Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 145 of 444
Found at i:38877924 original size:43 final size:44
Alignment explanation
Indices: 38877825--38877949 Score: 114
Period size: 44 Copynumber: 2.9 Consensus size: 44
38877815 TAGACGTTGT
* * * * *
38877825 CTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAAGGGG
1 CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAACGAG
* *
38877869 CTTACACGAAATCAAATA-CGATGCCAATGTCCTAGAC-ACGAT
1 CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAACGAG
* *
38877911 CTTACACATAAATCATAAGT-T-GATGCCAACGTCCCAGAC
1 CTTACAC-GAAATCA-AA-TATCGATGCCAATGTCCCAGAC
38877950 GTGGTCTTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 9 0.13
43 23 0.34
44 34 0.51
45 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (44 bp):
CTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAACGAG
Found at i:38879259 original size:24 final size:24
Alignment explanation
Indices: 38879231--38879328 Score: 160
Period size: 24 Copynumber: 4.0 Consensus size: 24
38879221 AAAGCTGTCA
38879231 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
38879255 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
38879279 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
38879303 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
38879328 G
1 G
38879329 AGTGGGAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
24 66 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:38881029 original size:33 final size:34
Alignment explanation
Indices: 38880952--38881032 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
38880942 TATAGGCCGT
* *
38880952 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGCCCCAGTTC
* * **
38880986 AATGTAATCTGAA-AA-GGGCTCTGCCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGCCCCAGT-TC
38881019 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
38881033 GGGCTTAGGC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 12 0.32
33 14 0.38
34 11 0.30
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGCCCCAGTTC
Found at i:38887111 original size:24 final size:24
Alignment explanation
Indices: 38887084--38887181 Score: 160
Period size: 24 Copynumber: 4.0 Consensus size: 24
38887074 AAGGCTGTCA
38887084 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
38887108 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
38887132 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
38887156 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
38887181 G
1 G
38887182 AGTAGGAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
24 66 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:38894678 original size:25 final size:25
Alignment explanation
Indices: 38894650--38894719 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
38894640 CTCTTTTAAT
*
38894650 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
38894675 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
38894700 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
38894720 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:38895735 original size:56 final size:55
Alignment explanation
Indices: 38895627--38895796 Score: 186
Period size: 54 Copynumber: 3.1 Consensus size: 55
38895617 TTGGTAAATC
* * *
38895627 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * *
38895682 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
** ***
38895737 TACAAATTGAGGGTATTT-TGGTAATTTCACAAACCAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCT-GTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
38895791 TACAAA
1 TACAAA
38895797 CTAGGGGTAT
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 45 0.46
55 14 0.14
56 38 0.39
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:38895743 original size:27 final size:27
Alignment explanation
Indices: 38895610--38895858 Score: 159
Period size: 27 Copynumber: 9.2 Consensus size: 27
38895600 CATCCTACAA
* * * *
38895610 GGGTGTTTTGGTAAATCTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
** ** * *
38895637 GGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
* * * *
38895664 TGGTATTTCT-ATAATTTTTAGAAAGTCAA
1 GGGTATTT-TGGTAA-TTTTACAAA-TCAG
**
38895693 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAATCAG
*
38895720 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
* *
38895746 AGGGTATTTTGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAATCAG
*
38895774 TGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
* **
38895801 GGGTATTTTGGTAATTCTATCCTA-CAG
1 GGGTATTTTGGTAATTTTA-CAAATCAG
* * *
38895828 GGGTATTTTAGTAATTTCAC-AATCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
38895854 GGGTA
1 GGGTA
38895859 AAACGGTAAT
Statistics
Matches: 177, Mismatches: 36, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
25 1 0.01
26 11 0.06
27 132 0.75
28 18 0.10
29 15 0.08
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:38896004 original size:27 final size:27
Alignment explanation
Indices: 38895848--38895993 Score: 211
Period size: 27 Copynumber: 5.4 Consensus size: 27
38895838 GTAATTTCAC
* *
38895848 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
38895875 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38895902 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38895929 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38895956 AATCGAAGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38895983 AATCGAGGGTA
1 AATCGAGGGTA
38895994 CTTTGGTAAT
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:38907184 original size:15 final size:15
Alignment explanation
Indices: 38907164--38907232 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
38907154 GTATCTTGGG
38907164 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
38907179 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
38907194 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
38907209 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
38907224 TTTCTTTAT
1 TTTCTTTAT
38907233 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:38907233 original size:30 final size:30
Alignment explanation
Indices: 38907155--38907242 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
38907145 CATAGTATCG
* * * *
38907155 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
38907185 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
38907215 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
38907243 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:38909676 original size:46 final size:48
Alignment explanation
Indices: 38909619--38909752 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 48
38909609 GGGATATTTG
38909619 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
* * * *
38909666 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
38909712 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38909753 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 33 0.45
47 31 0.42
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
Found at i:38912464 original size:15 final size:14
Alignment explanation
Indices: 38912444--38912495 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
38912434 ATGTTTATTA
38912444 TTTTGGATTTAGAGT
1 TTTTGG-TTTAGAGT
*
38912459 TTTTGGTTTAGGGT
1 TTTTGGTTTAGAGT
* * *
38912473 TTATAGTTTATAGT
1 TTTTGGTTTAGAGT
*
38912487 TTGTGGTTT
1 TTTTGGTTT
38912496 TTGTTTTATA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 24 0.80
15 6 0.20
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (14 bp):
TTTTGGTTTAGAGT
Found at i:38912488 original size:21 final size:21
Alignment explanation
Indices: 38912456--38912513 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
38912446 TTGGATTTAG
*
38912456 AGTTTT-TGGTTTAGGGTTTAT
1 AGTTTTATAGTTTAGGGTTT-T
38912477 AG-TTTATAGTTT-GTGGTTTT
1 AGTTTTATAGTTTAG-GGTTTT
*
38912497 TGTTTTATAG-TTAGGGT
1 AGTTTTATAGTTTAGGGT
38912514 CGTAGTACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.57
Consensus pattern (21 bp):
AGTTTTATAGTTTAGGGTTTT
Found at i:38912674 original size:7 final size:7
Alignment explanation
Indices: 38912662--38912727 Score: 55
Period size: 7 Copynumber: 9.6 Consensus size: 7
38912652 AATATATATA
38912662 TTTAGGG
1 TTTAGGG
38912669 TTTAGGG
1 TTTAGGG
*
38912676 TGTA-GG
1 TTTAGGG
**
38912682 TTTATAG
1 TTTAGGG
*
38912689 TTTATGG
1 TTTAGGG
*
38912696 TTTATGG
1 TTTAGGG
38912703 TTT-GAGG
1 TTTAG-GG
*
38912710 TTTAAGG
1 TTTAGGG
38912717 TTTAGGG
1 TTTAGGG
38912724 TTTA
1 TTTA
38912728 CTGTTGGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
6 5 0.10
7 44 0.90
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:38912687 original size:28 final size:28
Alignment explanation
Indices: 38912658--38912727 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
38912648 TTGTAATATA
38912658 TATA-TTTAGGGTTTAGGGTGT-AGGTT
1 TATAGTTTAGGGTTTAGGGTGTGAGGTT
* * *
38912684 TATAGTTTATGGTTTATGGTTTGAGGTT
1 TATAGTTTAGGGTTTAGGGTGTGAGGTT
38912712 TA-AGGTTTAGGGTTTA
1 TATA-GTTTAGGGTTTA
38912728 CTGTTGGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.11
27 15 0.41
28 18 0.49
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (28 bp):
TATAGTTTAGGGTTTAGGGTGTGAGGTT
Found at i:38914892 original size:140 final size:140
Alignment explanation
Indices: 38914640--38914920 Score: 553
Period size: 140 Copynumber: 2.0 Consensus size: 140
38914630 TGCTAGTTGG
38914640 CCACCCAAAGTCCCTCAAAACATCGAACTGTCTACTGTGCATCACCTGAAAATAAAATAAAAGAG
1 CCACCCAAAGTCCCTCAAAACATCGAACTGTCTACTGTGCATCACCTGAAAATAAAATAAAAGAG
38914705 GGGGTGAGTTTTCGCAAACTCAGTGTGTACAACCCTCGACAGAAAACAAGCATTCAAAAATCATC
66 GGGGTGAGTTTTCGCAAACTCAGTGTGTACAACCCTCGACAGAAAACAAGCATTCAAAAATCATC
38914770 ATACATCAAA
131 ATACATCAAA
*
38914780 CCACCCAAAGTCCCTCAAAACATTGAACTGTCTACTGTGCATCACCTGAAAATAAAATAAAAGAG
1 CCACCCAAAGTCCCTCAAAACATCGAACTGTCTACTGTGCATCACCTGAAAATAAAATAAAAGAG
38914845 GGGGTGAGTTTTCGCAAACTCAGTGTGTACAACCCTCGACAGAAAACAAGCATTCAAAAATCATC
66 GGGGTGAGTTTTCGCAAACTCAGTGTGTACAACCCTCGACAGAAAACAAGCATTCAAAAATCATC
38914910 ATACATCAAA
131 ATACATCAAA
38914920 C
1 C
38914921 ATGCAATGCA
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (140 bp):
CCACCCAAAGTCCCTCAAAACATCGAACTGTCTACTGTGCATCACCTGAAAATAAAATAAAAGAG
GGGGTGAGTTTTCGCAAACTCAGTGTGTACAACCCTCGACAGAAAACAAGCATTCAAAAATCATC
ATACATCAAA
Found at i:38915607 original size:29 final size:29
Alignment explanation
Indices: 38915536--38915640 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 29
38915526 CATATAACCC
* *
38915536 ACTAGGCCCAA-TCTTATTCAAATGGCCT
1 ACTAGGCCCAATTCATATTCATATGGCCT
* * * *
38915564 ATCT-GGCCTAGTTCATATTCTTATGGTCT
1 A-CTAGGCCCAATTCATATTCATATGGCCT
** *
38915593 ACTAGGCCCAATTCACCTTCATATGGCCC
1 ACTAGGCCCAATTCATATTCATATGGCCT
* *
38915622 ATTAGGCCCAAATCATATT
1 ACTAGGCCCAATTCATATT
38915641 ATACTCATGC
Statistics
Matches: 57, Mismatches: 17, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
28 8 0.14
29 49 0.86
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (29 bp):
ACTAGGCCCAATTCATATTCATATGGCCT
Found at i:38915746 original size:19 final size:19
Alignment explanation
Indices: 38915713--38915759 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
38915703 TGGGCCCAAC
*
38915713 AGCCCA-TCAGGCCCATTT
1 AGCCCATTCTGGCCCATTT
38915731 AGCCCATTCTGGCCCATTT
1 AGCCCATTCTGGCCCATTT
* *
38915750 GGCCAATTCT
1 AGCCCATTCT
38915760 CAACCCAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.28
Consensus pattern (19 bp):
AGCCCATTCTGGCCCATTT
Found at i:38915891 original size:16 final size:16
Alignment explanation
Indices: 38915856--38915914 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
38915846 GTAGCCCAAC
* **
38915856 TTTCAGCTTTTTGATA
1 TTTCAGCTTTTCGGCA
* *
38915872 TTTCAACTTTTCGGCT
1 TTTCAGCTTTTCGGCA
* *
38915888 TTTCGGCATTTCGGCA
1 TTTCAGCTTTTCGGCA
38915904 TTTCAGCTTTT
1 TTTCAGCTTTT
38915915 GCCGATTCAT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.14, C:0.20, G:0.15, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:38918609 original size:31 final size:31
Alignment explanation
Indices: 38918566--38918629 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
38918556 CCTTTTCATA
38918566 TTTCATAATTCATAACACTAGGCCGAAGCCT
1 TTTCATAATTCATAACACTAGGCCGAAGCCT
* ** *
38918597 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTAGGCCGAAGCCT
38918628 TT
1 TT
38918630 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTAGGCCGAAGCCT
Found at i:38918901 original size:23 final size:23
Alignment explanation
Indices: 38918871--38918938 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
38918861 GCCTTTTTTT
38918871 AATAACTGGGGCATAAGCCCTTG
1 AATAACTGGGGCATAAGCCCTTG
*
38918894 AATAACT-GGGCATAAGCCCTTTT
1 AATAACTGGGGCATAAGCCC-TTG
38918917 AATAACTGGGGCATAAGCCCTT
1 AATAACTGGGGCATAAGCCCTT
38918939 TTGCACTTCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
22 12 0.29
23 18 0.43
24 12 0.29
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (23 bp):
AATAACTGGGGCATAAGCCCTTG
Found at i:38918901 original size:48 final size:46
Alignment explanation
Indices: 38918846--38918938 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
38918836 AGCCTCTTTT
* *
38918846 AATAACTGGGGAAAAGCCTTTTTTTAATAACTGGGGCATAAGCCCTTG
1 AATAACTGGGCAAAAGCC--CTTTTAATAACTGGGGCATAAGCCCTTG
*
38918894 AATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTT
1 AATAACTGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTT
38918939 TTGCACTTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
46 26 0.62
48 16 0.38
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (46 bp):
AATAACTGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTG
Found at i:38918933 original size:24 final size:24
Alignment explanation
Indices: 38918822--38918940 Score: 138
Period size: 25 Copynumber: 5.0 Consensus size: 24
38918812 GCTTTATCAT
*
38918822 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
38918847 ATAACTGGGG-AAAAGCCTTTTTTTA
1 ATAACTGGGGCATAAGCC--CTTTTA
*
38918872 ATAACTGGGGCATAAGCCC-TTGA
1 ATAACTGGGGCATAAGCCCTTTTA
38918895 ATAACT-GGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
38918918 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
38918941 GCACTTCCTC
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.15
23 18 0.22
24 22 0.27
25 24 0.29
26 6 0.07
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:38919018 original size:20 final size:20
Alignment explanation
Indices: 38918995--38919056 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
38918985 AACATCTCGC
38918995 GTGCATATCATACATATCAT
1 GTGCATATCATACATATCAT
* *
38919015 GTGCGTATCATACATGTCAT
1 GTGCATATCATACATATCAT
38919035 GTGCATATCATACATATCAT
1 GTGCATATCATACATATCAT
38919055 GT
1 GT
38919057 TTATCAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (20 bp):
GTGCATATCATACATATCAT
Found at i:38919121 original size:25 final size:25
Alignment explanation
Indices: 38919093--38919142 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
38919083 ATATATAAAC
* * *
38919093 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAACGGTCATTTTCA
38919118 CCTAGGGGCAAAACGGTCATTTTCA
1 CCTAGGGGCAAAACGGTCATTTTCA
38919143 TATTATAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTCA
Found at i:38921411 original size:40 final size:39
Alignment explanation
Indices: 38921354--38921538 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 39
38921344 ATTAAATGAT
* * *
38921354 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
38921394 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
38921434 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
38921474 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
*
38921514 ATCCGGGCTAAGAGCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
38921539 CGTGCATGTG
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 121 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:38921490 original size:80 final size:80
Alignment explanation
Indices: 38921353--38921559 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
38921343 AATTAAATGA
* * ** * *
38921353 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
38921418 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
38921431 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
38921496 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * * *
38921513 TATCCGGGCTAAGAGCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
38921560 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:38921544 original size:40 final size:40
Alignment explanation
Indices: 38921352--38921559 Score: 204
Period size: 40 Copynumber: 5.2 Consensus size: 40
38921342 CAATTAAATG
* * ** * *
38921352 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * * * *
38921392 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TT
* *
38921432 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
38921472 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * * *
38921512 CTATCCGGGCTAAGAGCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
38921552 ATATCCGG
1 ATATCCGG
38921560 TTGTATTCCG
Statistics
Matches: 144, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
39 4 0.03
40 136 0.94
41 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:38927648 original size:40 final size:39
Alignment explanation
Indices: 38927591--38927775 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
38927581 ATTAAATGAT
* * *
38927591 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
38927631 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
38927671 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
38927711 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
38927751 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
38927776 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:38927727 original size:80 final size:80
Alignment explanation
Indices: 38927590--38927796 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
38927580 AATTAAATGA
* * ** * *
38927590 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
38927655 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
38927668 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
38927733 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
38927750 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
38927797 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:38927781 original size:40 final size:39
Alignment explanation
Indices: 38927589--38927796 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
38927579 CAATTAAATG
* * ** *
38927589 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
38927629 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
38927669 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
38927709 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
38927749 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
38927789 ATATCCGG
1 ATATCCGG
38927797 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:38933896 original size:42 final size:42
Alignment explanation
Indices: 38933776--38934050 Score: 160
Period size: 42 Copynumber: 6.5 Consensus size: 42
38933766 AATTGATATG
* * * *
38933776 GTCTTTAGTGGCCTTTTTGGGGAAAGCGTTGCTAAAGGTCAT
1 GTCTTTAGCGGCATTTTTGGGGAAAGCGTCGCTAAAGATCAT
* ** * ** **
38933818 ATCTTTAGCGGCATTTGAGGAGAAAGCACCATTAAAGATCAT
1 GTCTTTAGCGGCATTTTTGGGGAAAGCGTCGCTAAAGATCAT
* * *
38933860 GTCTTTAGCGACATTTTTGGGGAAAACGTCGCTAAAGCTCAT
1 GTCTTTAGCGGCATTTTTGGGGAAAGCGTCGCTAAAGATCAT
** * ** * *
38933902 GTTCTTTAGCGGTGTTTTTGGGGAAAGC-ACTATTAAAGGTCGT
1 G-TCTTTAGCGGCATTTTTGGGGAAAGCGTC-GCTAAAGATCAT
** * *
38933945 GTTCTTTAGCGGCGGTTTTGGGAAAAGCG-CTGCTAAAGGTCAT
1 G-TCTTTAGCGGCATTTTTGGGGAAAGCGTC-GCTAAAGATCAT
* * ** * * * *
38933988 GTTCTGTAGTGGTGTTTCT-GGAAAAGCGCCGCTAAAGGTCAT
1 G-TCTTTAGCGGCATTTTTGGGGAAAGCGTCGCTAAAGATCAT
*
38934030 GTTCTTTAGTGGCATTTTTGG
1 G-TCTTTAGCGGCATTTTTGG
38934051 TAAAAGTGTG
Statistics
Matches: 181, Mismatches: 47, Indels: 9
0.76 0.20 0.04
Matches are distributed among these distances:
42 99 0.55
43 82 0.45
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (42 bp):
GTCTTTAGCGGCATTTTTGGGGAAAGCGTCGCTAAAGATCAT
Found at i:38933920 original size:43 final size:43
Alignment explanation
Indices: 38933777--38934078 Score: 206
Period size: 43 Copynumber: 7.1 Consensus size: 43
38933767 ATTGATATGG
* * * * *
38933777 TCTTTAGTGGCCTTTTTGGGGAAAGCGTTGCTAAAGGTCAT-A
1 TCTTTAGCGGCGTTTTTGGGAAAAGCGTCGCTAAAGGTCATGT
* ** ** *
38933819 TCTTTAGCGGC--ATTTGAGGAGAAAGCACCATTAAAGATCATG-
1 TCTTTAGCGGCGTTTTTG-GGA-AAAGCGTCGCTAAAGGTCATGT
* * *
38933861 TCTTTAGCGACATTTTTGGGGAAAA-CGTCGCTAAAGCTCATGT
1 TCTTTAGCGGCGTTTTT-GGGAAAAGCGTCGCTAAAGGTCATGT
* * * ** *
38933904 TCTTTAGCGGTGTTTTTGGGGAAAGC-ACTATTAAAGGTCGTGT
1 TCTTTAGCGGCGTTTTTGGGAAAAGCGTC-GCTAAAGGTCATGT
*
38933947 TCTTTAGCGGCGGTTTTGGGAAAAGCG-CTGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTTTGGGAAAAGCGTC-GCTAAAGGTCATGT
* * * * *
38933990 TCTGTAGTGGTGTTTCT-GGAAAAGCGCCGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTTTGGGAAAAGCGTCGCTAAAGGTCATGT
* * * * * * *
38934032 TCTTTAGTGGCATTTTTGGTAAAAGTGTGGCTAAGGGTCGTGT
1 TCTTTAGCGGCGTTTTTGGGAAAAGCGTCGCTAAAGGTCATGT
38934075 TCTT
1 TCTT
38934079 ATAAAAGCAT
Statistics
Matches: 202, Mismatches: 46, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
40 4 0.02
41 2 0.01
42 89 0.44
43 100 0.50
44 6 0.03
45 1 0.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTTTGGGAAAAGCGTCGCTAAAGGTCATGT
Found at i:38934049 original size:85 final size:84
Alignment explanation
Indices: 38933777--38934078 Score: 277
Period size: 85 Copynumber: 3.5 Consensus size: 84
38933767 ATTGATATGG
* * * * ** **
38933777 TCTTTAGTGGCCTTTTTGGGGAAAGCGTTGCTAAAGGTCAT-ATCTTTAGCGGCATTTGAGGAGA
1 TCTTTAGCGGCATTTTTGGGAAAAGCG-TGCTAAAGGTCATGTTCTTTAGCGGTGTTTCTGGA-A
*
38933841 AAGCACCATTAAAGATCATG-
64 AAGCACCATTAAAGGTCATGT
* * * *
38933861 TCTTTAGCGACATTTTTGGGGAAAA-CGTCGCTAAAGCTCATGTTCTTTAGCGGTGTTTTTGGGG
1 TCTTTAGCGGCATTTTT-GGGAAAAGCGT-GCTAAAGGTCATGTTCTTTAGCGGTGTTTCT-GGA
* *
38933925 AAAGCACTATTAAAGGTCGTGT
63 AAAGCACCATTAAAGGTCATGT
** * *
38933947 TCTTTAGCGGCGGTTTTGGGAAAAGCGCTGCTAAAGGTCATGTTCTGTAGTGGTGTTTCTGGAAA
1 TCTTTAGCGGCATTTTTGGGAAAAGCG-TGCTAAAGGTCATGTTCTTTAGCGGTGTTTCTGGAAA
* **
38934012 AGCGCCGCTAAAGGTCATGT
65 AGCACCATTAAAGGTCATGT
* * * * *
38934032 TCTTTAGTGGCATTTTTGGTAAAAGTGTGGCTAAGGGTCGTGTTCTT
1 TCTTTAGCGGCATTTTTGGGAAAAGCGT-GCTAAAGGTCATGTTCTT
38934079 ATAAAAGCAT
Statistics
Matches: 175, Mismatches: 35, Indels: 15
0.78 0.16 0.07
Matches are distributed among these distances:
83 1 0.01
84 28 0.16
85 100 0.57
86 45 0.26
87 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (84 bp):
TCTTTAGCGGCATTTTTGGGAAAAGCGTGCTAAAGGTCATGTTCTTTAGCGGTGTTTCTGGAAAA
GCACCATTAAAGGTCATGT
Found at i:38938522 original size:49 final size:47
Alignment explanation
Indices: 38938406--38938532 Score: 141
Period size: 47 Copynumber: 2.7 Consensus size: 47
38938396 TAATGCCGAT
* * * *
38938406 GCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAAGTCAAT
1 GCCATGTCCTAGACATGGTCTTACACTGACTCATCAATCAAGCCAAC
* * *
38938453 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCGAGGCCAGC
1 GCCATGTCCTAGACATGGTCTTACACTGACTCATC--AATC-AAGCCAAC
*
38938502 GCCATGTCCTAGACAAGGTCTTACACT-ACTC
1 GCCATGTCCTAGACATGGTCTTACACTGACTC
38938533 TCACATATCC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 3 0.04
47 29 0.43
48 6 0.09
49 29 0.43
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (47 bp):
GCCATGTCCTAGACATGGTCTTACACTGACTCATCAATCAAGCCAAC
Found at i:38938633 original size:46 final size:45
Alignment explanation
Indices: 38938400--38938759 Score: 232
Period size: 46 Copynumber: 7.6 Consensus size: 45
38938390 AGGGTATAAT
*
38938400 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT-CATCCATCAA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACAT-C-TCAAG
* * * ** *
38938447 GTCAATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTA-C-ATCTCAAG
* * * ** * *
38938496 GCC-AGCGCCATGTCCTAGACAAGGTCTTACACTACTCTCACATATC-CG
1 GCCGA-TG-CATGTCCCAGAC-ATGTCTTACACT-GGCT-ACATCTCAAG
* * *
38938544 TGCCGATGCCATGTCCCAGACATGTTCTTACACTGAC-ATATCTCGTA-
1 -GCCGATG-CATGTCCCAGACATG-TCTTACACTGGCTACATCTC-AAG
*
38938591 GCCGATGCGTGTCCCAGACATGTCTTACACTGGCGTACATCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TACATCTCAAG
* * * *
38938637 GCCGATGCATGTCCCAGACATGTCTTACATTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-ACATCTCAAG
* *
38938683 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-C-TCATAATATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACATC-TCA-A-G
38938731 GCCGATGCATGTCCCAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
38938760 GTAGCACACA
Statistics
Matches: 253, Mismatches: 38, Indels: 45
0.75 0.11 0.13
Matches are distributed among these distances:
44 11 0.04
45 18 0.07
46 75 0.30
47 60 0.24
48 27 0.11
49 55 0.22
50 6 0.02
51 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCAAG
Found at i:38938736 original size:94 final size:94
Alignment explanation
Indices: 38938397--38938759 Score: 324
Period size: 94 Copynumber: 3.9 Consensus size: 94
38938387 CATAGGGTAT
* * *
38938397 AATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAA-GTCAATGCCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATCAAGGCCGATGCCATGTC
**
38938461 CCAGACATGGTCTTACACTGACTATCAAAATC
65 CCAGACAT-GTCTTACACTGACTATC-ATCTC
* * * * * *
38938493 GAGGCC-AGCGCCATGTCCTAGACAAGGTCTTACACT-ACTC-TCA-CATATCCGTGCCGATGCC
1 AATGCCGA-TGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCA-A---G-GCCGATGCC
38938554 ATGTCCCAGACATGTTCTTACACTGAC-AT-ATCTC
60 ATGTCCCAGACATG-TCTTACACTGACTATCATCTC
* *
38938588 -GTAGCCGATG-CGTGTCCCAGACAT-GTCTTACACTGGCGTACATC-TCAAGGCCGATG-CATG
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCATCAAGGCCGATGCCATG
* *
38938648 TCCCAGACATGTCTTACA-TTAGCTCTCATCTC
63 TCCCAGACATGTCTTACACTGA-CTATCATCTC
* *
38938680 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAATATGGCCGATG-CATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCA-A-GGCCGATGCCATGT
38938743 CCCAGACATGTCTTACA
64 CCCAGACATGTCTTACA
38938760 GTAGCACACA
Statistics
Matches: 221, Mismatches: 22, Indels: 50
0.75 0.08 0.17
Matches are distributed among these distances:
89 2 0.01
90 8 0.04
91 18 0.08
92 24 0.11
93 29 0.13
94 56 0.25
95 12 0.05
96 33 0.15
97 7 0.03
98 32 0.14
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (94 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCAAGGCCGATGCCATGTCC
CAGACATGTCTTACACTGACTATCATCTC
Found at i:38943728 original size:43 final size:43
Alignment explanation
Indices: 38943680--38943766 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
38943670 GATTAACGAG
* * * *
38943680 ATGTGATTATGTGTAGGATCAAGTCTGGGACATTGGCATCATT
1 ATGTGATTAGGTGTAAGACCAAGTCTGGGACATTAGCATCATT
* * *
38943723 ATGTGATTAGGTGTAAGACCATGTTTGGGACTTTAGCATCATT
1 ATGTGATTAGGTGTAAGACCAAGTCTGGGACATTAGCATCATT
38943766 A
1 A
38943767 ATTAATTTCG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.36
Consensus pattern (43 bp):
ATGTGATTAGGTGTAAGACCAAGTCTGGGACATTAGCATCATT
Found at i:38951006 original size:13 final size:13
Alignment explanation
Indices: 38950988--38951014 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38950978 GCTCGACAGG
38950988 GACACGCCCGTGT
1 GACACGCCCGTGT
38951001 GACACGCCCGTGT
1 GACACGCCCGTGT
38951014 G
1 G
38951015 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:38952742 original size:26 final size:26
Alignment explanation
Indices: 38952706--38952757 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
38952696 GAGAGAAGTG
*
38952706 AAACTTCCTGAATGATGGATGAACTC
1 AAACTTCCTGAATGATGGATAAACTC
38952732 AAACTTCCTGAATGATGGATAAACTC
1 AAACTTCCTGAATGATGGATAAACTC
38952758 CTTGAATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (26 bp):
AAACTTCCTGAATGATGGATAAACTC
Found at i:38966445 original size:48 final size:48
Alignment explanation
Indices: 38966358--38966639 Score: 244
Period size: 48 Copynumber: 5.8 Consensus size: 48
38966348 ATACTAGGGT
* * * *
38966358 TATGTGAGCCAGTGTAAGACCATGT-TTGGAACATCGCATCGGCATTTA
1 TATGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATCTA
* * * ** *
38966406 TATGAGAGCTAGTGTAAGATCATGTCTAGGACATGGCATCGACCCCGA
1 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCTA
* * * *
38966454 CATGTGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTTA
1 TATGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATCTA
* * * * * * *
38966502 TATGATATCTAGTGTAAGACCATGTCTGGGACATGGCATAGGCCTCGA
1 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCTA
* * ** * * *
38966550 CATGTGAGATAGTGTAAGACCATGTTTAGAACATGGCATCGGCACCGATA
1 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATC--TA
* *
38966600 TATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
38966640 AGCTTCTTAC
Statistics
Matches: 179, Mismatches: 50, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
47 3 0.02
48 137 0.77
49 6 0.03
50 33 0.18
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCTA
Found at i:38966526 original size:96 final size:96
Alignment explanation
Indices: 38966359--38966639 Score: 409
Period size: 96 Copynumber: 2.9 Consensus size: 96
38966349 TACTAGGGTT
* *
38966359 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATCGCATCGGCATTTATATGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAAAGCTAGTGTAAG
* *
38966424 ATCATGTCTAGGACATGGCATCGACCCCGAC
66 ACCATGTCTGGGACATGGCATCGACCCCGAC
* *
38966455 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGATATCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAAAGCTAGTGTAAG
* * *
38966520 ACCATGTCTGGGACATGGCATAGGCCTCGAC
66 ACCATGTCTGGGACATGGCATCGACCCCGAC
** * ** *
38966551 ATGTGAGATAGTGTAAGACCATGTTTAGAACATGGCATCGGCACCGATATATGAAAGCCAGTGTA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA--TTTATATGAAAGCTAGTGTA
38966616 AGACCATGTCTGGGACATGGCATC
64 AGACCATGTCTGGGACATGGCATC
38966640 AGCTTCTTAC
Statistics
Matches: 166, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
96 128 0.77
98 38 0.23
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (96 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAAAGCTAGTGTAAG
ACCATGTCTGGGACATGGCATCGACCCCGAC
Found at i:38969761 original size:64 final size:64
Alignment explanation
Indices: 38969681--38969802 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
38969671 TACTTGTCTG
* *
38969681 GGCTAAATCCATAATGCACATGTATTCTTCGGGAAGCTCAATCATCCAAAGGAACACCCATCTA
1 GGCTAAATCCATAATGCACAAGTATTCTTCAGGAAGCTCAATCATCCAAAGGAACACCCATCTA
* * *
38969745 GGCTAAATCTATAATGCACAAGTATTCTTTAGGAGGCTCAATCATCCAAAGGAACACC
1 GGCTAAATCCATAATGCACAAGTATTCTTCAGGAAGCTCAATCATCCAAAGGAACACC
38969803 TATCCGGGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (64 bp):
GGCTAAATCCATAATGCACAAGTATTCTTCAGGAAGCTCAATCATCCAAAGGAACACCCATCTA
Found at i:38969813 original size:64 final size:64
Alignment explanation
Indices: 38969680--38969818 Score: 197
Period size: 64 Copynumber: 2.2 Consensus size: 64
38969670 TTACTTGTCT
* * *
38969680 GGGCTAAATCCATAATGCACATGTATTCTTCGGGAAGCTCAATCATCCAAAGGAACACCCATCT
1 GGGCTAAATCCATAATGCACAAGTATTCTTCAGGAAGCTCAATCATCCAAAGGAACACCCATCC
* * * * *
38969744 AGGCTAAATCTATAATGCACAAGTATTCTTTAGGAGGCTCAATCATCCAAAGGAACACCTATCC
1 GGGCTAAATCCATAATGCACAAGTATTCTTCAGGAAGCTCAATCATCCAAAGGAACACCCATCC
*
38969808 GGGCTAGATCC
1 GGGCTAAATCC
38969819 TTTTCATAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (64 bp):
GGGCTAAATCCATAATGCACAAGTATTCTTCAGGAAGCTCAATCATCCAAAGGAACACCCATCC
Found at i:38974903 original size:2 final size:2
Alignment explanation
Indices: 38974896--38974923 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38974886 GATCTTGCAC
38974896 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38974924 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38975693 original size:41 final size:40
Alignment explanation
Indices: 38975634--38975745 Score: 163
Period size: 41 Copynumber: 2.8 Consensus size: 40
38975624 CTCGAATGAT
*
38975634 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAAGCGACTAC
* *
38975675 ATCCGGACTAAGATCCGAAGGCATTTGTGCT-AGCGACTAT
1 ATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAAGCGACTAC
*
38975715 ATCCGGGCTAAGTCCGAAGGCATTTATGCTA
1 ATCCGGGCTAAGTCCGAAGGCATTTGTGCTA
38975746 GTGACCATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 17 0.27
40 19 0.30
41 27 0.42
42 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGCGACTAC
Found at i:38975745 original size:39 final size:40
Alignment explanation
Indices: 38975632--38975774 Score: 184
Period size: 39 Copynumber: 3.6 Consensus size: 40
38975622 TACTCGAATG
*
38975632 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
* *
38975673 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* * *
38975713 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
*
38975752 ATAT-CGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
38975775 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
38 9 0.10
39 34 0.37
40 19 0.21
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
Found at i:38983733 original size:40 final size:40
Alignment explanation
Indices: 38983639--38983783 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
38983629 TACTCGAATG
*
38983639 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
38983680 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
38983720 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
38983760 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
38983784 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:38990303 original size:29 final size:29
Alignment explanation
Indices: 38990242--38990340 Score: 168
Period size: 28 Copynumber: 3.5 Consensus size: 29
38990232 AATGAGATTG
38990242 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
38990270 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
38990299 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
38990327 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38990341 GACTTACTGT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
28 34 0.49
29 34 0.49
30 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:39004374 original size:28 final size:28
Alignment explanation
Indices: 39004305--39004405 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
39004295 GACAAGATTG
* * * *
39004305 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
39004335 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39004363 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
39004392 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39004406 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39006727 original size:25 final size:25
Alignment explanation
Indices: 39006699--39006746 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39006689 TAAGCGAGAC
*
39006699 ATATCAGGAAGCTCAAAAAGAGCCT
1 ATATCAAGAAGCTCAAAAAGAGCCT
* *
39006724 ATATCAAGACGCTCATAAAGAGC
1 ATATCAAGAAGCTCAAAAAGAGC
39006747 TGCGTTTGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (25 bp):
ATATCAAGAAGCTCAAAAAGAGCCT
Found at i:39015489 original size:34 final size:34
Alignment explanation
Indices: 39015448--39015513 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
39015438 TGGTAAAGCT
39015448 GAATGGCTAATGTGAAATATGTATGAGATATGCC
1 GAATGGCTAATGTGAAATATGTATGAGATATGCC
39015482 GAATGGCTAATGTGAAATATGTATGAGATATG
1 GAATGGCTAATGTGAAATATGTATGAGATATG
39015514 TATATGTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (34 bp):
GAATGGCTAATGTGAAATATGTATGAGATATGCC
Found at i:39015534 original size:48 final size:48
Alignment explanation
Indices: 39015479--39015597 Score: 202
Period size: 48 Copynumber: 2.5 Consensus size: 48
39015469 TATGAGATAT
39015479 GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAA
1 GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAA
* * *
39015527 GCCGAATGGCTAATATGGAATATGTATGAGATGTGTATATGTGGTAAA
1 GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAA
*
39015575 GCCGAATGGCTAATGCGAAATAT
1 GCCGAATGGCTAATGTGAAATAT
39015598 ATATATATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (48 bp):
GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAA
Found at i:39015601 original size:2 final size:2
Alignment explanation
Indices: 39015594--39015625 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
39015584 CTAATGCGAA
39015594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39015626 GAGATATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39015646 original size:120 final size:120
Alignment explanation
Indices: 39015498--39015717 Score: 386
Period size: 120 Copynumber: 1.8 Consensus size: 120
39015488 CTAATGTGAA
* * *
39015498 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGGAATATGTATGAGATGTGT
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGT
39015563 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATATATATATATAT
66 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATATATATATATAT
* *
39015618 ATATATATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGT
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGT
*
39015683 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
66 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATAT
39015718 GTAAGAGATA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 94 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (120 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATATATATATATAT
Found at i:39015689 original size:48 final size:48
Alignment explanation
Indices: 39015618--39016066 Score: 675
Period size: 48 Copynumber: 9.1 Consensus size: 48
39015608 ATATATATAT
* *
39015618 ATATATATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
39015666 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
39015714 ATATGTAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
39015762 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A
* * *
39015813 TATATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATA
1 -ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A
* *
39015865 TATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAA
1 -ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
39015914 ATATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG--AA
* *
39015964 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
39016012 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
39016060 ATATGTA
1 ATATGTA
39016067 GGCGATGTGT
Statistics
Matches: 374, Mismatches: 19, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
47 1 0.00
48 234 0.63
49 1 0.00
50 45 0.12
51 2 0.01
52 91 0.24
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:39015737 original size:96 final size:96
Alignment explanation
Indices: 39015626--39016066 Score: 659
Period size: 98 Copynumber: 4.5 Consensus size: 96
39015616 ATATATATAT
*
39015626 GAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
39015691 TAAAGCCGAATGGCTAATGTGAAATATGTAA
66 TAAAGCCGAATGGCTAATGTGAAATATGTAA
39015722 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
* *
39015787 TAAAGCCGAATGGCTAATGCGAAATATATATATA
66 TAAAGCCGAATGGCTAATGTG-AA-ATATGTA-A
* * *
39015821 TGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATGAGATATGTATA
1 -GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATGTATA
* *
39015886 TGTGGTAAAGCCAAATGGCTAATGTGAAATATGTAT
61 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAA
* *
39015922 GAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAAAATATATATGAGATATGTATATG
1 GAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG--AAATATGTATGAGATATGTATATG
* *
39015986 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTAT
63 TGGTAAAGCCGAATGGCTAATGTGAAATATGTAA
*
39016020 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
39016067 GGCGATGTGT
Statistics
Matches: 318, Mismatches: 17, Indels: 20
0.90 0.05 0.06
Matches are distributed among these distances:
96 92 0.29
97 2 0.01
98 94 0.30
99 4 0.01
100 73 0.23
102 7 0.02
103 3 0.01
104 43 0.14
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (96 bp):
GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
TAAAGCCGAATGGCTAATGTGAAATATGTAA
Found at i:39015868 original size:250 final size:249
Alignment explanation
Indices: 39015614--39016063 Score: 796
Period size: 250 Copynumber: 1.8 Consensus size: 249
39015604 ATATATATAT
**
39015614 ATATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGAT
1 ATATATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGAT
* *
39015679 ATGTATATGTGGTAAAGCCGAATGG-CTAATGTG-AAATATGTAAGAGATATGTATATGTGGTAA
66 ATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAAATATATAAGAGATATGTATATGTGGTAA
39015742 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGC
130 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGC
39015807 GAAATATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAA
195 GAAATATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAA
39015862 ATATATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGAT
1 ATATATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGAT
*
39015927 ATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAAATATATATGAGATATGTATATGTGGTAA
66 ATGCATATGTGGTAAAGCCGAATGGTCAATGTG-AAAATATATAAGAGATATGTATATGTGGTAA
* * *
39015992 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
130 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGC
39016057 GAAATAT
195 GAAATAT
39016064 GTAGGCGATG
Statistics
Matches: 191, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
248 93 0.49
249 1 0.01
250 97 0.51
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (249 bp):
ATATATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGAT
ATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAATATATAAGAGATATGTATATGTGGTAAA
GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCG
AAATATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAA
Found at i:39016263 original size:37 final size:37
Alignment explanation
Indices: 39016213--39016284 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
39016203 GGAAATATAT
*
39016213 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
39016250 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
39016285 CATCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:39018430 original size:24 final size:24
Alignment explanation
Indices: 39018403--39018467 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
39018393 GTCATTATAT
39018403 ATTTTATATTATTATTAAATT-TTA
1 ATTTTATATT-TTATTAAATTGTTA
* *
39018427 ATTTATAAATTTTAAT-AATTGTTA
1 ATTT-TATATTTTATTAAATTGTTA
39018451 ATTTTATATCTTTATTA
1 ATTTTATAT-TTTATTA
39018468 TACATAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
23 8 0.24
24 20 0.61
25 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTATATTTTATTAAATTGTTA
Found at i:39018640 original size:11 final size:11
Alignment explanation
Indices: 39018619--39018651 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
39018609 AAAATAAATA
39018619 ATTTTTA-TTT
1 ATTTTTATTTT
39018629 ATTTTTATTTT
1 ATTTTTATTTT
*
39018640 ATTTCTATTTT
1 ATTTTTATTTT
39018651 A
1 A
39018652 AGTAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:39032152 original size:40 final size:40
Alignment explanation
Indices: 39032097--39032260 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
39032087 TGAATGATAC
* * *
39032097 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
39032137 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
39032177 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * * *
39032217 TCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
39032257 CCGG
1 CCGG
39032261 TTAAATCCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:39032236 original size:80 final size:80
Alignment explanation
Indices: 39032097--39032274 Score: 200
Period size: 80 Copynumber: 2.2 Consensus size: 80
39032087 TGAATGATAC
* * * * * *
39032097 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
39032161 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * * *
39032177 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATTCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
39032242 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
39032257 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
39032275 TACGTGACTC
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 65 0.78
81 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:39036454 original size:34 final size:34
Alignment explanation
Indices: 39036370--39036455 Score: 136
Period size: 36 Copynumber: 2.5 Consensus size: 34
39036360 ATTCAATACA
*
39036370 AATATTAGTTAAGTATATAATCTGCCAAAGTTAT
1 AATATTAGTTAAGTATATAATCTGCCAAAGTCAT
*
39036404 ACTATTATAGTTAAGTATATAATCTGCCAAAGTCAT
1 AATA-T-TAGTTAAGTATATAATCTGCCAAAGTCAT
39036440 AATATTAGTTAAGTAT
1 AATATTAGTTAAGTAT
39036456 CAAACCTGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
34 14 0.30
35 2 0.04
36 31 0.66
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (34 bp):
AATATTAGTTAAGTATATAATCTGCCAAAGTCAT
Found at i:39037806 original size:13 final size:13
Alignment explanation
Indices: 39037788--39037812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39037778 AGAAATGGAA
39037788 AAAAAATAAAAAT
1 AAAAAATAAAAAT
39037801 AAAAAATAAAAA
1 AAAAAATAAAAA
39037813 GAATAAGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:39039305 original size:41 final size:41
Alignment explanation
Indices: 39039250--39039332 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
39039240 CCACTAGAGA
39039250 AAAACTTACTTTGAAGATTGGTAGGCACAACACGTAACCAG
1 AAAACTTACTTTGAAGATTGGTAGGCACAACACGTAACCAG
39039291 AAAACTTACTTTGAAGATTGGTAGGCACAACACGTAACCAG
1 AAAACTTACTTTGAAGATTGGTAGGCACAACACGTAACCAG
39039332 A
1 A
39039333 CCTCTCTAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (41 bp):
AAAACTTACTTTGAAGATTGGTAGGCACAACACGTAACCAG
Found at i:39046049 original size:27 final size:27
Alignment explanation
Indices: 39046009--39046120 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
39045999 AGGAAGCGTC
*
39046009 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
39046036 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
39046063 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
39046091 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
39046117 CTGG
1 CTGG
39046121 AAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:39046113 original size:54 final size:54
Alignment explanation
Indices: 39046009--39046120 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
39045999 AGGAAGCGTC
*
39046009 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
39046063 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
39046117 CTGG
1 CTGG
39046121 AAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:39054033 original size:27 final size:27
Alignment explanation
Indices: 39053993--39054104 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
39053983 AGGAGACGTC
*
39053993 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
39054020 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
39054047 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
39054075 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
39054101 CTGG
1 CTGG
39054105 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:39054097 original size:54 final size:54
Alignment explanation
Indices: 39053993--39054104 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
39053983 AGGAGACGTC
*
39053993 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
39054047 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
39054101 CTGG
1 CTGG
39054105 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:39065210 original size:27 final size:26
Alignment explanation
Indices: 39065173--39065223 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
39065163 CCAATCGTAT
39065173 ATTCGAATCCTGAAAAATTGAATTGG
1 ATTCGAATCCTGAAAAATTGAATTGG
*
39065199 ATTCGTAATCCTGGAAAATTGAATT
1 ATTCG-AATCCTGAAAAATTGAATT
39065224 TTATAATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (26 bp):
ATTCGAATCCTGAAAAATTGAATTGG
Found at i:39070064 original size:20 final size:20
Alignment explanation
Indices: 39070014--39070064 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
39070004 AAGGAAAAGC
* *
39070014 ACACACCCGTATGCTTGGGG
1 ACACGCCCGTGTGCTTGGGG
39070034 ACACGCCCGTGTGCTTGGGG
1 ACACGCCCGTGTGCTTGGGG
39070054 ACACGCCCGTG
1 ACACGCCCGTG
39070065 CCCCTCTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTGGGG
Found at i:39075216 original size:40 final size:39
Alignment explanation
Indices: 39075051--39075234 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
39075041 AAATTGAATG
* * *
39075051 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
39075091 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
39075131 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
39075171 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
39075210 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
39075235 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:39075259 original size:80 final size:81
Alignment explanation
Indices: 39075091--39075279 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
39075081 GCTGGAAATT
* * * *
39075091 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
39075156 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
39075172 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
39075235 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
39075251 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
39075280 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:39083318 original size:40 final size:39
Alignment explanation
Indices: 39083153--39083336 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
39083143 AAATTGAATG
* * *
39083153 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
39083193 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
39083233 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
39083273 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
39083312 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
39083337 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:39083361 original size:80 final size:81
Alignment explanation
Indices: 39083193--39083381 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
39083183 GCTGGAAATT
* * * *
39083193 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
39083258 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
39083274 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
39083337 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
39083353 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
39083382 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:39097205 original size:130 final size:130
Alignment explanation
Indices: 39096972--39097231 Score: 457
Period size: 130 Copynumber: 2.0 Consensus size: 130
39096962 GGGTCAATCC
** *
39096972 CATCACGAAATCCATAGTAATCCTATTCCACTTCCACTTGGGGTTCATCACAGGCTGTAGCAAAC
1 CATCACGAAATCCATAGTAATCCTATTCCACTTCCACTTGGGGACCATCACAGGCTGTAACAAAC
*
39097037 CTGAAAGTACTTAGTGTTCAGCTTTGACTTGCTAACATATCAAGCATTTCGATACAAATTTGGAG
66 CTGAAAGTACTTAGTGTTCAGCTTTGACTTGCTAACATATCAAGCATTTCGATACAAATTCGGAG
*
39097102 CATCACGAAATTCATAGTAATCCTATTCCACTTCCACTTGGGGACCATCACAGGCTGTAACAAAC
1 CATCACGAAATCCATAGTAATCCTATTCCACTTCCACTTGGGGACCATCACAGGCTGTAACAAAC
* *
39097167 CTGAAAGTACTTAGTGTTCAGCTTTGACTTGCTAACATATCAAGTATTTTGATACAAATTCGGAG
66 CTGAAAGTACTTAGTGTTCAGCTTTGACTTGCTAACATATCAAGCATTTCGATACAAATTCGGAG
39097232 ATGTCTCTTT
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 123 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (130 bp):
CATCACGAAATCCATAGTAATCCTATTCCACTTCCACTTGGGGACCATCACAGGCTGTAACAAAC
CTGAAAGTACTTAGTGTTCAGCTTTGACTTGCTAACATATCAAGCATTTCGATACAAATTCGGAG
Found at i:39101837 original size:54 final size:54
Alignment explanation
Indices: 39101775--39101882 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
39101765 TAATCATATA
* *
39101775 AGGCTCATTTTTGGTTACTGAAAGGTGTTAAACTTCCTATATTAGGTACTGGTG
1 AGGCTCATTTTTGGTTACTAAAAGGTGTTAAACATCCTATATTAGGTACTGGTG
* * * *
39101829 AGGCTCATTTTTTGTTACTAAAAGGTGTTGAACATCTTATTTTAGGTACTGGTG
1 AGGCTCATTTTTGGTTACTAAAAGGTGTTAAACATCCTATATTAGGTACTGGTG
39101883 GTCTCGGGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (54 bp):
AGGCTCATTTTTGGTTACTAAAAGGTGTTAAACATCCTATATTAGGTACTGGTG
Found at i:39106781 original size:29 final size:29
Alignment explanation
Indices: 39106748--39106878 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
39106738 TGACGAGATC
*
39106748 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
39106777 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
39106806 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
39106835 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
39106864 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
39106879 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:39114765 original size:29 final size:29
Alignment explanation
Indices: 39114732--39114862 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
39114722 TGACGAGATC
*
39114732 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
39114761 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
39114790 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
39114819 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
39114848 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
39114863 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:39116876 original size:57 final size:56
Alignment explanation
Indices: 39116740--39116876 Score: 145
Period size: 56 Copynumber: 2.4 Consensus size: 56
39116730 AAGATTACTT
* ** *
39116740 GTCCAAGCTAAATCCTATTTCCAACATATGCTCATAAGAGCTTAATCAGGATTACC
1 GTCCAGGCTAAATCCTATTTATAACATATGCTCATAAGAGCTTAATCAGGATTACA
* * *
39116796 GTCC-GTGCTAAATCCTATCTATAACATATG-TCA-AGAGGGCTTATATTAGGATTAACA
1 GTCCAG-GCTAAATCCTATTTATAACATATGCTCATA-AGAGCTTA-ATCAGGATT-ACA
*
39116853 GTCCAGGCTAAATCCTTTTTATAA
1 GTCCAGGCTAAATCCTATTTATAA
39116877 TGAGGTCAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
54 1 0.01
55 10 0.15
56 33 0.49
57 22 0.33
58 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (56 bp):
GTCCAGGCTAAATCCTATTTATAACATATGCTCATAAGAGCTTAATCAGGATTACA
Found at i:39119435 original size:28 final size:28
Alignment explanation
Indices: 39119366--39119466 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
39119356 GACAAGATTG
* * * *
39119366 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
39119396 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39119424 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
39119453 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39119467 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39127386 original size:28 final size:28
Alignment explanation
Indices: 39127317--39127417 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
39127307 GACAAGATTG
* * * *
39127317 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
39127347 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39127375 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
39127404 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39127418 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39132797 original size:27 final size:26
Alignment explanation
Indices: 39132726--39132840 Score: 158
Period size: 27 Copynumber: 4.3 Consensus size: 26
39132716 TGGAGGAAGC
39132726 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
39132753 GTTTCTGGTGGCTATGCCACGAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
39132781 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
39132807 GTATCTAGTGGCTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
39132834 GTTCTGG
1 GTTCTGG
39132841 CAGCCATGCT
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
26 13 0.16
27 42 0.52
28 26 0.32
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:39143507 original size:21 final size:20
Alignment explanation
Indices: 39143452--39143508 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
39143442 TACGATTTTT
* * *
39143452 CACTTCAGTGCCTTTATTTG
1 CACTTCAGTTCCTCTGTTTG
39143472 CACTTCAGTTCCTCTGTTTG
1 CACTTCAGTTCCTCTGTTTG
*
39143492 CACTTCGGTGTCCTCTG
1 CACTTCAGT-TCCTCTG
39143509 GTGTGGTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 25 0.78
21 7 0.22
ACGTcount: A:0.11, C:0.30, G:0.18, T:0.42
Consensus pattern (20 bp):
CACTTCAGTTCCTCTGTTTG
Found at i:39146599 original size:29 final size:29
Alignment explanation
Indices: 39146538--39146613 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
39146528 AGTTATACCG
* *
39146538 ATTTGACTTCGGGCCATGCATATCGATTG
1 ATTTGGCTTCGGGCCATGCATATCGATTA
*
39146567 ATTTGGCTTCGGGCCATGCATATTGGA-TA
1 ATTTGGCTTCGGGCCATGCATA-TCGATTA
* *
39146596 ATTTTGCTTCAGGCCATG
1 ATTTGGCTTCGGGCCATG
39146614 ATAATAGTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 38 0.93
30 3 0.07
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (29 bp):
ATTTGGCTTCGGGCCATGCATATCGATTA
Found at i:39147568 original size:46 final size:46
Alignment explanation
Indices: 39147515--39147681 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
39147505 AGCATCTGAG
* *
39147515 CTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAA
* * * * *
39147561 CTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCGAA
* * * * *
39147608 CTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAA
39147654 CTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTA
39147682 GGGGCGGGTT
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 52 0.54
47 27 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAA
Found at i:39147665 original size:93 final size:93
Alignment explanation
Indices: 39147506--39147676 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
39147496 GGATGGTTGA
* * * * *
39147506 GCATCTGAGCTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
39147571 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
39147599 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
39147664 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
39147677 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39154664 original size:46 final size:46
Alignment explanation
Indices: 39154614--39154786 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
39154604 TGGTTGAGCA
* *
39154614 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
39154660 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * **
39154707 TCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGGGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
39154753 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
39154787 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:39154770 original size:93 final size:93
Alignment explanation
Indices: 39154611--39154781 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
39154601 GGATGGTTGA
* * * *
39154611 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
39154676 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
39154704 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGGGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
39154769 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
39154782 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39158121 original size:40 final size:39
Alignment explanation
Indices: 39158084--39158274 Score: 224
Period size: 40 Copynumber: 4.8 Consensus size: 39
39158074 GGATATAGCT
* *
39158084 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTA
* * *
39158124 TCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTA
* *
39158164 ACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTA-TAGTA
* *
39158203 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGTATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGTATAGTA
* *
39158242 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGG
39158275 ATATCATTCG
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.02
39 37 0.29
40 86 0.67
41 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTA
Found at i:39158202 original size:79 final size:79
Alignment explanation
Indices: 39158068--39158275 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
39158058 CCTTCAGAAT
* * * *
39158068 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTATCTCGCAC
1 TTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC
39158132 AAATGCCTTCGGGA-C
65 AAATGCCTTC-GGATC
* *
39158147 TTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 TTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
39158210 CAAATGCCTTCGGATC
64 CAAATGCCTTCGGATC
* * *
39158226 TTAGTCCGG-TATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
39158276 TATCATTCGA
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
78 10 0.09
79 60 0.55
80 40 0.36
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
TTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACA
AATGCCTTCGGATC
Found at i:39165845 original size:28 final size:28
Alignment explanation
Indices: 39165776--39165876 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
39165766 GACAAGATTG
* * * *
39165776 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
39165806 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39165834 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
39165863 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39165877 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39165870 original size:29 final size:28
Alignment explanation
Indices: 39165805--39165876 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
39165795 AAAATTGTAC
*
39165805 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
39165833 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
39165862 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
39165877 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:39169268 original size:40 final size:40
Alignment explanation
Indices: 39169196--39169382 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
39169186 GCTACTCACT
* *
39169196 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
39169236 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
39169276 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
39169315 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
39169356 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
39169383 ATCATTCGAA
Statistics
Matches: 126, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 62 0.49
41 27 0.21
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:39169296 original size:79 final size:81
Alignment explanation
Indices: 39169196--39169381 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
39169186 GCTACTCACT
* * *
39169196 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTATCTCGCACAAATGCCTTCGGGA-CTTA-ACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGACC
* *
39169258 TGGATTTAGTAAC-TCGCA
64 -GGATATAGTAACTTAGCA
* *
39169276 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGG
*
39169340 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
39169356 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39169382 TATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 45 0.49
80 32 0.35
81 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGG
ATATAGTAACTTAGCA
Found at i:39173191 original size:164 final size:165
Alignment explanation
Indices: 39172908--39173240 Score: 596
Period size: 164 Copynumber: 2.0 Consensus size: 165
39172898 CAAACAAATA
* *
39172908 TTCGAATAGAGATCGTAGAAAACAATACTCAGGTTCTAAAGTTCAAATTACATCAGTATCAAGTG
1 TTCGAACAGAGATCGTAGAAAACAATACTCAGGTTCTAAAGTTCAAACTACATCAGTATCAAGTG
39172973 TTGGCAATGTGAGAGACAAAAAACCCGAGTGTCAACAGTGTGGAAGACGACATTTTGGAGAATGC
66 TTGGCAATGTGAGAGACAAAAAACCCGAGTGTCAACAGTGTGGAAGACGACATTTTGGAGAATGC
39173038 TGGAATAAAAGTAATAAAGCTTGTTACAAATGT-G
131 TGGAATAAAAGTAATAAAGCTTGTTACAAATGTGG
39173072 TTCGAACAGAGATCGTAGAAAACAATACTCAGGTTCTAAAGTTCAAACTACATCAGTATCAAGTG
1 TTCGAACAGAGATCGTAGAAAACAATACTCAGGTTCTAAAGTTCAAACTACATCAGTATCAAGTG
* * * * *
39173137 TTGGCAGTGTGAGATACAACAAACCCGAGTGTCAACAGTGTGGGAGATGACATTTTGGAGAATGC
66 TTGGCAATGTGAGAGACAAAAAACCCGAGTGTCAACAGTGTGGAAGACGACATTTTGGAGAATGC
39173202 TGGAATAAAAGTAATAAAGCTTGTTACAAATGTGG
131 TGGAATAAAAGTAATAAAGCTTGTTACAAATGTGG
39173237 TTCG
1 TTCG
39173241 CTAGATCACT
Statistics
Matches: 161, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
164 156 0.97
165 5 0.03
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (165 bp):
TTCGAACAGAGATCGTAGAAAACAATACTCAGGTTCTAAAGTTCAAACTACATCAGTATCAAGTG
TTGGCAATGTGAGAGACAAAAAACCCGAGTGTCAACAGTGTGGAAGACGACATTTTGGAGAATGC
TGGAATAAAAGTAATAAAGCTTGTTACAAATGTGG
Found at i:39176303 original size:28 final size:27
Alignment explanation
Indices: 39176248--39176320 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
39176238 ATCTAACATG
* *
39176248 AATAAAATGTAAAAC-AATTTGAAATAA
1 AATAATATGTAAAACAAATTTCAAAT-A
*
39176275 AATAATATATAAAACAAATTTCAAATA
1 AATAATATGTAAAACAAATTTCAAATA
* *
39176302 AACAATATGTTAAACAAAT
1 AATAATATGTAAAACAAAT
39176321 CAAGATGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 30 0.77
28 9 0.23
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (27 bp):
AATAATATGTAAAACAAATTTCAAATA
Found at i:39176432 original size:27 final size:29
Alignment explanation
Indices: 39176376--39176445 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 29
39176366 ACAAAAGAGC
39176376 TTAAAATAAATAATATGTAAAAGAGAAAT
1 TTAAAATAAATAATATGTAAAAGAGAAAT
*
39176405 TTAAAATAAAT-AT-TGTACAAGA-ATAAT
1 TTAAAATAAATAATATGTAAAAGAGA-AAT
39176432 TT-AAATAAA-AATAT
1 TTAAAATAAATAATAT
39176446 ATATATAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
26 10 0.27
27 14 0.38
28 2 0.05
29 11 0.30
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (29 bp):
TTAAAATAAATAATATGTAAAAGAGAAAT
Found at i:39176616 original size:24 final size:23
Alignment explanation
Indices: 39176444--39176618 Score: 72
Period size: 24 Copynumber: 7.3 Consensus size: 23
39176434 AAATAAAAAT
**
39176444 ATATATATAAAATCCAAAATAAT-
1 ATATATA-AAAATTTAAAATAATA
* *
39176467 ATATATAAAAGTTTAAAATAGGTA
1 ATATATAAAAATTTAAAATA-ATA
**
39176491 ATATATAAAGTTTTAAAATTAATA
1 ATATATAAAAATTTAAAA-TAATA
* * **
39176515 ATA-ATAAAAGGTTCACGATAAATA
1 ATATATAAAA-ATTTAAAAT-AATA
* *
39176539 ATA-A-AAAGAATTTAAAATAGTT
1 ATATATAAA-AATTTAAAATAATA
* * *
39176561 TTCATATAAAATAGTGTAACCA-AATA
1 AT-ATATAAAA-A-TTTAA-AATAATA
*
39176587 ACATATAAAAATTTAAAATAGATA
1 ATATATAAAAATTTAAAATA-ATA
39176611 ATATATAA
1 ATATATAA
39176619 GATGATTTAA
Statistics
Matches: 110, Mismatches: 28, Indels: 27
0.67 0.17 0.16
Matches are distributed among these distances:
22 14 0.13
23 28 0.25
24 47 0.43
25 14 0.13
26 6 0.05
27 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (23 bp):
ATATATAAAAATTTAAAATAATA
Found at i:39176977 original size:3 final size:3
Alignment explanation
Indices: 39176966--39177011 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
39176956 TGATGATAGC
*
39176966 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AA- AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
39177010 AA
1 AA
39177012 GTAGTTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:39181436 original size:29 final size:29
Alignment explanation
Indices: 39181400--39181476 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
39181390 AAGTTATACC
*
39181400 AATTTGGCTTTGGGCCATGCATATTGGAT
1 AATTTGGCTTCGGGCCATGCATATTGGAT
*
39181429 GATTTGGCTTCGGGCCATGCATATTGGAT
1 AATTTGGCTTCGGGCCATGCATATTGGAT
*
39181458 AATTTTGCTTCGGGCCATG
1 AATTTGGCTTCGGGCCATG
39181477 ATAATAGTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.18, C:0.17, G:0.29, T:0.36
Consensus pattern (29 bp):
AATTTGGCTTCGGGCCATGCATATTGGAT
Found at i:39185313 original size:34 final size:34
Alignment explanation
Indices: 39185263--39185357 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 34
39185253 TAAGCCCTTT
* * *
39185263 CAATAACAGTTAGGGCCTTAGCCCATTTCAGTAA
1 CAATAGCAGTCAGGGCCTAAGCCCATTTCAGTAA
* * *
39185297 TAATAGCAGTCTGGGCCTGAA-CCCGTTTCAGTAA
1 CAATAGCAGTCAGGGCCT-AAGCCCATTTCAGTAA
*
39185331 CAGTAGCAGTCAGGGCCTAAGCCCATT
1 CAATAGCAGTCAGGGCCTAAGCCCATT
39185358 AACATATCAG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
33 2 0.04
34 46 0.94
35 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (34 bp):
CAATAGCAGTCAGGGCCTAAGCCCATTTCAGTAA
Found at i:39194536 original size:24 final size:24
Alignment explanation
Indices: 39194509--39194653 Score: 272
Period size: 24 Copynumber: 6.0 Consensus size: 24
39194499 GCTTATTATG
*
39194509 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
39194533 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
39194557 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
39194581 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
*
39194605 ATCGCACACACAGTGCCATAATAA
1 ATCGCACACACAGTGCCATAGTAA
39194629 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
39194653 A
1 A
39194654 CTTTCTACCC
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 118 1.00
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.17
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:39196355 original size:29 final size:29
Alignment explanation
Indices: 39196316--39196390 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
39196306 GGTTGAGAGA
* *
39196316 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
39196345 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
*
39196374 ATGGCACTAACTGTGCG
1 ATGGCACTAAGTGTGCG
39196391 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:39202900 original size:27 final size:27
Alignment explanation
Indices: 39202868--39202922 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
39202858 TAAAGCATGT
39202868 TGTGAAAATGCTGGGTTTGCATGTCAA
1 TGTGAAAATGCTGGGTTTGCATGTCAA
39202895 TGTGAAAATGCTGGGTTTGCATGTCAA
1 TGTGAAAATGCTGGGTTTGCATGTCAA
39202922 T
1 T
39202923 TTACCCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (27 bp):
TGTGAAAATGCTGGGTTTGCATGTCAA
Found at i:39204231 original size:29 final size:29
Alignment explanation
Indices: 39204203--39204304 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
39204193 CCTCCGAGCT
** * * *
39204203 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
39204232 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
39204261 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
39204290 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
39204305 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:39212091 original size:29 final size:29
Alignment explanation
Indices: 39212063--39212164 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
39212053 CCTCCGAGCT
** * * *
39212063 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
39212092 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
39212121 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
39212150 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
39212165 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:39215454 original size:28 final size:30
Alignment explanation
Indices: 39215422--39215479 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
39215412 AAATGTTTGA
39215422 ATTTTA-T-ATAAAAATATATTTTAATAAT
1 ATTTTATTAATAAAAATATATTTTAATAAT
* *
39215450 ATTTTATTAAATGAAAATATTTTTTAATAA
1 ATTTTATT-AATAAAAATATATTTTAATAA
39215480 ATGAAATTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 1 0.04
31 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATTTTATTAATAAAAATATATTTTAATAAT
Found at i:39215468 original size:21 final size:20
Alignment explanation
Indices: 39215448--39215485 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39215438 TATTTTAATA
*
39215448 ATATTTTATTAAATGAAAAT
1 ATATTTTAATAAATGAAAAT
*
39215468 ATTTTTTAATAAATGAAA
1 ATATTTTAATAAATGAAA
39215486 TTGCAGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATTTTAATAAATGAAAAT
Found at i:39215699 original size:2 final size:2
Alignment explanation
Indices: 39215692--39215722 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
39215682 AAGAGTTTGC
39215692 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39215723 TCGAAAGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39216808 original size:20 final size:20
Alignment explanation
Indices: 39216780--39216818 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39216770 ATTTTTTGTA
39216780 AAATATTAAGAA-TATTATTT
1 AAATATTAA-AATTATTATTT
*
39216800 AAATTTTAAAATTATTATT
1 AAATATTAAAATTATTATT
39216819 AACTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
AAATATTAAAATTATTATTT
Found at i:39219722 original size:20 final size:20
Alignment explanation
Indices: 39219656--39219713 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
39219646 ATTTTGATAA
*
39219656 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
39219676 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
39219696 ACATGATATGTATGATAT
1 ACATGATATGTATGATAT
39219714 ACACGTGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39219828 original size:24 final size:23
Alignment explanation
Indices: 39219772--39219923 Score: 196
Period size: 24 Copynumber: 6.4 Consensus size: 23
39219762 GAGGAAGTGA
* *
39219772 AAAATGGCTTAGGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
39219795 TAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
39219818 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
39219842 CAAAAGGGCTTTTGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
39219866 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
39219889 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
39219914 AAAAGAGGCT
1 AAAAG-GGCT
39219924 AGGCCTTCAG
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
23 40 0.35
24 69 0.61
25 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:39219871 original size:47 final size:46
Alignment explanation
Indices: 39219777--39219916 Score: 208
Period size: 47 Copynumber: 3.0 Consensus size: 46
39219767 AGTGAAAAAT
* * * * *
39219777 GGCTTAGGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATCAAAAG
1 GGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAGTTAT-TAAAG
39219824 GGCTTATGCCCCAGTTATCAAAAGGGCTTTTGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTAT-AAAAGGGCTTTTGCCCCAGTTATTAAAG
39219871 GGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATTAAA
1 GGCTTATGCCCCAGTTAT-AAAAGGGCTTTTGCCCCAGTTATTAAA
39219917 AGAGGCTAGG
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
47 66 0.77
48 20 0.23
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (46 bp):
GGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAGTTATTAAAG
Found at i:39219894 original size:71 final size:72
Alignment explanation
Indices: 39219784--39219923 Score: 237
Period size: 71 Copynumber: 2.0 Consensus size: 72
39219774 AATGGCTTAG
* *
39219784 GCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-
1 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATCAAAAGA
39219848 GGCTTTT
66 GGCTTTT
* *
39219855 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATTAAAAGA
1 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATCAAAAGA
39219920 GGCT
66 GGCT
39219924 AGGCCTTCAG
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 60 0.94
72 4 0.06
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (72 bp):
GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATCAAAAGA
GGCTTTT
Found at i:39220167 original size:31 final size:31
Alignment explanation
Indices: 39220132--39220194 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
39220122 GTTTACAGTC
*
39220132 AAGGCTTCGGCCCAGTAATATGAAATTTGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
**
39220163 AAGGCTTCGGCCCAGTGTTATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
39220194 A
1 A
39220195 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:39222134 original size:98 final size:98
Alignment explanation
Indices: 39221956--39222137 Score: 310
Period size: 98 Copynumber: 1.9 Consensus size: 98
39221946 GTTGTTTCTC
* * *
39221956 GTCCTCAAGTAAACAAAAAACAGAAACAAAAATAGACAAGCTAAAAATAAGATGAAAAGAAAACA
1 GTCCTCAAGTAAACAAAAAACAAAAACAAAAATAGACAAACTAAAAATAAGAAGAAAAGAAAACA
*
39222021 CATGATTAAAACTAAAGTACTAAGCCATTGCTT
66 CATGACTAAAACTAAAGTACTAAGCCATTGCTT
*
39222054 GTCCTCAAGTAAACGAAAAACAAAAACAAAAATAGACAAACTAAAAATAAGAAGAAAAGAAAACA
1 GTCCTCAAGTAAACAAAAAACAAAAACAAAAATAGACAAACTAAAAATAAGAAGAAAAGAAAACA
*
39222119 CATGACTAAAGCTAAAGTA
66 CATGACTAAAACTAAAGTA
39222138 TTTGAGCAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 78 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (98 bp):
GTCCTCAAGTAAACAAAAAACAAAAACAAAAATAGACAAACTAAAAATAAGAAGAAAAGAAAACA
CATGACTAAAACTAAAGTACTAAGCCATTGCTT
Found at i:39225181 original size:44 final size:44
Alignment explanation
Indices: 39225089--39225212 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 44
39225079 TATGTCAAAC
* * * *
39225089 TCCATGGTTGTACTATGACAATTAAGAAAGAATTGACAGAAAAT
1 TCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACAGAAAAG
39225133 TCCATGGTTGTACCATGGCAATTAAGGAAGAATTGAC-GAAAAAG
1 TCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACAG-AAAAG
* * * *
39225177 TCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 TCCATGGTT-GTACCATGGCAATTAAGGAAGAATTGA
39225213 GGTTAAGGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 4 0.06
44 66 0.94
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (44 bp):
TCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACAGAAAAG
Found at i:39225413 original size:47 final size:47
Alignment explanation
Indices: 39225351--39225472 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
39225341 GCATTAGCAC
*
39225351 TAAGACAAGGTTACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
39225398 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
39225445 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
39225473 CCAAGCCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Done.