Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 290 of 352
Found at i:95407104 original size:29 final size:29
Alignment explanation
Indices: 95407083--95407142 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
95407073 GGTTGGGATT
*
95407083 GGGTTTAGTTTGGGCTGATGGTTTAGTTG
1 GGGTTTAGTTTGGGCTGATGGTTGAGTTG
* *
95407112 GGGTTTAGTTTGGGTTGATGGTTTAGTTG
1 GGGTTTAGTTTGGGCTGATGGTTGAGTTG
95407141 GG
1 GG
95407143 CTTTGGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.10, C:0.02, G:0.43, T:0.45
Consensus pattern (29 bp):
GGGTTTAGTTTGGGCTGATGGTTGAGTTG
Found at i:95407112 original size:17 final size:18
Alignment explanation
Indices: 95407084--95407144 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
95407074 GTTGGGATTG
95407084 GGTTTAGTTTGGGCTGAT
1 GGTTTAGTTTGGGCTGAT
95407102 GGTTTAG-TT--G--G--
1 GGTTTAGTTTGGGCTGAT
*
95407113 GGTTTAGTTTGGGTTGAT
1 GGTTTAGTTTGGGCTGAT
95407131 GGTTTAG-TTGGGCT
1 GGTTTAGTTTGGGCT
95407145 TTGGGTTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 15
0.69 0.02 0.29
Matches are distributed among these distances:
11 7 0.20
12 2 0.06
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 8 0.23
18 14 0.40
ACGTcount: A:0.10, C:0.03, G:0.41, T:0.46
Consensus pattern (18 bp):
GGTTTAGTTTGGGCTGAT
Found at i:95408378 original size:90 final size:89
Alignment explanation
Indices: 95408154--95408385 Score: 270
Period size: 90 Copynumber: 2.6 Consensus size: 89
95408144 TCCATCTTGC
*
95408154 GGCTCGCACATCTCCCTTGTACTCCATCTCTCGAGGTGGCGAGAAGCGATGGGGTGTTTCACCTC
1 GGCTCGCACATCTCCCTTGTACTCCATCT-TCGAGGTGGCGAGAAGCGATGGGCTGTTTCACCTC
* *
95408219 GTGAGGAGGGTTGGATTCCAGGTCA
65 GAGAGGAGGGTTGGATTCCAGATCA
** * * *
95408244 GGCTCGCACATCTCCCTCATACTCCATCTTATGAGATGGCGAGAATCGATAGGGCT-TTTCACCT
1 GGCTCGCACATCTCCCTTGTACTCCATCTT-CGAGGTGGCGAGAAGCGAT-GGGCTGTTTCACCT
* *
95408308 CGAGAGGAGGGTTAGG-TTCTAGATTA
64 CGAGAGGAGGGTT-GGATTCCAGATCA
* * * * *
95408334 GGCTTGCACATTTCCCTTGTACTCCATCTTGCAAGGTGGTGAGAAGCAATGG
1 GGCTCGCACATCTCCCTTGTACTCCATCTT-CGAGGTGGCGAGAAGCGATGG
95408386 AACGTTCCAC
Statistics
Matches: 118, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
89 3 0.03
90 109 0.92
91 6 0.05
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.27
Consensus pattern (89 bp):
GGCTCGCACATCTCCCTTGTACTCCATCTTCGAGGTGGCGAGAAGCGATGGGCTGTTTCACCTCG
AGAGGAGGGTTGGATTCCAGATCA
Found at i:95417706 original size:25 final size:25
Alignment explanation
Indices: 95417638--95417706 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
95417628 TGGCTGCCAG
* *
95417638 GAGCTTCCTGATATTTAGCTCTCAT
1 GAGCTTCCTGATATTTGGCGCTCAT
* *
95417663 GAGCTTCCTGAT-TAATGGCGCTCTT
1 GAGCTTCCTGATAT-TTGGCGCTCAT
*
95417688 GAGCTTCCCGATATTTGGC
1 GAGCTTCCTGATATTTGGC
95417707 TGGCAAGAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (25 bp):
GAGCTTCCTGATATTTGGCGCTCAT
Found at i:95417758 original size:25 final size:25
Alignment explanation
Indices: 95417688--95417759 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
95417678 TGGCGCTCTT
* ** * *
95417688 GAGCTTCCCGATATTTGGCTGGCAA
1 GAGCTTCCCGTTACATGGCTCGAAA
95417713 GAGCTTCCCGTTACATGGCTCGAAA
1 GAGCTTCCCGTTACATGGCTCGAAA
*
95417738 GAGCTTCCCATTTACAT-GCTCG
1 GAGCTTCCC-GTTACATGGCTCG
95417760 TATGGGCATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 34 0.85
26 6 0.15
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCGAAA
Found at i:95425080 original size:25 final size:26
Alignment explanation
Indices: 95425033--95425090 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
95425023 TATTTTTATC
95425033 TTTA-TTTATTTCTTTAAAGTACT-T
1 TTTATTTTATTTCTTTAAAGTACTAT
*
95425057 TTTATTTTATTTCCTTTCAA-TACTAT
1 TTTATTTTATTT-CTTTAAAGTACTAT
95425083 TTTATTTT
1 TTTATTTT
95425091 TAGGTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 11 0.37
26 15 0.50
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTATTTTATTTCTTTAAAGTACTAT
Found at i:95428638 original size:18 final size:18
Alignment explanation
Indices: 95428615--95428650 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
95428605 TAATATATAT
95428615 TAACCCAAGTACCCAACC
1 TAACCCAAGTACCCAACC
*
95428633 TAACCCAATTACCCAACC
1 TAACCCAAGTACCCAACC
95428651 CAATCAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.44, G:0.03, T:0.14
Consensus pattern (18 bp):
TAACCCAAGTACCCAACC
Found at i:95428732 original size:9 final size:9
Alignment explanation
Indices: 95428718--95428785 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
95428708 TTTATACAAA
95428718 TAATTCGGT
1 TAATTCGGT
*
95428727 TAATTCTGT
1 TAATTCGGT
* *
95428736 TAATTTGGG
1 TAATTCGGT
**
95428745 TAATTCAAT
1 TAATTCGGT
*
95428754 TAATTCAGT
1 TAATTCGGT
*
95428763 TAATTCGAT
1 TAATTCGGT
95428772 TAATTCGGT
1 TAATTCGGT
95428781 TAATT
1 TAATT
95428786 TTATACTTAT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:95428783 original size:27 final size:27
Alignment explanation
Indices: 95428718--95428785 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
95428708 TTTATACAAA
* * *
95428718 TAATTCGGTTAATTCTGTTAATTTGGG
1 TAATTCGGTTAATTCAGTTAATTCGAG
** *
95428745 TAATTCAATTAATTCAGTTAATTCGAT
1 TAATTCGGTTAATTCAGTTAATTCGAG
95428772 TAATTCGGTTAATT
1 TAATTCGGTTAATT
95428786 TTATACTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (27 bp):
TAATTCGGTTAATTCAGTTAATTCGAG
Found at i:95430427 original size:10 final size:10
Alignment explanation
Indices: 95430412--95430436 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
95430402 AAGAATTAAG
95430412 TAAAATAAAA
1 TAAAATAAAA
95430422 TAAAATAAAA
1 TAAAATAAAA
95430432 TAAAA
1 TAAAA
95430437 GACTAAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:95438602 original size:16 final size:16
Alignment explanation
Indices: 95438581--95438614 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95438571 TATATGAGTG
*
95438581 AAAAAAAATCTTTTTA
1 AAAAAAAATATTTTTA
*
95438597 AAAAAATATATTTTTA
1 AAAAAAAATATTTTTA
95438613 AA
1 AA
95438615 TTATCTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAAAAATATTTTTA
Found at i:95440000 original size:277 final size:279
Alignment explanation
Indices: 95439435--95439939 Score: 636
Period size: 276 Copynumber: 1.8 Consensus size: 279
95439425 GTGATAGTAT
*
95439435 CTTAAATAATAGT---T-TAGATATACAACTGATGTGGGTAATAAAGTCTGCATAATAAAATTAA
1 CTTAAATAATAGTAAGTATAGATATACAACTGATGTGGGTAATAAAGTCTGAATAATAAAATTAA
* * * **
95439496 GATATATAAATAATTCAACATAAAACTTTGATTGAATGATAAATTTAAAGTTTTACGTATTGATG
66 AATACATAAATAATTCAAAATAAAACTTT-ATT-AATGATAAATTTAAAGTTTTACACATTGATG
* * * *
95439561 TGGTTTCAAATCCCACCATAAGTTTTTTTTTTAGATAAAAAGACTAAATACTCTCGAATAATATA
129 TGGCTTCAAATCCCACCATAAGTTTTTTTTTTAAATAAAAAGACTAAATACCCTCGAACAATATA
* *
95439626 ATTTATTTTAAACACGAAAGGATATTTTTATAATTTTACTAACCGAATAGGTCACGGTTGACTCA
194 ATTTATTTTAAACACGAAAAGATATTTTTATAATTTTACTAACCGAATAGGTCACGATTGACTCA
* **
95439691 AAACACTAACTTAATTAGTGA
259 AAACACCAACTTAATTAAAGA
* *
95439712 CTTAAATAATAGTAAGTATAGATATACAATTGTTG-GAGGTAATAAAGTGC-GAATAATAAAATT
1 CTTAAATAATAGTAAGTATAGATATACAACTGATGTG-GGTAATAAAGT-CTGAATAATAAAATT
* * * * *
95439775 AAAATGCATAAATAATTTTAAAATAAAAC-TT-TT-ATGGTAAATTTAAGGTTTTACACATTGGT
64 AAAATACATAAATAA-TTCAAAATAAAACTTTATTAATGATAAATTTAAAGTTTTACACATTGAT
* *
95439837 G-GGCTT-AAATCCCACCATAAGTTTTTTTTTTAAATAAAAAGATTAAAATACCCTTGAACAATA
128 GTGGCTTCAAATCCCACCATAAGTTTTTTTTTTAAATAAAAAGACT-AAATACCCTCGAACAATA
* * *
95439900 TAATTTATTTTAAATATGAAAAGATATTTTTGTAATTTTA
192 TAATTTATTTTAAACACGAAAAGATATTTTTATAATTTTA
95439940 TTAATTGAGT
Statistics
Matches: 197, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
275 36 0.18
276 55 0.28
277 38 0.19
279 2 0.01
280 2 0.01
281 52 0.26
282 12 0.06
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37
Consensus pattern (279 bp):
CTTAAATAATAGTAAGTATAGATATACAACTGATGTGGGTAATAAAGTCTGAATAATAAAATTAA
AATACATAAATAATTCAAAATAAAACTTTATTAATGATAAATTTAAAGTTTTACACATTGATGTG
GCTTCAAATCCCACCATAAGTTTTTTTTTTAAATAAAAAGACTAAATACCCTCGAACAATATAAT
TTATTTTAAACACGAAAAGATATTTTTATAATTTTACTAACCGAATAGGTCACGATTGACTCAAA
ACACCAACTTAATTAAAGA
Found at i:95455645 original size:45 final size:47
Alignment explanation
Indices: 95455577--95455672 Score: 106
Period size: 45 Copynumber: 2.1 Consensus size: 47
95455567 TACTTGGCCA
**
95455577 AGTATAAATAATAAACAACAAATAATTTATAATTTAGTTAAA-A-TT
1 AGTATAAATAATAAACAACAAATAATAGATAATTTAGTTAAATATTT
** * * * *
95455622 AGTATAAATAATTTATAATAAATACTAGATAATTTATTTAAATATTT
1 AGTATAAATAATAAACAACAAATAATAGATAATTTAGTTAAATATTT
95455669 AGTA
1 AGTA
95455673 GGTCAAAATG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
45 34 0.83
46 1 0.02
47 6 0.15
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (47 bp):
AGTATAAATAATAAACAACAAATAATAGATAATTTAGTTAAATATTT
Found at i:95456854 original size:50 final size:50
Alignment explanation
Indices: 95456800--95456995 Score: 223
Period size: 50 Copynumber: 3.9 Consensus size: 50
95456790 GGTGGAAGTA
* *
95456800 AGTGGCAGTATATTTGCATATCAGTGGTGGCTTGTCCACAAAGTGTTATC
1 AGTGGCAGTATATCTGCATATTAGTGGTGGCTTGTCCACAAAGTGTTATC
* * * * *
95456850 AGTGGTAGTATATTTGCATATTAGTGGTGGCTTGGCCATAAAGTATTATC
1 AGTGGCAGTATATCTGCATATTAGTGGTGGCTTGTCCACAAAGTGTTATC
** * *
95456900 AGTGATAGTATATCTGCATATTAGTGGTGGATTGTCCACAAAGTCTTATC
1 AGTGGCAGTATATCTGCATATTAGTGGTGGCTTGTCCACAAAGTGTTATC
* * * * * * *
95456950 AGTGGCTGTTTATCTACAAATAAATGGTGACTTGTCCACAAA-TGTT
1 AGTGGCAGTATATCTGCATATTAGTGGTGGCTTGTCCACAAAGTGTT
95456996 GTATTGGATG
Statistics
Matches: 124, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 3 0.02
50 121 0.98
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (50 bp):
AGTGGCAGTATATCTGCATATTAGTGGTGGCTTGTCCACAAAGTGTTATC
Found at i:95458399 original size:17 final size:17
Alignment explanation
Indices: 95458377--95458412 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
95458367 CACGGCCTGG
*
95458377 CACATGATCGTGTGACC
1 CACATGATCGCGTGACC
*
95458394 CACATGGTCGCGTGACC
1 CACATGATCGCGTGACC
95458411 CA
1 CA
95458413 GACAACCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.19
Consensus pattern (17 bp):
CACATGATCGCGTGACC
Found at i:95461694 original size:31 final size:31
Alignment explanation
Indices: 95461651--95461720 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
95461641 TCAGTCTCGA
95461651 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
95461681 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
95461712 CATATCACT
1 CATATCACT
95461721 AGTCGAAGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
30 5 0.13
31 34 0.87
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:95461730 original size:30 final size:31
Alignment explanation
Indices: 95461651--95461731 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
95461641 TCAGTCTCGA
*
95461651 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGAGCCGAAGCCTTTTCATAAAT
*
95461681 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGAGCCGAAGCCTTTTCATAAAT
*
95461712 CATATCACT-AGTCGAAGCCT
1 CATATCACTGAGCCGAAGCCT
95461732 ACTGTAAGCG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 14 0.29
31 34 0.71
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (31 bp):
CATATCACTGAGCCGAAGCCTTTTCATAAAT
Found at i:95461984 original size:25 final size:25
Alignment explanation
Indices: 95461951--95462020 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
95461941 CTCTTTTAAT
*
95461951 AACTGGGGCAAAACCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
95461976 AACTAGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
95462001 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
95462021 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:95462179 original size:25 final size:25
Alignment explanation
Indices: 95462151--95462198 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
95462141 ATAATTAAAC
* *
95462151 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGAGGTAAAATAGTCATTTTTA
*
95462176 CCTAGAGGTAAAATAGTTATTTT
1 CCTAGAGGTAAAATAGTCATTTT
95462199 CATATTATAA
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:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (25 bp):
CCTAGAGGTAAAATAGTCATTTTTA
Found at i:95462886 original size:27 final size:27
Alignment explanation
Indices: 95462824--95462911 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
95462814 GTGCATATTC
*
95462824 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACA
* *
95462851 GTCACTTTACCCTACAGGGGCT-TTACA
1 GTCATTTTACCATACAGGGG-TATTACA
* * **
95462878 GTCTTTTTACC-TATTAGGGGTATTTTA
1 GTCATTTTACCATA-CAGGGGTATTACA
95462905 GTCATTT
1 GTCATTT
95462912 CATCCTACAA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
26 3 0.06
27 45 0.92
28 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:95462972 original size:27 final size:27
Alignment explanation
Indices: 95462942--95463162 Score: 115
Period size: 27 Copynumber: 8.1 Consensus size: 27
95462932 GTAAATCTAC
95462942 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
95462969 AAACAAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
** *
95462995 AGAAAGTTAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * ** **
95463025 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
*** * ***
95463052 AAATTGAGGGTATTTCAATAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
* **
95463079 AAACC-AGTTGTATTTTGGTAATTTTGT
1 AAACCAAG-GGTATTTCAGTAATTTTGT
* *
95463106 AAACCAAGGGTATTTTAATAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * *** *
95463133 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
95463160 AAA
1 AAA
95463163 TTGAGGGTAA
Statistics
Matches: 147, Mismatches: 39, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
26 3 0.02
27 117 0.80
28 9 0.06
29 17 0.12
30 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:95463047 original size:56 final size:54
Alignment explanation
Indices: 95462947--95463135 Score: 161
Period size: 54 Copynumber: 3.5 Consensus size: 54
95462937 TCTACAAACC
* * *
95462947 AAGGGTATTTCAGTAATTTTGTAAACAAATGGTATTTCT-ATAATTTTTAGAAAGTT
1 AAGGGTATTTCAGTAATTTTGTAAAC-AGTGGTATTT-TGGTAATTTTTACAAA-TT
* *
95463003 AAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTTTACAAATT
1 AAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTATTTTGGTAATTTTTACAAATT
* * *** * **
95463057 GAGGGTATTTCAATAATTTCACAAACCAGTTGTATTTTGGTAATTTTGT--AAACC
1 AAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTATTTTGGTAATTTT-TACAAATT
* *
95463111 AAGGGTATTTTAATAATTTTGTAAA
1 AAGGGTATTTCAGTAATTTTGTAAA
95463136 TCGAGGGTAA
Statistics
Matches: 108, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
54 59 0.55
55 12 0.11
56 36 0.33
57 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTTTGTAAACAGTGGTATTTTGGTAATTTTTACAAATT
Found at i:95463155 original size:81 final size:81
Alignment explanation
Indices: 95463007--95463155 Score: 183
Period size: 81 Copynumber: 1.8 Consensus size: 81
95462997 AAAGTTAAGG
* * ** * ***
95463007 GTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAATA
1 GTATTTCTGTAATTTTGTAAACCAAGGGTATTTTAATAATTTTACAAATCGAGGGTAAAACAATA
95463072 ATTTCACAAACCAGTT
66 ATTTCACAAACCAGTT
** *
95463088 GTATTT-TGGTAATTTTGTAAACCAAGGGTATTTTAATAATTTTGTAAATCGAGGGTAAAACAGT
1 GTATTTCT-GTAATTTTGTAAACCAAGGGTATTTTAATAATTTTACAAATCGAGGGTAAAACAAT
95463152 AATT
65 AATT
95463156 CTGTAAATTG
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 1 0.02
81 55 0.98
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (81 bp):
GTATTTCTGTAATTTTGTAAACCAAGGGTATTTTAATAATTTTACAAATCGAGGGTAAAACAATA
ATTTCACAAACCAGTT
Found at i:95463163 original size:27 final size:27
Alignment explanation
Indices: 95463124--95463252 Score: 186
Period size: 27 Copynumber: 4.8 Consensus size: 27
95463114 GGTATTTTAA
* * *
95463124 TAATTTTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATTGAGGGTAAAACGG
95463151 TAATTCTGTAAATTGAGGGTAAAACGG
1 TAATTCTGTAAATTGAGGGTAAAACGG
* *
95463178 TAATTCTATAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAACGG
* *
95463205 TAATTCTATAAATTGAGGATAAAACGG
1 TAATTCTGTAAATTGAGGGTAAAACGG
*
95463232 TAATTCTGTAAATCGAGGGTA
1 TAATTCTGTAAATTGAGGGTA
95463253 CTTTGGTAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
TAATTCTGTAAATTGAGGGTAAAACGG
Found at i:95463260 original size:54 final size:54
Alignment explanation
Indices: 95463132--95463277 Score: 193
Period size: 54 Copynumber: 2.7 Consensus size: 54
95463122 AATAATTTTG
** * *
95463132 TAAATCGAGGGTAAAACAGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGATAAAACGGTAATTCTA
* *
95463186 TAAATTGAGGGTAAAATGGTAATTCTATAAATTGAGGATAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGATAAAACGGTAATTCTA
*** * *
95463240 TAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGA
1 TAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGA
95463278 ACATTTTAGT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.31
Consensus pattern (54 bp):
TAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGATAAAACGGTAATTCTA
Found at i:95467485 original size:29 final size:30
Alignment explanation
Indices: 95467443--95467501 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
95467433 TATGGTTTAA
*
95467443 TGTGCAATTGTATATATG-AACTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
* *
95467472 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
95467502 GATCCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAACTTTGATTT
Found at i:95472669 original size:11 final size:11
Alignment explanation
Indices: 95472655--95472680 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95472645 TATATTTATA
95472655 TTATTAAAATT
1 TTATTAAAATT
95472666 TTATTAAAATT
1 TTATTAAAATT
95472677 TTAT
1 TTAT
95472681 AAATACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATTAAAATT
Found at i:95474825 original size:16 final size:17
Alignment explanation
Indices: 95474792--95474826 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
95474782 ATAAAATTAT
*
95474792 TAAATAATTAATACAAA
1 TAAATAATTAACACAAA
95474809 TAAATAA-TAACACAAA
1 TAAATAATTAACACAAA
95474825 TA
1 TA
95474827 TTCATTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATAATTAACACAAA
Found at i:95475281 original size:14 final size:14
Alignment explanation
Indices: 95475262--95475288 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95475252 TCATGATAAA
95475262 TAAAATACAAGTGG
1 TAAAATACAAGTGG
95475276 TAAAATACAAGTG
1 TAAAATACAAGTG
95475289 TGCAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:95477909 original size:15 final size:15
Alignment explanation
Indices: 95477886--95477935 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
95477876 TTTATTAAAT
95477886 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* *
95477901 TTATTTTGATTGAAT
1 TTATATTGATTGAAA
95477916 TTATATTGATTG-AA
1 TTATATTGATTGAAA
95477930 TTATAT
1 TTATAT
95477936 AATATATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 7 0.23
15 24 0.77
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:95478339 original size:23 final size:23
Alignment explanation
Indices: 95478309--95478390 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 23
95478299 GCTTTATCGA
* *
95478309 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
95478332 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
95478353 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
95478375 T-AGGCACTTTATGTGT
1 TCAGGCACCTCATGTGT
95478391 TATTGAACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
21 32 0.63
22 1 0.02
23 18 0.35
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:95478356 original size:21 final size:21
Alignment explanation
Indices: 95478321--95478381 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
95478311 AGGCACTTTA
95478321 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
95478344 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
95478365 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATCAGGCAC
95478382 TTTATGTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 27 0.75
23 9 0.25
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:95483749 original size:15 final size:15
Alignment explanation
Indices: 95483729--95483785 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
95483719 CGATGAATTT
95483729 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
95483744 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
95483759 ATTGAATTTATATTG
1 ATTGAATTTATATTG
95483774 ATTGAA-TTATAT
1 ATTGAATTTATAT
95483786 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:95484206 original size:22 final size:22
Alignment explanation
Indices: 95484168--95484243 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 22
95484158 AGGCACTTTA
95484168 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
95484191 TGTGTCGTATTCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
* * **
95484213 TGTGTCGT-TTTAGGCACTTTA
1 TGTGTCGTATTCAGGCACCTCG
95484234 TGTGTCGTAT
1 TGTGTCGTAT
95484244 ATTGATCAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
21 17 0.35
22 22 0.46
23 9 0.19
ACGTcount: A:0.13, C:0.21, G:0.26, T:0.39
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:95493820 original size:57 final size:56
Alignment explanation
Indices: 95493692--95493898 Score: 227
Period size: 57 Copynumber: 3.6 Consensus size: 56
95493682 ATTAACCTCA
* *
95493692 TTACAGAAAGGATTTAGCCTAGACGGGTAATCCTGATATAAGCTCTCTCGAGCATATG
1 TTACAGAAAGGATTTAGCC-AGACGGGTAATCCTGAT-TAAGCTCTTTAGAGCATATG
* ** *
95493750 TTATAGATTGGATTTAGCGCAGACGGGTAATCCAGATTAAGCTCTTTAGAGCATATG
1 TTACAGAAAGGATTTAGC-CAGACGGGTAATCCTGATTAAGCTCTTTAGAGCATATG
* * *
95493807 TTACAAAAAGGATTTAGCCAGGACTGGTAATCCTGATTAAGTTC-TTATGAGCATATG
1 TTACAGAAAGGATTTAGCCA-GACGGGTAATCCTGATTAAGCTCTTTA-GAGCATATG
** * * *
95493864 TTGGAGACAGGATTTAGCCTGGACTGGTAATCCTG
1 TTACAGAAAGGATTTAGCC-AGACGGGTAATCCTG
95493899 TTATATGATA
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
56 5 0.04
57 90 0.71
58 31 0.24
59 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (56 bp):
TTACAGAAAGGATTTAGCCAGACGGGTAATCCTGATTAAGCTCTTTAGAGCATATG
Found at i:95499022 original size:50 final size:49
Alignment explanation
Indices: 95498928--95499044 Score: 121
Period size: 49 Copynumber: 2.4 Consensus size: 49
95498918 TTGTTTTGAT
* * * * *
95498928 TTTTTTAAAATATATATTGAATTATTTATATTTTATCTAATTATATATAA
1 TTTTTTAAATTTTATTTTGAATTATTTAGATTTTATCTAATTATACAT-A
* *
95498978 TTTTTTAAATTTTATTTTGAA-TATTTAGATTTTTTTTAATTTATACATA
1 TTTTTTAAATTTTATTTTGAATTATTTAGATTTTATCTAA-TTATACATA
*
95499027 -TCTTTAACATTTTATTTT
1 TTTTTTAA-ATTTTATTTT
95499045 TAAAAAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
48 6 0.11
49 26 0.46
50 25 0.44
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (49 bp):
TTTTTTAAATTTTATTTTGAATTATTTAGATTTTATCTAATTATACATA
Found at i:95502338 original size:6 final size:6
Alignment explanation
Indices: 95502327--95502356 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
95502317 TTATTATTAA
95502327 TTATTT TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
95502357 GCTTCTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:95508755 original size:21 final size:21
Alignment explanation
Indices: 95508697--95508757 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
95508687 AGGCACTTTA
95508697 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGT-TTT-AGGCACCTCG
* * *
95508720 TGTGTCATATCAGGCACCTCG
1 TGTGTCGTTTTAGGCACCTCG
95508741 TGTGTCGTTTTAGGCAC
1 TGTGTCGTTTTAGGCAC
95508758 TTTATGTGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 24 0.75
22 1 0.03
23 7 0.22
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.34
Consensus pattern (21 bp):
TGTGTCGTTTTAGGCACCTCG
Found at i:95508765 original size:21 final size:21
Alignment explanation
Indices: 95508687--95508769 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
95508677 TTTATCGATC
* *
95508687 AGGCACTTTATGTGTCGTATTT
1 AGGCACCTCATGTGTCGT-TTT
* * * *
95508709 CAGGCACCTCGTGTGTCATATC
1 -AGGCACCTCATGTGTCGTTTT
*
95508731 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCATGTGTCGTTTT
* *
95508752 AGGCACTTTATGTGTCGT
1 AGGCACCTCATGTGTCGT
95508770 ATACTGATCA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (21 bp):
AGGCACCTCATGTGTCGTTTT
Found at i:95510375 original size:10 final size:10
Alignment explanation
Indices: 95510360--95510398 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
95510350 CCTGCAGTTG
95510360 AAATTTTTCT
1 AAATTTTTCT
95510370 AAATTTTTCCT
1 AAATTTTT-CT
95510381 AAATTTTTC-
1 AAATTTTTCT
95510390 AAATGTTTT
1 AAAT-TTTT
95510399 TGATTTAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.15
10 13 0.48
11 10 0.37
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (10 bp):
AAATTTTTCT
Found at i:95510382 original size:11 final size:11
Alignment explanation
Indices: 95510360--95510389 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
95510350 CCTGCAGTTG
95510360 AAATTTTT-CT
1 AAATTTTTCCT
95510370 AAATTTTTCCT
1 AAATTTTTCCT
95510381 AAATTTTTC
1 AAATTTTTC
95510390 AAATGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (11 bp):
AAATTTTTCCT
Found at i:95515932 original size:30 final size:30
Alignment explanation
Indices: 95515898--95515958 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
95515888 ACGGGTATGA
* *
95515898 GTCACACACGGGTAACACACATAGGCATGT
1 GTCACACACAGGCAACACACATAGGCATGT
* * *
95515928 GTCACATACAGGCAACACACATGGGCGTGT
1 GTCACACACAGGCAACACACATAGGCATGT
95515958 G
1 G
95515959 ACCTAAGTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.16
Consensus pattern (30 bp):
GTCACACACAGGCAACACACATAGGCATGT
Found at i:95516028 original size:30 final size:30
Alignment explanation
Indices: 95515988--95516053 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
95515978 ACAGTCTGGC
* *
95515988 CACATAGGCATGAGCCACACGCAGGCAACA
1 CACATGGGCATGAGCCACACACAGGCAACA
* * *
95516018 CACATGGGCATGTGTCACACACGGGCAACA
1 CACATGGGCATGAGCCACACACAGGCAACA
95516048 CACATG
1 CACATG
95516054 AGCGTGTGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.32, G:0.24, T:0.11
Consensus pattern (30 bp):
CACATGGGCATGAGCCACACACAGGCAACA
Found at i:95517450 original size:20 final size:20
Alignment explanation
Indices: 95517425--95517463 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95517415 GGTTAGAAAG
95517425 AAAAATGTGAAA-AAAAAGAA
1 AAAAAT-TGAAAGAAAAAGAA
*
95517445 AAAAATTTAAAGAAAAAGA
1 AAAAATTGAAAGAAAAAGA
95517464 GAGAGTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (20 bp):
AAAAATTGAAAGAAAAAGAA
Found at i:95517879 original size:12 final size:14
Alignment explanation
Indices: 95517862--95517894 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
95517852 TCCAATTCTC
95517862 ATAAAATTATT-A-
1 ATAAAATTATTGAT
95517874 ATAAAATTATTGAT
1 ATAAAATTATTGAT
95517888 ATAAAAT
1 ATAAAAT
95517895 CATTTTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
ATAAAATTATTGAT
Found at i:95518022 original size:31 final size:30
Alignment explanation
Indices: 95517987--95518059 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
95517977 TGTATGATTG
95517987 AATCAAAATTAAAATT-TCAT-ATGTACATTTA
1 AATCAAAATTAAAATTAT-ATAAT-TACA-TTA
* *
95518018 AATCACAATAAAAATTATATAATTACATTA
1 AATCAAAATTAAAATTATATAATTACATTA
*
95518048 AATTAAAATTAA
1 AATCAAAATTAA
95518060 TATATCAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 12 0.34
31 20 0.57
32 3 0.09
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (30 bp):
AATCAAAATTAAAATTATATAATTACATTA
Found at i:95524026 original size:2 final size:2
Alignment explanation
Indices: 95523975--95524006 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
95523965 TGGAAACTGT
95523975 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
95524007 AGGGTTTGAG
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:95524044 original size:21 final size:21
Alignment explanation
Indices: 95523993--95524037 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
95523983 GAGAGAGAGA
95523993 GAGAGAGAGAGAGAAGGGTTT
1 GAGAGAGAGAGAGAAGGGTTT
95524014 GAGAGAGAGAGAGAAGGGTTT
1 GAGAGAGAGAGAGAAGGGTTT
95524035 GAG
1 GAG
95524038 TTTGAGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.49, T:0.13
Consensus pattern (21 bp):
GAGAGAGAGAGAGAAGGGTTT
Found at i:95525227 original size:2 final size:2
Alignment explanation
Indices: 95525220--95525248 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
95525210 AAATGAGGAA
95525220 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95525249 AAACACTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95525684 original size:18 final size:18
Alignment explanation
Indices: 95525645--95525688 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
95525635 TATTTTAAAT
*
95525645 AATTGAAATTTAAATGTC
1 AATTCAAATTTAAATGTC
*
95525663 AATTCAAATTTGAAT-TC
1 AATTCAAATTTAAATGTC
95525680 AAATTCAAA
1 -AATTCAAA
95525689 GATAATTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (18 bp):
AATTCAAATTTAAATGTC
Found at i:95539281 original size:14 final size:14
Alignment explanation
Indices: 95539262--95539292 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
95539252 TTTGATTGGT
*
95539262 GGAAAATATTTTCC
1 GGAAAATATTTTAC
95539276 GGAAAATATTTTAC
1 GGAAAATATTTTAC
95539290 GGA
1 GGA
95539293 TTTTCCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (14 bp):
GGAAAATATTTTAC
Found at i:95539790 original size:27 final size:27
Alignment explanation
Indices: 95539703--95539801 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
95539693 AAAGGTATAT
95539703 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
* * * *
95539730 TTTCTGGGT---TAGTTCCTTTATGTTATTGG
1 TTTCT-TGTCCATAG-T--TTTGTG-AATCGG
95539759 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
95539786 TTTCTTGTCCATAGTT
1 TTTCTTGTCCATAGTT
95539802 AGAAAGATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 25 0.45
28 14 0.25
29 9 0.16
30 1 0.02
31 3 0.05
ACGTcount: A:0.13, C:0.14, G:0.21, T:0.52
Consensus pattern (27 bp):
TTTCTTGTCCATAGTTTTGTGAATCGG
Found at i:95540596 original size:29 final size:29
Alignment explanation
Indices: 95540563--95540622 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
95540553 CTGTAACATT
95540563 CCCCTCGAGGTTATGTCGTTTGGGTTTAA
1 CCCCTCGAGGTTATGTCGTTTGGGTTTAA
95540592 CCCCTCGAGGTTATGTCGTTTGGGTTTAA
1 CCCCTCGAGGTTATGTCGTTTGGGTTTAA
95540621 CC
1 CC
95540623 TACATGGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.13, C:0.23, G:0.27, T:0.37
Consensus pattern (29 bp):
CCCCTCGAGGTTATGTCGTTTGGGTTTAA
Found at i:95541925 original size:26 final size:26
Alignment explanation
Indices: 95541896--95541950 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
95541886 GTACATCCTC
95541896 AAACT-ATAATCTATAATCTAGATATT
1 AAACTGAT-ATCTATAATCTAGATATT
* * *
95541922 AAACTGGTCTCTATAATCTAGATTTT
1 AAACTGATATCTATAATCTAGATATT
95541948 AAA
1 AAA
95541951 TTGGTCTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (26 bp):
AAACTGATATCTATAATCTAGATATT
Found at i:95541955 original size:26 final size:26
Alignment explanation
Indices: 95541905--95541963 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
95541895 CAAACTATAA
95541905 TCTATAATCTAGATATTAAACTGGTC
1 TCTATAATCTAGATATTAAACTGGTC
* *
95541931 TCTATAATCTAGATTTTAAATTGGTC
1 TCTATAATCTAGATATTAAACTGGTC
95541957 TCTATAA
1 TCTATAA
95541964 ATTTTGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (26 bp):
TCTATAATCTAGATATTAAACTGGTC
Found at i:95542307 original size:14 final size:15
Alignment explanation
Indices: 95542285--95542361 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
95542275 CAATTAAACA
95542285 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
95542299 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
95542314 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
95542334 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
95542348 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
95542362 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:95542326 original size:20 final size:20
Alignment explanation
Indices: 95542301--95542340 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
95542291 AATATTTTCC
*
95542301 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
95542321 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
95542341 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:95542346 original size:34 final size:35
Alignment explanation
Indices: 95542289--95542355 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
95542279 TAAACACCAG
*
95542289 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
95542324 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
95542356 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:95542362 original size:14 final size:14
Alignment explanation
Indices: 95542324--95542363 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
95542314 ACAGAAAAGT
*
95542324 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
95542338 AAATCATTTTACGG
1 AAAACATTTTACAG
95542352 AAAACATTTTAC
1 AAAACATTTTAC
95542364 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:95546306 original size:18 final size:18
Alignment explanation
Indices: 95546280--95546315 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
95546270 AAAAACTATT
95546280 TTTACATATATTAATAAA
1 TTTACATATATTAATAAA
*
95546298 TTTATATATATTAATAAA
1 TTTACATATATTAATAAA
95546316 ACTATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTACATATATTAATAAA
Found at i:95546321 original size:18 final size:18
Alignment explanation
Indices: 95546285--95546322 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
95546275 CTATTTTTAC
**
95546285 ATATATTAATAAATTTAT
1 ATATATTAATAAAACTAT
95546303 ATATATTAATAAAACTAT
1 ATATATTAATAAAACTAT
95546321 AT
1 AT
95546323 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATATTAATAAAACTAT
Found at i:95546675 original size:13 final size:14
Alignment explanation
Indices: 95546657--95546685 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
95546647 CTTCAACCTT
95546657 AAGAAAAA-TTTGA
1 AAGAAAAATTTTGA
95546670 AAGAAAAATTTTGA
1 AAGAAAAATTTTGA
95546684 AA
1 AA
95546686 TCAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (14 bp):
AAGAAAAATTTTGA
Found at i:95547632 original size:132 final size:132
Alignment explanation
Indices: 95547395--95547659 Score: 521
Period size: 132 Copynumber: 2.0 Consensus size: 132
95547385 ACATAGTTAC
95547395 ACGTCTAACAAGGGTGATTACTGAGTTCATTTGTTTCAAAAGTGATTGTCCGATATGGTGCAAGA
1 ACGTCTAACAAGGGTGATTACTGAGTTCATTTGTTTCAAAAGTGATTGTCCGATATGGTGCAAGA
95547460 CGTCAATCTCAGAGTGACAACAATCAAGACTAGACAATCATGTCTACTTTCAAACTTAAATACTA
66 CGTCAATCTCAGAGTGACAACAATCAAGACTAGACAATCATGTCTACTTTCAAACTTAAATACTA
95547525 AT
131 AT
*
95547527 ACGTCTAACAAGGGTGATTACTGATTTCATTTGTTTCAAAAGTGATTGTCCGATATGGTGCAAGA
1 ACGTCTAACAAGGGTGATTACTGAGTTCATTTGTTTCAAAAGTGATTGTCCGATATGGTGCAAGA
95547592 CGTCAATCTCAGAGTGACAACAATCAAGACTAGACAATCATGTCTACTTTCAAACTTAAATACTA
66 CGTCAATCTCAGAGTGACAACAATCAAGACTAGACAATCATGTCTACTTTCAAACTTAAATACTA
95547657 AT
131 AT
95547659 A
1 A
95547660 TCAAACTTAA
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (132 bp):
ACGTCTAACAAGGGTGATTACTGAGTTCATTTGTTTCAAAAGTGATTGTCCGATATGGTGCAAGA
CGTCAATCTCAGAGTGACAACAATCAAGACTAGACAATCATGTCTACTTTCAAACTTAAATACTA
AT
Found at i:95562589 original size:17 final size:16
Alignment explanation
Indices: 95562567--95562601 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
95562557 CTAAATGTGC
*
95562567 ATTTTTAATAATTTTAA
1 ATTTTTAA-AAATTTAA
95562584 ATTTTTAAAAATTTAA
1 ATTTTTAAAAATTTAA
95562600 AT
1 AT
95562602 ATATATTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTTAAAAATTTAA
Found at i:95564798 original size:15 final size:15
Alignment explanation
Indices: 95564753--95564798 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
95564743 TTAATTTCCC
**
95564753 TCCTTTTCACTTTTT
1 TCCTTTTCTTTTTTT
*
95564768 TCCTTTTCTTATTTT
1 TCCTTTTCTTTTTTT
*
95564783 TCTTTTTCTTTTTTT
1 TCCTTTTCTTTTTTT
95564798 T
1 T
95564799 TCTGGGTGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (15 bp):
TCCTTTTCTTTTTTT
Found at i:95569673 original size:69 final size:69
Alignment explanation
Indices: 95569570--95569762 Score: 192
Period size: 69 Copynumber: 2.8 Consensus size: 69
95569560 ATATGACGGT
** * * **
95569570 TGGGAGCTTTAGCTTGCACTAAATGTTTGGAGGCTCTGGTGTTTAACCTGCGAG-TATTAAAATG
1 TGGGAGCTTTAGCTCACGCTAACTGTTTAAAGGCTCTGGTGTTTAACCTGCGAGCT-TTAAAATG
95569634 ACAAC
65 ACAAC
* * * * * * *
95569639 TGGGAGTTTTAGCTCATGCTAACTTTTTAAAGGCTGTGGTGTTTAGCCTACGAGCTTTAAGATGA
1 TGGGAGCTTTAGCTCACGCTAACTGTTTAAAGGCTCTGGTGTTTAACCTGCGAGCTTTAAAATGA
*
95569704 CAGC
66 CAAC
* * * *
95569708 TTGGAGCTTTAGCTCGCGCTAACTGTTTAGAGGTTGC-GGTGTTTAACCTGCGAGC
1 TGGGAGCTTTAGCTCACGCTAACTGTTTAAAGGCT-CTGGTGTTTAACCTGCGAGC
95569763 CTTAGTTTGA
Statistics
Matches: 98, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
69 97 0.99
70 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (69 bp):
TGGGAGCTTTAGCTCACGCTAACTGTTTAAAGGCTCTGGTGTTTAACCTGCGAGCTTTAAAATGA
CAAC
Found at i:95569783 original size:69 final size:70
Alignment explanation
Indices: 95569518--95570115 Score: 368
Period size: 70 Copynumber: 8.6 Consensus size: 70
95569508 GCGAGCTCAA
* * * * * *
95569518 GCTAACTATTTAGAGGATGCAGTGTCTAACCTGTGAGCCTTAATATGACGGTTGGGAGCTTT-AG
1 GCTAACTATTTAGAGGCTGCGGTGTTTAACCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGAG
*
95569582 CTTGC
66 CTCGC
* * * * ** ** ** *
95569587 ACTAAATGTTTGGAGGCT-CTGGTGTTTAACCTGCGAGTATTAAAATGACAACTGGGAG-TTTTA
1 GCTAACTATTTAGAGGCTGC-GGTGTTTAACCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGA
**
95569650 GCTCAT
65 GCTCGC
* * * * * *
95569656 GCTAACTTTTTAAAGGCTGTGGTGTTTAGCCTACGAGCTTTAAG-ATGACAGCTT-GGAGCTTT-
1 GCTAACTATTTAGAGGCTGCGGTGTTTAACCTGCGAGCCTT-AGTATGACAG-TTGGGAGCTTTG
95569718 AGCTCGC
64 AGCTCGC
* * * * * *
95569725 GCTAACTGTTTAGAGGTTGCGGTGTTTAACCTGCGAGCCTTAGTTTGATAGTTGGGAGCTTTAAA
1 GCTAACTATTTAGAGGCTGCGGTGTTTAACCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGAG
* **
95569790 TTCTT
66 CTCGC
* ** * * * * * ** *
95569795 ACTAACTATTTAGA-GCTTATGGT-TTGATCTTGCAAACCTTAGTATGACAGTTGAAAGCTTTAA
1 GCTAACTATTTAGAGGC-TGCGGTGTTTAACCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGA
* ***
95569858 ACTATT
65 GCTCGC
* * * * * *
95569864 GCTAACTATTTGGAGGCTACGGTATTGAACCTGCGAACCTTAGTATGACAGTTGGGAGCTTTGAA
1 GCTAACTATTTAGAGGCTGCGGTGTTTAACCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGAG
*
95569929 CTCTC
66 CTCGC
* ** * * *
95569934 GCTAACTATTTGGAGGCTGTAGTATTGAACCTGCGAGCCTTAGTATGATAGTTGGGAGCTTTGAG
1 GCTAACTATTTAGAGGCTGCGGTGTTTAACCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGAG
**
95569999 CTCAT
66 CTCGC
* * * * * ** * *
95570004 GCTAACTATTCAAAGGCTACTGTATTGCACCTGCGAGCCTTAGTATGACAGGTGAGAGCTTTGAG
1 GCTAACTATTTAGAGGCTGCGGTGTTTAACCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGAG
95570069 CTCGC
66 CTCGC
* * * * * *
95570074 GCTAATTGTTTGGAGGTTGTGGT-ATTACACCTGCGAGCCTTA
1 GCTAACTATTTAGAGGCTGCGGTGTTTA-ACCTGCGAGCCTTA
95570116 ATGTGACAAG
Statistics
Matches: 412, Mismatches: 104, Indels: 25
0.76 0.19 0.05
Matches are distributed among these distances:
68 8 0.02
69 192 0.47
70 212 0.51
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (70 bp):
GCTAACTATTTAGAGGCTGCGGTGTTTAACCTGCGAGCCTTAGTATGACAGTTGGGAGCTTTGAG
CTCGC
Found at i:95572548 original size:20 final size:19
Alignment explanation
Indices: 95572505--95572552 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
95572495 ATTACAAAAT
*
95572505 AATTTCAAAATAATTTTTA
1 AATTTCAAAATAATTTTAA
95572524 AATTTCAAAAT-ATTTATAAA
1 AATTTCAAAATAATTT-T-AA
95572544 AATTTCAAA
1 AATTTCAAA
95572553 TTGTATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 10 0.38
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTCAAAATAATTTTAA
Found at i:95572593 original size:19 final size:20
Alignment explanation
Indices: 95572550--95572586 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95572540 TAAAAATTTC
95572550 AAATTGTATATATATTTTTA
1 AAATTGTATATATATTTTTA
95572570 AAATTGTA-ATAT-TTTTT
1 AAATTGTATATATATTTTT
95572587 TTTAATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
AAATTGTATATATATTTTTA
Found at i:95586352 original size:21 final size:20
Alignment explanation
Indices: 95586313--95586371 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 20
95586303 ACAAATAGTA
95586313 TATATATTAT-TTATATATTAT
1 TATATATT-TGTT-TATATTAT
95586334 CTATCATA-TTGTTTATATTAT
1 -TAT-ATATTTGTTTATATTAT
95586355 TATATATTTTGTTTATA
1 TATATA-TTTGTTTATA
95586372 AATTTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
19 3 0.09
20 3 0.09
21 18 0.55
22 6 0.18
23 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TATATATTTGTTTATATTAT
Found at i:95586997 original size:42 final size:45
Alignment explanation
Indices: 95586933--95587019 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 45
95586923 TTTTCTATGA
*
95586933 TATATTTTGCATGAAATATTAATGCAT-GTAT-ATTTATGTCATT
1 TATATTTTGCATGAAAGATTAATGCATAGTATAATTTATGTCATT
* * *
95586976 TATA-TTTGCATGAAAGGTTAATGTATATTATAATTTATGTCATT
1 TATATTTTGCATGAAAGATTAATGCATAGTATAATTTATGTCATT
95587020 ATTCATCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 19 0.50
43 7 0.18
44 12 0.32
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (45 bp):
TATATTTTGCATGAAAGATTAATGCATAGTATAATTTATGTCATT
Found at i:95589132 original size:38 final size:38
Alignment explanation
Indices: 95589072--95589181 Score: 121
Period size: 38 Copynumber: 2.9 Consensus size: 38
95589062 AACGTAACTT
* * * *
95589072 TATTCGGGCTCCGTACCTAGCAGGTTTTGTGTCAGTGA
1 TATTCGGGCTCCCTACCGAGCAGGCTTTGTGCCAGTGA
* *
95589110 TATTCGGGCTCCCTGCCGAGCAGGCTTTGTGCCGGTGA
1 TATTCGGGCTCCCTACCGAGCAGGCTTTGTGCCAGTGA
** * * *
95589148 TATTCGGGCTCTGTGCCTAGCAAGCTTTGTGCCA
1 TATTCGGGCTCCCTACCGAGCAGGCTTTGTGCCA
95589182 ATGTATTATA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.14, C:0.25, G:0.30, T:0.31
Consensus pattern (38 bp):
TATTCGGGCTCCCTACCGAGCAGGCTTTGTGCCAGTGA
Found at i:95589205 original size:25 final size:25
Alignment explanation
Indices: 95589171--95589224 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
95589161 TGCCTAGCAA
95589171 GCTTTGTGCCAATGTATTATATCAG
1 GCTTTGTGCCAATGTATTATATCAG
* *
95589196 GCTTTGTGCCAGTGTGTTATATCAG
1 GCTTTGTGCCAATGTATTATATCAG
95589221 GCTT
1 GCTT
95589225 CGAGCCTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.41
Consensus pattern (25 bp):
GCTTTGTGCCAATGTATTATATCAG
Found at i:95590199 original size:144 final size:144
Alignment explanation
Indices: 95589939--95590228 Score: 580
Period size: 144 Copynumber: 2.0 Consensus size: 144
95589929 TTTATTAAAA
95589939 TGAAATGTTCTGTTTAAATTTTATACGAGCTTACTAAGCATTCATTGCTTACGTAGTTATTTTTC
1 TGAAATGTTCTGTTTAAATTTTATACGAGCTTACTAAGCATTCATTGCTTACGTAGTTATTTTTC
95590004 CTTTACTTTACAGATTATCAGAAGCTCGATCGGGTTGAAAGCTAGTCAGAGATCCATCACACTAT
66 CTTTACTTTACAGATTATCAGAAGCTCGATCGGGTTGAAAGCTAGTCAGAGATCCATCACACTAT
95590069 CCATTGATTTCATC
131 CCATTGATTTCATC
95590083 TGAAATGTTCTGTTTAAATTTTATACGAGCTTACTAAGCATTCATTGCTTACGTAGTTATTTTTC
1 TGAAATGTTCTGTTTAAATTTTATACGAGCTTACTAAGCATTCATTGCTTACGTAGTTATTTTTC
95590148 CTTTACTTTACAGATTATCAGAAGCTCGATCGGGTTGAAAGCTAGTCAGAGATCCATCACACTAT
66 CTTTACTTTACAGATTATCAGAAGCTCGATCGGGTTGAAAGCTAGTCAGAGATCCATCACACTAT
95590213 CCATTGATTTCATC
131 CCATTGATTTCATC
95590227 TG
1 TG
95590229 TAGATTTGAT
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 146 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (144 bp):
TGAAATGTTCTGTTTAAATTTTATACGAGCTTACTAAGCATTCATTGCTTACGTAGTTATTTTTC
CTTTACTTTACAGATTATCAGAAGCTCGATCGGGTTGAAAGCTAGTCAGAGATCCATCACACTAT
CCATTGATTTCATC
Found at i:95593856 original size:44 final size:44
Alignment explanation
Indices: 95593768--95593977 Score: 258
Period size: 44 Copynumber: 4.8 Consensus size: 44
95593758 CTCCTTGCTT
* * * * * * * *
95593768 AATACGGAGAGGCAAAATTTGTCATCTTTGATCTGCTTTCTGTC
1 AATACAGAGACGCCAAATCTGTTATCTTCGATATGCTCTCTGTC
* ** * *
95593812 AATACAGAGACGCCACATCTACTATCTTCAATATGCTCTTTGTC
1 AATACAGAGACGCCAAATCTGTTATCTTCGATATGCTCTCTGTC
* *
95593856 AATACAGAGACGCCAAACCTGTTATCTTCGATTTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGTTATCTTCGATATGCTCTCTGTC
*
95593900 AATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGTTATCTTCGATATGCTCTCTGTC
* *
95593944 AATATAGAGACGCCAAATCTGTCATCTTCGATAT
1 AATACAGAGACGCCAAATCTGTTATCTTCGATAT
95593978 ACAGAGACGA
Statistics
Matches: 141, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 141 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTGTTATCTTCGATATGCTCTCTGTC
Found at i:95593978 original size:29 final size:30
Alignment explanation
Indices: 95593945--95594005 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
95593935 CTCTCTGTCA
*
95593945 ATAT-AGAGACGCCAAATCTGTCATCTTCG
1 ATATAAGAGACGACAAATCTGTCATCTTCG
*
95593974 ATATACAGAGACGACAAATCTGTTATCTTCG
1 ATATA-AGAGACGACAAATCTGTCATCTTCG
95594005 A
1 A
95594006 CCTGCTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 4 0.14
31 24 0.86
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (30 bp):
ATATAAGAGACGACAAATCTGTCATCTTCG
Found at i:95594028 original size:75 final size:75
Alignment explanation
Indices: 95593901--95594050 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 75
95593891 CTCTCTGTCA
* * *
95593901 ATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATATAGAGACGCCAAATCTGT
1 ATACAGAGACGACAAATCTGTTATCTTCGACCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
95593966 CATCTTCGAT
66 CATCTTCGAT
* *
95593976 ATACAGAGACGACAAATCTGTTATCTTCGACCTGCTTTCTGTCAATACAGAGACGCCAAATTTGT
1 ATACAGAGACGACAAATCTGTTATCTTCGACCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
95594041 CATCTTCGAT
66 CATCTTCGAT
95594051 CTGCTCTCTG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (75 bp):
ATACAGAGACGACAAATCTGTTATCTTCGACCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
CATCTTCGAT
Found at i:95594046 original size:44 final size:44
Alignment explanation
Indices: 95593976--95594248 Score: 429
Period size: 44 Copynumber: 6.2 Consensus size: 44
95593966 CATCTTCGAT
* * * *
95593976 ATACAGAGACGACAAATCTGTTATCTTCGACCTGCTTTCTGTCA
1 ATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCA
*
95594020 ATACAGAGACGCCAAATTTGTCATCTTCGATCTGCTCTCTGTCA
1 ATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCA
** *
95594064 ATACAGAGACGAAAAATCTGTTATCTTCGATCTGCTCTCTGTCA
1 ATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCA
* *
95594108 ATACAGAGAAGCCAAATCTGTCATCTTTGATCTGCTCTCTGTCA
1 ATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCA
95594152 ATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCA
1 ATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCA
* * *
95594196 ATACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCTGACA
1 ATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCA
95594240 ATACAGAGA
1 ATACAGAGA
95594249 TTCCAGATCG
Statistics
Matches: 210, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 210 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (44 bp):
ATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTCA
Found at i:95594162 original size:207 final size:207
Alignment explanation
Indices: 95593782--95594182 Score: 624
Period size: 207 Copynumber: 1.9 Consensus size: 207
95593772 CGGAGAGGCA
* * * *
95593782 AAATTTGTCATCTTTGATCTGCTTTCTGTCAATACAGAGACGCCACATCTACTATCTTCAATATG
1 AAATCTGTCATCTTCGACCTGCTTTCTGTCAATACAGAGACGCCAAATCTACTATCTTCAATATG
* ** * *
95593847 CTCTTTGTCAATACAGAGACGCCAAACCTGTTATCTTCGATTTGCTCTCTGTCAATACAGAGACG
66 CTCTCTGTCAATACAGAGACGAAAAACCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGAAG
* *
95593912 CCAAATCTGTTATCTTCGATCTGCTCTCTGTCAATATAGAGACGCCAAATCTGTCATCTTCGATA
131 CCAAATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCTTCGATA
95593977 TACAGAGACGAC
196 TACAGAGACGAC
* ** * *
95593989 AAATCTGTTATCTTCGACCTGCTTTCTGTCAATACAGAGACGCCAAAT-TTGTCATCTTCGATCT
1 AAATCTGTCATCTTCGACCTGCTTTCTGTCAATACAGAGACGCCAAATCTACT-ATCTTCAATAT
*
95594053 GCTCTCTGTCAATACAGAGACGAAAAATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGAA
65 GCTCTCTGTCAATACAGAGACGAAAAACCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGAA
*
95594118 GCCAAATCTGTCATCTTTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCTTCGAT
130 GCCAAATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCTTCGAT
95594183 CTGCTCTCTG
Statistics
Matches: 175, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
206 2 0.01
207 173 0.99
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (207 bp):
AAATCTGTCATCTTCGACCTGCTTTCTGTCAATACAGAGACGCCAAATCTACTATCTTCAATATG
CTCTCTGTCAATACAGAGACGAAAAACCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGAAG
CCAAATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCTTCGATA
TACAGAGACGAC
Found at i:95594493 original size:27 final size:27
Alignment explanation
Indices: 95594462--95594513 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
95594452 TCATACTTAT
95594462 CTCGTATGCTTTGAATCAAATTGGTAG
1 CTCGTATGCTTTGAATCAAATTGGTAG
95594489 CTCGTATGCTTTGAATCAAATTGGT
1 CTCGTATGCTTTGAATCAAATTGGT
95594514 CCTATTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (27 bp):
CTCGTATGCTTTGAATCAAATTGGTAG
Found at i:95606379 original size:17 final size:17
Alignment explanation
Indices: 95606337--95606382 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
95606327 TTTTAATTTT
95606337 TATATACTAAT-AAATAA
1 TATATA-TAATGAAATAA
95606354 TA-A-ATAATGAAATAA
1 TATATATAATGAAATAA
95606369 TATATATAATGAAA
1 TATATATAATGAAA
95606383 GGAAGATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 2 0.08
17 11 0.42
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
TATATATAATGAAATAA
Found at i:95606426 original size:17 final size:17
Alignment explanation
Indices: 95606403--95606453 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
95606393 ATAGGGAATA
95606403 ATATAATAAAATATGAT
1 ATATAATAAAATATGAT
* *
95606420 ATGTAATAAAATATGAA
1 ATATAATAAAATATGAT
*
95606437 ATATAA-ATAATATGAT
1 ATATAATAAAATATGAT
95606453 A
1 A
95606454 AAATAACATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (17 bp):
ATATAATAAAATATGAT
Found at i:95606745 original size:30 final size:30
Alignment explanation
Indices: 95606711--95606768 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
95606701 ATAATGGCCA
*
95606711 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTGAAACAAAAATAAAAGG
* ** *
95606741 TTAGGGCCAAATTTTAATAAAAATAAAA
1 TTAGGACCAAATTGAAACAAAAATAAAA
95606769 TGAAATGGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (30 bp):
TTAGGACCAAATTGAAACAAAAATAAAAGG
Found at i:95608607 original size:38 final size:38
Alignment explanation
Indices: 95608522--95608619 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 38
95608512 GAATAAAATG
* * *
95608522 ATTATAATTACCATAATTATAATAATGTTTGACAAAAA
1 ATTATAATTACAATAATTATAATAATATTCGACAAAAA
* * **
95608560 AATACAATTACAATAATTATAATAATATTCGATC-GTAA
1 ATTATAATTACAATAATTATAATAATATTCGA-CAAAAA
95608598 ATTATAATTACAATAATTATAA
1 ATTATAATTACAATAATTATAA
95608620 CAAGAATTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 49 0.98
39 1 0.02
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (38 bp):
ATTATAATTACAATAATTATAATAATATTCGACAAAAA
Found at i:95610899 original size:30 final size:30
Alignment explanation
Indices: 95610863--95610921 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
95610853 AAATAATTCA
* *
95610863 ACTCTTTTTGAAAGGTTGA-TGGTAAAATTG
1 ACTCTTTTTAAAAAGTTGATTGG-AAAATTG
95610893 ACTCTTTTTAAAAAGTTGATTGGAAAATT
1 ACTCTTTTTAAAAAGTTGATTGGAAAATT
95610922 TAGCTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.41
Consensus pattern (30 bp):
ACTCTTTTTAAAAAGTTGATTGGAAAATTG
Found at i:95611914 original size:2 final size:2
Alignment explanation
Indices: 95611907--95611932 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95611897 CGTAAACATC
95611907 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
95611933 ATACTAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:95616377 original size:13 final size:13
Alignment explanation
Indices: 95616361--95616386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95616351 AACTATAAGA
95616361 AGCTTAAAATCAT
1 AGCTTAAAATCAT
95616374 AGCTTAAAATCAT
1 AGCTTAAAATCAT
95616387 CATCCTCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
AGCTTAAAATCAT
Found at i:95620217 original size:27 final size:27
Alignment explanation
Indices: 95620187--95620243 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
95620177 CTCAACTTTT
95620187 TAAAATCTGTATTTTCAGTCCTAATTC
1 TAAAATCTGTATTTTCAGTCCTAATTC
*
95620214 TAAAATGTGTATTTTCAGTCCTAATTC
1 TAAAATCTGTATTTTCAGTCCTAATTC
95620241 TAA
1 TAA
95620244 TTTTTACTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.44
Consensus pattern (27 bp):
TAAAATCTGTATTTTCAGTCCTAATTC
Found at i:95621530 original size:21 final size:21
Alignment explanation
Indices: 95621493--95621533 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
95621483 ATAAAAATAA
95621493 AAAAATAAAATTAAGAATTTGG
1 AAAAATAAAA-TAAGAATTTGG
95621515 AAAAATAAAA-ACAGAATTT
1 AAAAATAAAATA-AGAATTT
95621534 AAAGTGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.24
Consensus pattern (21 bp):
AAAAATAAAATAAGAATTTGG
Found at i:95621565 original size:17 final size:18
Alignment explanation
Indices: 95621545--95621578 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
95621535 AAGTGAATTG
95621545 AAATTGC-AAAATTAAAT
1 AAATTGCAAAAATTAAAT
95621562 AAATTGCAAAAATTAAA
1 AAATTGCAAAAATTAAA
95621579 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTGCAAAAATTAAAT
Found at i:95622301 original size:10 final size:10
Alignment explanation
Indices: 95622273--95622333 Score: 63
Period size: 10 Copynumber: 6.1 Consensus size: 10
95622263 AATGAAATTC
*
95622273 TAAAAATAAA
1 TAAAGATAAA
95622283 TACAA-ATAAA
1 TA-AAGATAAA
* *
95622293 CAAAGATAAT
1 TAAAGATAAA
95622303 TAAAGATAAA
1 TAAAGATAAA
95622313 TAAAGATAAA
1 TAAAGATAAA
95622323 TGAAA-ATAAA
1 T-AAAGATAAA
95622333 T
1 T
95622334 CCTAAAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (10 bp):
TAAAGATAAA
Found at i:95622345 original size:23 final size:26
Alignment explanation
Indices: 95622319--95622369 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 26
95622309 TAAATAAAGA
*
95622319 TAAATGAAAAT-AAATCC-TAA-AAT
1 TAAATCAAAATAAAATCCTTAATAAT
*
95622342 TAAATCTAAATAAAATCCTTAATAAT
1 TAAATCAAAATAAAATCCTTAATAAT
95622368 TA
1 TA
95622370 TCCTAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 6 0.26
25 3 0.13
26 5 0.22
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (26 bp):
TAAATCAAAATAAAATCCTTAATAAT
Found at i:95623928 original size:20 final size:20
Alignment explanation
Indices: 95623902--95623954 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
95623892 CAAGGATAAG
95623902 GTATTGATACTTTGTGAAA-
1 GTATTGATACTTTGTGAAAT
*
95623921 GATATTGATACTTTGTTAAAT
1 G-TATTGATACTTTGTGAAAT
*
95623942 GTATCGATACTTT
1 GTATTGATACTTT
95623955 TGATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (20 bp):
GTATTGATACTTTGTGAAAT
Found at i:95631815 original size:30 final size:30
Alignment explanation
Indices: 95631779--95631840 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
95631769 ATAAAAGGTC
95631779 ACTCTTTCTACTATCTCTGCATGTAAACAA
1 ACTCTTTCTACTATCTCTGCATGTAAACAA
*
95631809 ACTCTTTCTACTATTTCTGCATGTAAACAA
1 ACTCTTTCTACTATCTCTGCATGTAAACAA
95631839 AC
1 AC
95631841 ACACCCTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (30 bp):
ACTCTTTCTACTATCTCTGCATGTAAACAA
Found at i:95633776 original size:29 final size:29
Alignment explanation
Indices: 95633735--95633791 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
95633725 CCACTTGACA
* * * *
95633735 CGAATTCTTAATGAACAAGTTCTTCATCG
1 CGAACTCTCAATGAACAAATTCTCCATCG
95633764 CGAACTCTCAATGAACAAATTCTCCATC
1 CGAACTCTCAATGAACAAATTCTCCATC
95633792 TCTTCCATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (29 bp):
CGAACTCTCAATGAACAAATTCTCCATCG
Found at i:95638604 original size:21 final size:21
Alignment explanation
Indices: 95638580--95638661 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
95638570 GACACATAAA
95638580 GTACCTAAAACGACACACGAG
1 GTACCTAAAACGACACACGAG
* *
95638601 GTACCTGATACGACACACGAG
1 GTACCTAAAACGACACACGAG
* * *
95638622 GTGCCTGATACGACACACGAG
1 GTACCTAAAACGACACACGAG
*
95638643 GTGCCTGAAATACGACACA
1 GTACCT-AAA-ACGACACA
95638662 TAAAGTGCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 45 0.83
22 1 0.02
23 8 0.15
ACGTcount: A:0.35, C:0.28, G:0.23, T:0.13
Consensus pattern (21 bp):
GTACCTAAAACGACACACGAG
Found at i:95638614 original size:42 final size:43
Alignment explanation
Indices: 95638566--95638667 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 43
95638556 CCTGATCAGT
95638566 ATACGACACATAAAGTACCTAAAACGACACACGAGGTACCTG-
1 ATACGACACATAAAGTACCTAAAACGACACACGAGGTACCTGA
** * * * * *
95638608 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTACCTAAAACGACACACGAGGTACCTG-A
95638652 ATACGACACATAAAGT
1 ATACGACACATAAAGT
95638668 GCCTGATCAG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 35 0.73
44 13 0.27
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (43 bp):
ATACGACACATAAAGTACCTAAAACGACACACGAGGTACCTGA
Found at i:95638618 original size:23 final size:21
Alignment explanation
Indices: 95638589--95638661 Score: 119
Period size: 21 Copynumber: 3.4 Consensus size: 21
95638579 AGTACCTAAA
*
95638589 ACGACACACGAGGTACCTGAT
1 ACGACACACGAGGTGCCTGAT
95638610 ACGACACACGAGGTGCCTGAT
1 ACGACACACGAGGTGCCTGAT
95638631 ACGACACACGAGGTGCCTGAAAT
1 ACGACACACGAGGTGCCTG--AT
95638654 ACGACACA
1 ACGACACA
95638662 TAAAGTGCCT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 39 0.80
23 10 0.20
ACGTcount: A:0.34, C:0.29, G:0.25, T:0.12
Consensus pattern (21 bp):
ACGACACACGAGGTGCCTGAT
Found at i:95639069 original size:15 final size:15
Alignment explanation
Indices: 95639044--95639101 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
95639034 CCATATATAT
95639044 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
95639060 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
95639075 AATAATTTCAATCAA
1 TATAAATTCAATCAA
95639090 TATAAATTCAAT
1 TATAAATTCAAT
95639102 AAATTCATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:95641261 original size:17 final size:17
Alignment explanation
Indices: 95641235--95641272 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
95641225 TATAAGAGGA
*
95641235 ATAGACTATGTCTATTT
1 ATAGAATATGTCTATTT
95641252 ATAGAATATGTCTATTT
1 ATAGAATATGTCTATTT
95641269 ATAG
1 ATAG
95641273 GCTTGTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (17 bp):
ATAGAATATGTCTATTT
Found at i:95644376 original size:24 final size:26
Alignment explanation
Indices: 95644348--95644450 Score: 77
Period size: 28 Copynumber: 3.8 Consensus size: 26
95644338 CACTAAGTAC
*
95644348 AAAGTGCAAAT-A-ATGATAAGCACC
1 AAAGTGCAAATAATATGATAAGCACA
*
95644372 GAAGTGCAAAATAATTATGATAAGCACA
1 AAAGTGC-AAATAA-TATGATAAGCACA
* *
95644400 AAAGTGCAAATTTTACA-ACGATAAGCACC
1 AAAGTGCAAA---TA-ATATGATAAGCACA
*
95644429 AAAGTGCGAAATAATACGATAA
1 AAAGTGC-AAATAATATGATAA
95644451 ATGCACTAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
24 6 0.09
25 4 0.06
26 2 0.03
27 12 0.19
28 17 0.27
29 17 0.27
30 5 0.08
31 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.19
Consensus pattern (26 bp):
AAAGTGCAAATAATATGATAAGCACA
Found at i:95651262 original size:21 final size:22
Alignment explanation
Indices: 95651238--95651284 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
95651228 AACAATCATG
* *
95651238 AGAAAAAATA-ATGAAAAGGGA
1 AGAAAAAATAGAGGAAAAGAGA
*
95651259 AGAAAATATAGAGGAAAAGAGA
1 AGAAAAAATAGAGGAAAAGAGA
95651281 AGAA
1 AGAA
95651285 TTATGTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (22 bp):
AGAAAAAATAGAGGAAAAGAGA
Found at i:95652076 original size:19 final size:18
Alignment explanation
Indices: 95652035--95652076 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
95652025 ATCAACCCAA
* *
95652035 TAAATATTTTTTATTTCT
1 TAAATATTATTTATTTAT
95652053 TAAATATTATTTATTTAAT
1 TAAATATTATTTATTT-AT
95652072 TAAAT
1 TAAAT
95652077 CAATTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TAAATATTATTTATTTAT
Found at i:95657760 original size:15 final size:17
Alignment explanation
Indices: 95657742--95657773 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95657732 ATATTTATGT
95657742 ATAAAA-TT-ATGTAAA
1 ATAAAAGTTGATGTAAA
95657757 ATAAAAGTTGATGTAAA
1 ATAAAAGTTGATGTAAA
95657774 TATTTCACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (17 bp):
ATAAAAGTTGATGTAAA
Found at i:95664919 original size:6 final size:6
Alignment explanation
Indices: 95664908--95664954 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
95664898 ACGATACACC
*
95664908 TTCATT TTCATT TTCATT TTCATT TTCATT TTCATT TTCATT CTCAT
1 TTCATT TTCATT TTCATT TTCATT TTCATT TTCATT TTCATT TTCAT
95664955 ACTTAGCCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (6 bp):
TTCATT
Found at i:95666072 original size:3 final size:3
Alignment explanation
Indices: 95666064--95666101 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
95666054 ATATACACAA
95666064 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
95666102 GGTATAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:95673539 original size:22 final size:22
Alignment explanation
Indices: 95673511--95673555 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
95673501 GAGTTAGAAA
95673511 AATATTTAAAAAATTATTTTCT
1 AATATTTAAAAAATTATTTTCT
*
95673533 AATATTTTAAAAATTATTTTCT
1 AATATTTAAAAAATTATTTTCT
95673555 A
1 A
95673556 TGTTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATTTAAAAAATTATTTTCT
Found at i:95680849 original size:56 final size:56
Alignment explanation
Indices: 95680787--95680921 Score: 189
Period size: 56 Copynumber: 2.4 Consensus size: 56
95680777 CCATGGCTTC
* * * *
95680787 GATATATGTGTGCGAGTAAGACCATGTTTTATACGTTGGCATCGATTTGTGACTTT
1 GATATATGTGTGCGAGTAAGACCACGTTTTATACGTCGGCATCGATATGTGACTCT
* * * * *
95680843 TATATATGTGTACAAGTAAGACCACGTTTTATATGTCGGCATTGATATGTGACTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTTATACGTCGGCATCGATATGTGACTCT
95680899 GATATATGTGTGCGAGTAAGACC
1 GATATATGTGTGCGAGTAAGACC
95680922 CTGTATGGGA
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTTATACGTCGGCATCGATATGTGACTCT
Found at i:95685546 original size:24 final size:24
Alignment explanation
Indices: 95685514--95685562 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
95685504 GAGACTATCA
95685514 TTGCTCAGCGGTAAAACCAGGAAT
1 TTGCTCAGCGGTAAAACCAGGAAT
95685538 TTGCTCAGCGGTAAAACCAGGAAT
1 TTGCTCAGCGGTAAAACCAGGAAT
95685562 T
1 T
95685563 GTCACCCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (24 bp):
TTGCTCAGCGGTAAAACCAGGAAT
Found at i:95688676 original size:43 final size:42
Alignment explanation
Indices: 95688627--95688747 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
95688617 GAGAGGATAT
95688627 ACAATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAAC
1 ACAATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAAC
* * *
95688669 ATCAATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAAAT
1 A-CAATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCAAAC
* ** *
95688712 ACGATGCTGATGTCCCAGACATGGTCTTACACGTAA
1 ACAATGCCAATGTCCCAGACGTGGTCTTACACGTAA
95688748 AACAGAAGTC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 29 0.43
43 37 0.55
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (42 bp):
ACAATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAAC
Found at i:95692706 original size:56 final size:56
Alignment explanation
Indices: 95692632--95692772 Score: 162
Period size: 56 Copynumber: 2.5 Consensus size: 56
95692622 GGCACTTAAC
* * * * *
95692632 TGCGAAGTATCGGGGATGGCACTTAGTGTGTGATACATCCAAAATGGCATTTAGTG
1 TGCGAAGTATCGAGGATGGCACTTAGTGTATGAAACATCCAAAATAGCACTTAGTG
*
95692688 TGCGAAGTAAT-GAGGATGGCACTTAGTGTATGAAACATCCATAATAGCACTTAGTG
1 TGCGAAGT-ATCGAGGATGGCACTTAGTGTATGAAACATCCAAAATAGCACTTAGTG
* *
95692744 TGTGAGGTATCG-GGTATGGCA-TCTAGTGT
1 TGCGAAGTATCGAGG-ATGGCACT-TAGTGT
95692773 GCGAGACATT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
55 5 0.07
56 66 0.90
57 2 0.03
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (56 bp):
TGCGAAGTATCGAGGATGGCACTTAGTGTATGAAACATCCAAAATAGCACTTAGTG
Found at i:95692860 original size:32 final size:32
Alignment explanation
Indices: 95692824--95692891 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
95692814 TGAGTACGAG
*
95692824 AATTGGTACGAGATGGTACATGTATGTATGAA
1 AATTGGTACGAGATGGTACAGGTATGTATGAA
*
95692856 AATTGGTACGAGATGGTACAGGTATGTATGGA
1 AATTGGTACGAGATGGTACAGGTATGTATGAA
95692888 AATT
1 AATT
95692892 CAATTGAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (32 bp):
AATTGGTACGAGATGGTACAGGTATGTATGAA
Found at i:95698877 original size:36 final size:36
Alignment explanation
Indices: 95698830--95698902 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
95698820 CTTGTTGAAG
*
95698830 TTCTACCACAAATGAATCAATGGAAGATTCATCATA
1 TTCTACCACAAATGAAGCAATGGAAGATTCATCATA
* * * *
95698866 TTCTAGCACAAATGAAGCAGTGGAAGGTTTATCATA
1 TTCTACCACAAATGAAGCAATGGAAGATTCATCATA
95698902 T
1 T
95698903 ATCTTGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (36 bp):
TTCTACCACAAATGAAGCAATGGAAGATTCATCATA
Found at i:95700641 original size:14 final size:15
Alignment explanation
Indices: 95700618--95700650 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
95700608 AAGAAGGACG
95700618 AAAAATTAAATAAAT
1 AAAAATTAAATAAAT
*
95700633 AAAAA-TAAATAACT
1 AAAAATTAAATAAAT
95700647 AAAA
1 AAAA
95700651 TAACTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATTAAATAAAT
Found at i:95702881 original size:33 final size:32
Alignment explanation
Indices: 95702829--95702902 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 32
95702819 ATAATATCAT
*
95702829 ATAATATTCTTTTAGGAATCAAATTGCTAAGAG
1 ATAATA-TCTTTTAGGAATCAAATTGCTAAAAG
*
95702862 ATAATATCTTATTATGAATCAAATTGCTAAAAG
1 ATAATATCTT-TTAGGAATCAAATTGCTAAAAG
95702895 ATAATATC
1 ATAATATC
95702903 CTAACATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 4 0.11
33 34 0.89
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (32 bp):
ATAATATCTTTTAGGAATCAAATTGCTAAAAG
Found at i:95704308 original size:22 final size:22
Alignment explanation
Indices: 95704280--95704349 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
95704270 CCCTGAGTCT
95704280 AGCAGGATTGGCACCATGTTCC
1 AGCAGGATTGGCACCATGTTCC
* * *
95704302 AGCAGGA--GTCA-C-TGAGTCT
1 AGCAGGATTGGCACCATG-TTCC
95704321 AGCAGGATTGGCACCATGTTCC
1 AGCAGGATTGGCACCATGTTCC
95704343 AGCAGGA
1 AGCAGGA
95704350 GTCAAAGCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
18 2 0.05
19 10 0.27
20 3 0.08
21 3 0.08
22 17 0.46
23 2 0.05
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (22 bp):
AGCAGGATTGGCACCATGTTCC
Found at i:95704317 original size:41 final size:41
Alignment explanation
Indices: 95704272--95704353 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
95704262 TCCATAAACC
95704272 CTGAGTCTAGCAGGATTGGCACCATGTTCCAGCAGGAGTCA
1 CTGAGTCTAGCAGGATTGGCACCATGTTCCAGCAGGAGTCA
95704313 CTGAGTCTAGCAGGATTGGCACCATGTTCCAGCAGGAGTCA
1 CTGAGTCTAGCAGGATTGGCACCATGTTCCAGCAGGAGTCA
95704354 AAGCATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (41 bp):
CTGAGTCTAGCAGGATTGGCACCATGTTCCAGCAGGAGTCA
Found at i:95708072 original size:48 final size:48
Alignment explanation
Indices: 95707990--95708083 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
95707980 TTTCTTGGCT
* *
95707990 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
95708038 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
95708084 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:95710587 original size:48 final size:48
Alignment explanation
Indices: 95710505--95710598 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
95710495 TTTCTTGGCT
* *
95710505 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
95710553 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
95710599 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:95714552 original size:24 final size:24
Alignment explanation
Indices: 95714492--95714544 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
95714482 ATTCGTAGGT
*
95714492 TAAATAAATTATACTAATAAATAC
1 TAAATATATTATACTAATAAATAC
* *
95714516 TAAATATATTATATTAATAGATAC
1 TAAATATATTATACTAATAAATAC
95714540 TAAAT
1 TAAAT
95714545 CTTTTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAATATATTATACTAATAAATAC
Done.