0.15
93 44 0.24
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (87 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:987442 original size:128 final size:130
Alignment explanation
Indices: 987201--987634 Score: 316
Period size: 129 Copynumber: 3.4 Consensus size: 130
987191 CTTAGTTATC
* * * * **
987201 TTTAGTTAACTATATTGGTTTCACCCCAGTCAACCCTTTTTGACTTAGGTTTTACCTTAGTCACC
1 TTTAATTAACTATACTAGTTTCACCCCAGTCAACCCTTTTCGACTTAGGTTCCACCTTAGTCACC
* * *
987266 TTTTGTTAACTATACTAGTTTTACCTTAGTGAACTCTTTTTGACTTAGGTTACATCCTAGTCCCT
66 TTTTGTTAACAATACTAGTTTCACCTTAGTCAACTCTTTTTGACTTAGGTTACATCCTAGTCCCT
*** * * *
987331 TTTAATTAACTATACTAGTTTCACCTTGGTCAACCC-TTTCGACTTAGGTTCCATCTTGGTCATC
1 TTTAATTAACTATACTAGTTTCACCCCAGTCAACCCTTTTCGACTTAGGTTCCACCTTAGTCACC
* * * * * **
987395 -TTTGTTGACAATACTGGTTTCACCTTAGTCAAC-CTTTTTTTACTTAGGTTTCATTCGTAGTTA
66 TTTTGTTAACAATACTAGTTTCACCTTAGTCAACTC-TTTTTGACTTAGGTTACA-TCCTAGTCC
987458 CT
129 CT
* * * * ** * * * ** * *
987460 TTTAGTTGACTATGCTGGTTTTGCCCTAGTTAACCATTTTTTACTTAGGTTTTGC-CCTCA-TCA
1 TTTAATTAACTATACTAGTTTCACCCCAGTCAACCCTTTTCGACTTAGG--TTCCACCTTAGTCA
* * ** * * * * * *
987523 CCTTTTGTTGACTATACTAGTTTTGCCCTAGTCAACCCTTTTCGACTTAGGTTTCATCCTACTCA
64 CCTTTTGTTAACAATACTAGTTTCACCTTAGTCAACTCTTTTTGACTTAGGTTACATCCTAGTCC
987588 CT
129 CT
* *
987590 TTT--TGT---T-TACTAGTTTTACCCTAGTCAACCC-TTTCGACTTAGGTT
1 TTTAAT-TAACTATACTAGTTTCACCCCAGTCAACCCTTTTCGACTTAGGTT
987635 TCGCCTTGGT
Statistics
Matches: 240, Mismatches: 56, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
122 2 0.01
124 10 0.04
125 19 0.08
126 1 0.00
127 1 0.00
128 45 0.19
129 57 0.24
130 55 0.23
131 46 0.19
132 4 0.02
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (130 bp):
TTTAATTAACTATACTAGTTTCACCCCAGTCAACCCTTTTCGACTTAGGTTCCACCTTAGTCACC
TTTTGTTAACAATACTAGTTTCACCTTAGTCAACTCTTTTTGACTTAGGTTACATCCTAGTCCCT
Found at i:987540 original size:259 final size:253
Alignment explanation
Indices: 987164--987693 Score: 616
Period size: 259 Copynumber: 2.1 Consensus size: 253
987154 TTTTGTCTTG
* * * *
987164 GTCAACCTTTCTTGACTTAAGTTTTATCTTAGTTATCTTTAGTTAACTATATTGGTTTCACCCCA
1 GTCAACCTTTTTTGACTTAAGTTTCATCGTAGTTATCTTTAGTTAACTATACTGGTTTCACCCCA
* * *
987229 GTCAACCCTTTTTGACTTAGGTTTTACCTTAGTCACCTTTTGTTAACTATACTAGTTTTACCTTA
66 GTCAACCATTTTTGACTTAGGTTTTACCTCAGTCACCTTTTGTTAACTATACTAGTTTTACCCTA
* * * * * *
987294 GTGAACTCTTTTTGACTTAGGTTACATCCTAGTCCCTTTTAAT-TAACTATACTAGTTTCACCTT
131 GTCAACCCTTTTCGACTTAGGTTACATCCTACTCACTTTT--TGT---T-TACTAGTTTCACCCT
* * ** *
987358 GGTCAACCCTTTCGACTTAGGTTCCATCTTGGTCATCTTTGTTGACAATACTGGTTTCACCTTA
190 AGTCAACCCTTTCGACTTAGGTTCCACCTTGGTCATCTGAGTTGACAATAATGGTTTCACCTTA
* * * * **
987422 GTCAACCTTTTTTTACTTAGGTTTCATTCGTAGTTA-CTTTTAGTTGACTATGCTGGTTTTGCCC
1 GTCAACCTTTTTTGACTTAAGTTTCA-TCGTAGTTATC-TTTAGTTAACTATACTGGTTTCACCC
* * * * * *
987486 TAGTTAACCATTTTTTACTTAGGTTTTGCCCTCA-TCACCTTTTGTTGACTATACTAGTTTTGCC
64 CAGTCAACCATTTTTGACTTAGGTTTT-ACCTCAGTCACCTTTTGTTAACTATACTAGTTTTACC
* *
987550 CTAGTCAACCCTTTTCGACTTAGGTTTCATCCTACTCACTTTTTGTTTACTAGTTTTACCCTAGT
128 CTAGTCAACCCTTTTCGACTTAGGTTACATCCTACTCACTTTTTGTTTACTAGTTTCACCCTAGT
* * * *
987615 CAACCCTTTCGACTTAGGTTTCGCCTTGGTCATCTGAGTTGACTATAATGGTTTCACCTTG
193 CAACCCTTTCGACTTAGGTTCCACCTTGGTCATCTGAGTTGACAATAATGGTTTCACCTTA
* *
987676 GTTAACCTTTTTCGACTT
1 GTCAACCTTTTTTGACTT
987694 TGGTTTTACC
Statistics
Matches: 229, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
254 83 0.36
255 1 0.00
257 1 0.00
258 24 0.10
259 116 0.51
260 4 0.02
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (253 bp):
GTCAACCTTTTTTGACTTAAGTTTCATCGTAGTTATCTTTAGTTAACTATACTGGTTTCACCCCA
GTCAACCATTTTTGACTTAGGTTTTACCTCAGTCACCTTTTGTTAACTATACTAGTTTTACCCTA
GTCAACCCTTTTCGACTTAGGTTACATCCTACTCACTTTTTGTTTACTAGTTTCACCCTAGTCAA
CCCTTTCGACTTAGGTTCCACCTTGGTCATCTGAGTTGACAATAATGGTTTCACCTTA
Found at i:987804 original size:65 final size:65
Alignment explanation
Indices: 986982--987796 Score: 477
Period size: 65 Copynumber: 12.7 Consensus size: 65
986972 TTAACCTTTT
* * * * *
986982 TTTTTTACTTAGGTTTCATTCTAGTCACCTTTAGTTGACTATACTAGTTTCACCCT-GATCAA-C
1 TTTTTGACTTAGGTTTCATCCTAGTCACCTTTAGTTAACTATACTGGTTTCACCTTAG-TCAACC
987045 C
65 C
** * * * * ** * * * *
987046 TTTTCAACTT---TTTCATCTTGGTCATC-TTAGTTAACTATAATGGTTTTGCCATGGTTAACTC
1 TTTTTGACTTAGGTTTCATCCTAGTCACCTTTAGTTAACTATACTGGTTTCACCTTAGTCAACCC
** * * * * * *** *
987107 TTTTCAACTTAAGTTTCATCCTACTCTCTTTTAATTAACTATACTGGTTTTGTCTTGGTCAA-CC
1 TTTTTGACTTAGGTTTCATCCTAGTCACCTTTAGTTAACTATACTGGTTTCACCTTAGTCAACCC
* * * * * * **
987171 TTTCTTGACTTAAGTTTTATCTTAGTTATCTTTAGTTAACTATATTGGTTTCACCCCAGTCAACC
1 TTT-TTGACTTAGGTTTCATCCTAGTCACCTTTAGTTAACTATACTGGTTTCACCTTAGTCAACC
987236 C
65 C
* * * * * *
987237 TTTTTGACTTAGGTTTTA-CCTTAGTCACCTTTTGTTAACTATACTAGTTTTACCTTAGTGAACT
1 TTTTTGACTTAGGTTTCATCC-TAGTCACCTTTAGTTAACTATACTGGTTTCACCTTAGTCAACC
987301 C
65 C
* * * *
987302 TTTTTGACTTAGGTTACATCCTAGTC-CCTTTTAATTAACTATACTAGTTTCACCTTGGTCAACC
1 TTTTTGACTTAGGTTTCATCCTAGTCACC-TTTAGTTAACTATACTGGTTTCACCTTAGTCAACC
987366 C
65 C
* * * * * * * *
987367 -TTTCGACTTAGGTTCCATCTTGGTCATCTTT-GTTGACAATACTGGTTTCACCTTAGTCAACCT
1 TTTTTGACTTAGGTTTCATCCTAGTCACCTTTAGTTAACTATACTGGTTTCACCTTAGTCAACCC
* * * * * * ** * *
987430 TTTTTTACTTAGGTTTCATTCGTAGTTACTTTTAGTTGACTATGCTGGTTTTGCCCTAGTTAACC
1 TTTTTGACTTAGGTTTCA-TCCTAGTCACCTTTAGTTAACTATACTGGTTTCACCTTAGTCAACC
*
987495 A
65 C
* *** * * * ** *
987496 TTTTTTACTTAGGTTTTGCCCTCA-TCACCTTTTGTTGACTATACTAGTTTTGCCCTAGTCAACC
1 TTTTTGACTTAGGTTTCATCCT-AGTCACCTTTAGTTAACTATACTGGTTTCACCTTAGTCAACC
987560 C
65 C
* * * * * * *
987561 TTTTCGACTTAGGTTTCATCCTACTCA-CTTT--TT--GTTTACTAGTTTTACCCTAGTCAACCC
1 TTTTTGACTTAGGTTTCATCCTAGTCACCTTTAGTTAACTATACTGGTTTCACCTTAGTCAACCC
* * * * * * * * *
987621 -TTTCGACTTAGGTTTC-GCCTTGGTCATC-TGAGTTGACTATAATGGTTTCACCTTGGTTAA-C
1 TTTTTGACTTAGGTTTCATCC-TAGTCACCTTTAGTTAACTATACTGGTTTCACCTTAGTCAACC
987682 C
65 C
* * * * * * ** *
987683 TTTTTCGACTTTGGTTTTACCCTAGTCACCTTTTGATGACTATA-TAGGTTTGGCCTTGGTCAAC
1 TTTTT-GACTTAGGTTTCATCCTAGTCACCTTTAGTTAACTATACT-GGTTTCACCTTAGTCAAC
987747 CC
64 CC
* *
987749 TTTTTGACTTTGGTTTCATCCTAGTCGCCTTTAGTTAACTATACTGGT
1 TTTTTGACTTAGGTTTCATCCTAGTCACCTTTAGTTAACTATACTGGT
987797 GTCGCCTTTA
Statistics
Matches: 583, Mismatches: 138, Indels: 59
0.75 0.18 0.08
Matches are distributed among these distances:
58 2 0.00
59 21 0.04
60 48 0.08
61 26 0.04
62 4 0.01
63 45 0.08
64 85 0.15
65 295 0.51
66 57 0.10
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (65 bp):
TTTTTGACTTAGGTTTCATCCTAGTCACCTTTAGTTAACTATACTGGTTTCACCTTAGTCAACCC
Found at i:987806 original size:25 final size:25
Alignment explanation
Indices: 987772--987829 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
987762 TTTCATCCTA
987772 GTCGCCTTTAGTTAACTATACTGGT
1 GTCGCCTTTAGTTAACTATACTGGT
987797 GTCGCCTTTAGTTAACTATACTGGT
1 GTCGCCTTTAGTTAACTATACTGGT
*
987822 TTCGCCTT
1 GTCGCCTT
987830 GATCAACACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.41
Consensus pattern (25 bp):
GTCGCCTTTAGTTAACTATACTGGT
Found at i:987829 original size:90 final size:91
Alignment explanation
Indices: 987721--987887 Score: 230
Period size: 91 Copynumber: 1.8 Consensus size: 91
987711 CCTTTTGATG
* * * * * *
987721 ACTATATAGGTTTGGCCTTGGTCAAC-CCTTTTTGACTTTGGTTTCATCCTAGTCGCCTTTAGTT
1 ACTATATAGGTTTCGCCTTGATCAACACATTTTTCACTTAGGTTTCATCCTAGTCACCTTTAGTT
987785 AACTATACTGGTGTCGCCTTTAGTTA
66 AACTATACTGGTGTCGCCTTTAGTTA
**
987811 ACTATACT-GGTTTCGCCTTGATCAACACATTTTTCACTTAGGTTTTGTCCTAGTCACCTTTAGT
1 ACTATA-TAGGTTTCGCCTTGATCAACACATTTTTCACTTAGGTTTCATCCTAGTCACCTTTAGT
*
987875 TGACTATACTGGT
65 TAACTATACTGGT
987888 TTCACCTCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
90 22 0.33
91 44 0.67
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (91 bp):
ACTATATAGGTTTCGCCTTGATCAACACATTTTTCACTTAGGTTTCATCCTAGTCACCTTTAGTT
AACTATACTGGTGTCGCCTTTAGTTA
Found at i:987976 original size:102 final size:102
Alignment explanation
Indices: 987841--988034 Score: 259
Period size: 102 Copynumber: 1.9 Consensus size: 102
987831 ATCAACACAT
* * *
987841 TTTTCACTTAGGTTTTGTCCTAGTCACCTTTAGTTGACTATACT-GGTTT-CACCTCAATCAACC
1 TTTTCACTTAGGTGTCGTCCTAGTCACCTTTAGTTGACCATACTAGGTTTGC-CCT-AATCAACC
987904 -TTTTTCGACTTAAGTTTCGCCCTAATCCTAGTCAACCC
64 TTTTTTCGACTTAAGTTTCGCCCTAATCCTAGTCAACCC
* * *
987942 TTTTCGACTTAGGTGTCGTCCTAGTCATCTTTAGTTGACCATACTAGTTTTGCCCTAGTCAACCT
1 TTTTC-ACTTAGGTGTCGTCCTAGTCACCTTTAGTTGACCATACTAGGTTTGCCCTAATCAACCT
* * *
988007 TTTTTTGACTTAGGTTTTGCCCTAATCC
65 TTTTTCGACTTAAGTTTCGCCCTAATCC
988035 CTATTTTAAC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
101 5 0.06
102 42 0.52
103 32 0.40
104 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (102 bp):
TTTTCACTTAGGTGTCGTCCTAGTCACCTTTAGTTGACCATACTAGGTTTGCCCTAATCAACCTT
TTTTCGACTTAAGTTTCGCCCTAATCCTAGTCAACCC
Found at i:991886 original size:2 final size:2
Alignment explanation
Indices: 991879--991930 Score: 63
Period size: 2 Copynumber: 26.0 Consensus size: 2
991869 ATATGGCCCC
991879 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA GTCA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -T-A TA TA TA
*
991922 -A TA AA TA TA
1 TA TA TA TA TA
991931 CGAATAAGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
1 2 0.05
2 39 0.89
3 2 0.05
4 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:994228 original size:15 final size:15
Alignment explanation
Indices: 994182--994229 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
994172 TTCAATATTT
994182 TAATTTTT-ATT-AA
1 TAATTTTTAATTCAA
* *
994195 TAATTTATTAGTACAA
1 TAATTT-TTAATTCAA
994211 TAATTTTTAATTCAA
1 TAATTTTTAATTCAA
994226 TAAT
1 TAAT
994230 ATATAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 6 0.21
14 2 0.07
15 12 0.43
16 8 0.29
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (15 bp):
TAATTTTTAATTCAA
Found at i:995479 original size:17 final size:19
Alignment explanation
Indices: 995430--995484 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 19
995420 AATATAATTA
*
995430 ATTTTTTAATAAAATTATT
1 ATTTTTTATTAAAATTATT
995449 ATTTTATATATTAAAATT-TT
1 ATTTT-T-TATTAAAATTATT
995469 A-TTTTTATTAAAATTA
1 ATTTTTTATTAAAATTA
995485 AAAGATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 10 0.31
18 1 0.03
19 8 0.25
20 4 0.12
21 9 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTTTATTAAAATTATT
Found at i:995655 original size:16 final size:16
Alignment explanation
Indices: 995620--995676 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
995610 TATTTTTTTT
* *
995620 ATTTAAATCATTTCAT
1 ATTTAAATCATTTTAA
*
995636 ATTTGAATCATTTTAA
1 ATTTAAATCATTTTAA
* *
995652 ATTTAAATTATTTTGA
1 ATTTAAATCATTTTAA
*
995668 GTTTAAATC
1 ATTTAAATC
995677 TTTAATTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (16 bp):
ATTTAAATCATTTTAA
Found at i:995688 original size:23 final size:22
Alignment explanation
Indices: 995647--995689 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
995637 TTTGAATCAT
995647 TTTAAATTTAAATTATTTTGAG
1 TTTAAATTTAAATTATTTTGAG
* *
995669 TTTAAATCTTTAATTTTTTTG
1 TTTAAAT-TTAAATTATTTTG
995690 TCTAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
TTTAAATTTAAATTATTTTGAG
Found at i:995997 original size:27 final size:26
Alignment explanation
Indices: 995967--996027 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
995957 ACTAGTAAAT
995967 ATTATTAAATAATTGC-ATATATTATTA
1 ATTATTAAAT-ATT-CAATATATTATTA
995994 ATTATTAAATATTCTAATATATTATTA
1 ATTATTAAATATTC-AATATATTATTA
*
996021 AATATTA
1 ATTATTA
996028 TAAAAATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 1 0.03
26 3 0.10
27 27 0.87
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTATTAAATATTCAATATATTATTA
Found at i:996000 original size:30 final size:31
Alignment explanation
Indices: 995933--996000 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
995923 TTTATTAAAT
*
995933 ATTATTATTAAAAAAATTTAATATACTAGTA
1 ATTATTATTAAAAAAATTGAATATACTAGTA
* * * * *
995964 AATATTATT-AAATAATTGCATATATTATTA
1 ATTATTATTAAAAAAATTGAATATACTAGTA
995994 ATTATTA
1 ATTATTA
996001 AATATTCTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (31 bp):
ATTATTATTAAAAAAATTGAATATACTAGTA
Found at i:996028 original size:30 final size:29
Alignment explanation
Indices: 995948--996401 Score: 150
Period size: 30 Copynumber: 14.8 Consensus size: 29
995938 TATTAAAAAA
* *
995948 ATTTAATATACTAGTAAATATTATTAAAT
1 ATTTAATATATTATTAAATATTATTAAAT
**
995977 AATTGCATATATTATT--A-ATTATTAAAT
1 -ATTTAATATATTATTAAATATTATTAAAT
*
996004 ATTCTAATATATTATTAAATATTATAAAAAT
1 ATT-TAATATATTATTAAATATTAT-TAAAT
* * * *
996035 ATTTTATTGTATTATTAAATGTTATAAGAAT
1 A-TTTAATATATTATTAAATATTATTA-AAT
* * *
996066 ATCATTAA-ATATT-GTACATATAATAATAAAAAT
1 AT--TTAATATATTATTA-A-AT-ATTAT-TAAAT
* *
996099 ATTTGAATA-ATTATAAAATATATTATTAAGAC
1 ATTT-AATATATTAT-TAA-ATATTATTAA-AT
* *
996131 ATTTTATATATTAGTAAATA--ATTAAAAT
1 ATTTAATATATTATTAAATATTATT-AAAT
996159 ATTTTTAATATATTATTAAATATTATTATTAAAAT
1 A--TTTAATATATTATT-AA-A-TATTATT-AAAT
* *
996194 ATTCTAATATATTGTTAATATATTATTACAT
1 ATT-TAATATATTATTAA-ATATTATTAAAT
* * *
996225 ATTTGATAT-TT-TTCAGATTAATTTTTAAAT
1 ATTTAATATATTATT-A-AAT-ATTATTAAAT
* * *
996255 ATTTTATATTTTATTAAATATTATT-AGT
1 ATTTAATATATTATTAAATATTATTAAAT
* * *
996283 CGA-CTAA-ATATTAATAAAATTTTATT-AA-
1 --ATTTAATATATT-ATTAAATATTATTAAAT
*
996311 ATTT-ATATACTATTAAATATGTTATTTATAAT
1 ATTTAATATATTATTAAATA--TTA-TTA-AAT
*
996343 AAAATTTAAATATATTATTAAGTATATTATTAATT
1 ---ATTT-AATATATTATTAA--ATATTATTAAAT
996378 ATTATTAATATATTATT-AATATTA
1 A-T-TTAATATATTATTAAATATTA
996402 AAAGTTTTAA
Statistics
Matches: 323, Mismatches: 48, Indels: 106
0.68 0.10 0.22
Matches are distributed among these distances:
26 11 0.03
27 25 0.08
28 17 0.05
29 28 0.09
30 67 0.21
31 54 0.17
32 37 0.11
33 33 0.10
34 16 0.05
35 15 0.05
36 3 0.01
37 14 0.04
39 3 0.01
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (29 bp):
ATTTAATATATTATTAAATATTATTAAAT
Found at i:996035 original size:23 final size:20
Alignment explanation
Indices: 995994--996219 Score: 70
Period size: 20 Copynumber: 10.8 Consensus size: 20
995984 TATATTATTA
*
995994 ATTATTAAATATTCTAATAT
1 ATTATTAAATATTATAATAT
*
996014 ATTATTAAATATTATAAAAAT
1 ATTATTAAATATTAT-AATAT
**
996035 ATT-TTATTGTATTATTAA-AT
1 ATTATTA-AATATTA-TAATAT
* * *
996055 GTTATAAGAATATCATTAA-AT
1 ATTATTA-AATATTA-TAATAT
* * * *
996076 ATT-GTACATATAATAATAAA
1 ATTATTAAATATTATAAT-AT
* *
996096 AATATTTGAATAATTATAAAATAT
1 ATTA-TTAAAT-ATTAT--AATAT
* *
996120 ATTATTAAGACATT-TTATAT
1 ATTATTAA-ATATTATAATAT
*
996140 ATTAGTAAATAATTA-AA-AT
1 ATTATTAAAT-ATTATAATAT
*
996159 ATTTTTAATATATTATTAAATATT
1 ATTATTAA-ATATTA-T-AATA-T
*
996183 ATTATTAAAATATTCTAATAT
1 ATTATT-AAATATTATAATAT
*
996204 ATTGTTAATATATTAT
1 ATTATTAA-ATATTAT
996220 TACATATTTG
Statistics
Matches: 149, Mismatches: 35, Indels: 43
0.66 0.15 0.19
Matches are distributed among these distances:
18 3 0.02
19 18 0.12
20 44 0.30
21 40 0.27
22 11 0.07
23 12 0.08
24 16 0.11
25 5 0.03
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (20 bp):
ATTATTAAATATTATAATAT
Found at i:996166 original size:11 final size:11
Alignment explanation
Indices: 996151--996221 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
996141 TTAGTAAATA
996151 ATTAAAATATT
1 ATTAAAATATT
* *
996162 TTTAATATATT
1 ATTAAAATATT
996173 ATTAAATATTATT
1 ATTAAA-A-TATT
996186 ATTAAAATATT
1 ATTAAAATATT
* *
996197 -CTAATATATT
1 ATTAAAATATT
* *
996207 GTTAATATATT
1 ATTAAAATATT
996218 ATTA
1 ATTA
996222 CATATTTGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
10 8 0.16
11 29 0.59
12 2 0.04
13 10 0.20
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (11 bp):
ATTAAAATATT
Found at i:996179 original size:21 final size:21
Alignment explanation
Indices: 996155--996228 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
996145 TAAATAATTA
996155 AAATATTTTTAATATATTATT
1 AAATATTTTTAATATATTATT
* *
996176 AAATATTATTATTAAAATATT-CT
1 AAATA-T-TT-TTAATATATTATT
*
996199 AATATATTGTTAATATATTATT
1 AA-ATATTTTTAATATATTATT
*
996221 ACATATTT
1 AAATATTT
996229 GATATTTTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
21 19 0.46
22 4 0.10
23 6 0.15
24 12 0.29
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (21 bp):
AAATATTTTTAATATATTATT
Found at i:996187 original size:13 final size:14
Alignment explanation
Indices: 996165--996196 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
996155 AAATATTTTT
996165 AATA-TATTATT-A
1 AATATTATTATTAA
996177 AATATTATTATTAA
1 AATATTATTATTAA
996191 AATATT
1 AATATT
996197 CTAATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.22
13 7 0.39
14 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:996336 original size:12 final size:12
Alignment explanation
Indices: 996315--996396 Score: 73
Period size: 12 Copynumber: 7.0 Consensus size: 12
996305 TATTAAATTT
*
996315 ATATACTATTAA
1 ATATATTATTAA
*
996327 ATATGTTATTTATA
1 ATATATTA-TTA-A
* *
996341 ATAAAAT-TTAA
1 ATATATTATTAA
996352 ATATATTATTAA
1 ATATATTATTAA
*
996364 GTATATTATT-A
1 ATATATTATTAA
996375 AT-TATTATT-A
1 ATATATTATTAA
996385 ATATATTATTAA
1 ATATATTATTAA
996397 TATTAAAAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
10 10 0.18
11 15 0.27
12 23 0.41
13 3 0.05
14 5 0.09
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (12 bp):
ATATATTATTAA
Found at i:996391 original size:21 final size:21
Alignment explanation
Indices: 996354--996401 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
996344 AAATTTAAAT
996354 ATATTATTAAGTATATTATTA
1 ATATTATTAAGTATATTATTA
996375 ATTATTATTAA-TATATTATTA
1 A-TATTATTAAGTATATTATTA
996396 ATATTA
1 ATATTA
996402 AAAGTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.19
21 12 0.46
22 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATTATTAAGTATATTATTA
Found at i:996434 original size:14 final size:14
Alignment explanation
Indices: 996395--996437 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 14
996385 ATATATTATT
996395 AATATTAAAAGTTTTA
1 AATATT-AAA-TTTTA
996411 ATACTATTAAATTTTA
1 A-A-TATTAAATTTTA
996427 AATATTAAATT
1 AATATTAAATT
996438 ATTATTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.36
15 1 0.04
16 7 0.28
17 4 0.16
18 4 0.16
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
AATATTAAATTTTA
Found at i:996513 original size:14 final size:14
Alignment explanation
Indices: 996493--996525 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
996483 ATTTAAATAG
996493 ATTTTAAA-ATATT
1 ATTTTAAACATATT
996506 ACTTTTAAACATATT
1 A-TTTTAAACATATT
996521 ATTTT
1 ATTTT
996526 GACCTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 11 0.61
15 6 0.33
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTAAACATATT
Found at i:996884 original size:20 final size:20
Alignment explanation
Indices: 996859--996902 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
996849 AACAAAATAC
*
996859 AAAACATAA-AAAAAAATCTT
1 AAAACAAAATAAAAAAAT-TT
996879 AAAACAAAATAAAAAAATTT
1 AAAACAAAATAAAAAAATTT
996899 AAAA
1 AAAA
996903 ATCAGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAACAAAATAAAAAAATTT
Found at i:997612 original size:1 final size:1
Alignment explanation
Indices: 997606--997630 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
997596 TACAATGCAG
997606 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
997631 CTTAGACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:998171 original size:17 final size:17
Alignment explanation
Indices: 998141--998178 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
998131 TTTATTTATT
998141 TATTTATTATTTTAAAA
1 TATTTATTATTTTAAAA
*
998158 TATTT-TTATATTTAATA
1 TATTTATTAT-TTTAAAA
998175 TATT
1 TATT
998179 GTTTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTATTATTTTAAAA
Found at i:999939 original size:16 final size:18
Alignment explanation
Indices: 999915--999955 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
999905 ACCCGAATTT
*
999915 AATACTAAAA-ATAA-AA
1 AATAATAAAATATAATAA
999931 AATAATAAAATTATAATAA
1 AATAATAAAA-TATAATAA
999950 AATAAT
1 AATAAT
999956 TTTTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
18 4 0.19
19 8 0.38
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
AATAATAAAATATAATAA
Found at i:1000078 original size:22 final size:22
Alignment explanation
Indices: 1000053--1000106 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1000043 ATATATGATA
*
1000053 AAATAATAAT-TTATCAAAATGT
1 AAATAAT-ATCTTATCAAAAAGT
*
1000075 AAATTATATCTTATCAAAAAGT
1 AAATAATATCTTATCAAAAAGT
*
1000097 AAATTATATC
1 AAATAATATC
1000107 ATGAACTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (22 bp):
AAATAATATCTTATCAAAAAGT
Found at i:1001053 original size:20 final size:19
Alignment explanation
Indices: 1001001--1001055 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
1000991 TATTTTAAAA
*
1001001 ATTTTATATAACAAAT-TA-
1 ATTTTATA-AATAAATATAG
*
1001019 ATTTTATATATAAATATAG
1 ATTTTATAAATAAATATAG
1001038 ATTTTAATAAATAAATAT
1 ATTTT-ATAAATAAATAT
1001056 TTAAAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 5 0.16
18 10 0.32
19 5 0.16
20 11 0.35
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTTATAAATAAATATAG
Found at i:1005545 original size:29 final size:29
Alignment explanation
Indices: 1005507--1005562 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1005497 TATAACGTGT
*
1005507 CATAACAAATAGTTATCTATGGATTGAAC
1 CATAACAAATAATTATCTATGGATTGAAC
* * *
1005536 CATAATAAATAATTATTTATGTATTGA
1 CATAACAAATAATTATCTATGGATTGA
1005563 TTCAGGTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (29 bp):
CATAACAAATAATTATCTATGGATTGAAC
Found at i:1005628 original size:29 final size:29
Alignment explanation
Indices: 1005595--1005653 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
1005585 AATTTTGTCT
1005595 AAGATCTACTTTAATTTAAACCTACTTCG
1 AAGATCTACTTTAATTTAAACCTACTTCG
* * *
1005624 AAGATTTACTTTGATTTAAACCTATTTCG
1 AAGATCTACTTTAATTTAAACCTACTTCG
1005653 A
1 A
1005654 TTTGATCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (29 bp):
AAGATCTACTTTAATTTAAACCTACTTCG
Found at i:1008359 original size:3 final size:3
Alignment explanation
Indices: 1008351--1008397 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
1008341 TAGACATATG
* * * *
1008351 TAA TAA TAA TAA TAG TAA TAA TAA -AA TAA AAA TAA AAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1008398 ATATATTGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:1008496 original size:21 final size:21
Alignment explanation
Indices: 1008464--1008522 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
1008454 TATTATATAT
1008464 TATTTT-ATTTATTTATAAAA
1 TATTTTAATTTATTTATAAAA
* * *
1008484 TATTTTAATTTATTAATTAAT
1 TATTTTAATTTATTTATAAAA
*
1008505 TATTATAAATTTATTTAT
1 TATT-TTAATTTATTTAT
1008523 TTTATTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 6 0.19
21 15 0.47
22 11 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTAATTTATTTATAAAA
Found at i:1008511 original size:31 final size:32
Alignment explanation
Indices: 1008461--1008535 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
1008451 GGTTATTATA
* *
1008461 TATTATTTTATTTATTTATAAA-ATATTTTAATT
1 TATTATATTAATTA-TTATAAATATA-TTTAATT
* *
1008494 TATTA-ATTAATTATTATAAATTTATTTATTT
1 TATTATATTAATTATTATAAATATATTTAATT
1008525 TATTATATTAA
1 TATTATATTAA
1008536 AAACCTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 18 0.50
32 13 0.36
33 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
TATTATATTAATTATTATAAATATATTTAATT
Found at i:1008518 original size:22 final size:20
Alignment explanation
Indices: 1008490--1008531 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
1008480 AAAATATTTT
1008490 AATTTATTAATTAATTATTATA
1 AATTTATTAATT--TTATTATA
*
1008512 AATTTATTTATTTTATTATA
1 AATTTATTAATTTTATTATA
1008532 TTAAAAACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTATTAATTTTATTATA
Found at i:1008595 original size:17 final size:17
Alignment explanation
Indices: 1008575--1008611 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1008565 TAATATTTTT
1008575 AAATAAAAGAAATTAAA
1 AAATAAAAGAAATTAAA
* *
1008592 AAATAAAATATATTAAA
1 AAATAAAAGAAATTAAA
1008609 AAA
1 AAA
1008612 AGTGAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAATAAAAGAAATTAAA
Found at i:1008661 original size:32 final size:33
Alignment explanation
Indices: 1008603--1008668 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
1008593 AATAAAATAT
*
1008603 ATTAAAAAAAGTGAGAATAAAAATATTGAAAAA
1 ATTAAAAAAAGTGAGAATAAAAATATTAAAAAA
* *
1008636 ATTAAAAAATGTTA-AA-AAAATATATTAAAAAA
1 ATTAAAAAAAGTGAGAATAAAA-ATATTAAAAAA
1008668 A
1 A
1008669 AAAAGAGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 4 0.14
32 13 0.45
33 12 0.41
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (33 bp):
ATTAAAAAAAGTGAGAATAAAAATATTAAAAAA
Found at i:1010199 original size:13 final size:13
Alignment explanation
Indices: 1010181--1010205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1010171 TATGCTACTT
1010181 TGTATCGATACAA
1 TGTATCGATACAA
1010194 TGTATCGATACA
1 TGTATCGATACA
1010206 TGGACAAATT
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:1010289 original size:20 final size:18
Alignment explanation
Indices: 1010264--1010312 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
1010254 TATTTGTATT
1010264 GATACATGGTACAATATATC
1 GATACATGG-A-AATATATC
*
1010284 GATACATGAAGAAATGTATC
1 GATACATG--GAAATATATC
1010304 GATACATGG
1 GATACATGG
1010313 CTTGTAACGG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
20 23 0.88
21 1 0.04
22 1 0.04
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (18 bp):
GATACATGGAAATATATC
Found at i:1016528 original size:21 final size:21
Alignment explanation
Indices: 1016495--1016535 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1016485 CTAAGTAAAA
1016495 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1016516 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1016536 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1016600 original size:20 final size:19
Alignment explanation
Indices: 1016575--1016645 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1016565 ACCCTGAAAA
1016575 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1016595 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
1016614 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1016635 GTATCGATACA
1 GTATCGATACA
1016646 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1016698 original size:53 final size:53
Alignment explanation
Indices: 1016615--1016751 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
1016605 AAATTGCATA
1016615 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1016669 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1016722 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1016752 TTGGTAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:1016831 original size:21 final size:22
Alignment explanation
Indices: 1016794--1016849 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
1016784 CATCACTATT
* *
1016794 CATCACTGTTTATGTATCGATA
1 CATCACTATTCATGTATCGATA
1016816 CATCACT-TTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
*
1016837 TATCACTATTCAT
1 CATCACTATTCAT
1016850 CACTGTTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (22 bp):
CATCACTATTCATGTATCGATA
Found at i:1016925 original size:13 final size:13
Alignment explanation
Indices: 1016907--1016945 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1016897 TCACTATTCA
1016907 TGTATCGATACAT
1 TGTATCGATACAT
*
1016920 TGTATCGATACAG
1 TGTATCGATACAT
1016933 TGTATCGATACAT
1 TGTATCGATACAT
1016946 CATAAATAGT
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:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.