Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 113 of 135
Found at i:33861939 original size:21 final size:21
Alignment explanation
Indices: 33861913--33861956 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
33861903 GAGCCATAGC
*
33861913 ATACCGATGGAAGAAAGTGGT
1 ATACCGATGGAAGAAAGTAGT
33861934 ATACCGATGGAAGAAAGTAGT
1 ATACCGATGGAAGAAAGTAGT
33861955 AT
1 AT
33861957 TCTTATCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.30, T:0.20
Consensus pattern (21 bp):
ATACCGATGGAAGAAAGTAGT
Found at i:33865512 original size:30 final size:30
Alignment explanation
Indices: 33865477--33865560 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
33865467 GACAAAGGAA
* ** *
33865477 GGTGGTGTAAGGCATGGTGGAGGTGGCGTT
1 GGTGGTGGAAGGCATGGTGGAGGCAGCGAT
* *
33865507 GGTGGTGGAAGGCATGATGGAGGCAGTGAT
1 GGTGGTGGAAGGCATGGTGGAGGCAGCGAT
*
33865537 GGTGGTGGAGGGCATGGTGGAGGC
1 GGTGGTGGAAGGCATGGTGGAGGC
33865561 GACGACTATG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.17, C:0.07, G:0.55, T:0.21
Consensus pattern (30 bp):
GGTGGTGGAAGGCATGGTGGAGGCAGCGAT
Found at i:33865555 original size:15 final size:15
Alignment explanation
Indices: 33865506--33865556 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
33865496 GAGGTGGCGT
*
33865506 TGGTGGTGGAAGGCA
1 TGGTGGTGGAGGGCA
* * *
33865521 TGATGGAGGCAGTG-A
1 TGGTGGTGG-AGGGCA
33865536 TGGTGGTGGAGGGCA
1 TGGTGGTGGAGGGCA
33865551 TGGTGG
1 TGGTGG
33865557 AGGCGACGAC
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 3 0.11
15 22 0.81
16 2 0.07
ACGTcount: A:0.18, C:0.06, G:0.55, T:0.22
Consensus pattern (15 bp):
TGGTGGTGGAGGGCA
Found at i:33882341 original size:58 final size:57
Alignment explanation
Indices: 33882266--33882863 Score: 438
Period size: 58 Copynumber: 10.3 Consensus size: 57
33882256 TTGACTCCCG
** * * * *
33882266 GGGGTAAAAATG-TAATTTTAGGAAAAATTGGGGTT-AAAATGGGATTTTGGAAGATTC
1 GGGGT-AAAATGATAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTA
* *** *
33882323 GGAGGTAAAATGATAATTTTTAGTGAAATCAAAGTTAAAAATAGG-GTTTTGGAAAGTTTA
1 GG-GGTAAAATGATAA-TTTTGGTGAAATCGGGGTTAAAAAT-GGAATTTTGG-AAGTTTA
* * * ** * * * *
33882383 GGGATAAAACGGTAATTTTGGTGAAATTAGGGTCAAAAATGGAATTTTGAAAGATTC
1 GGGGTAAAATGATAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTA
* * * *
33882440 GAGGGCAAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATGGAGTTTTGGAAAGTTTA
1 G-GGGTAAAATGATAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAGTTTA
* *
33882499 AGGGTAAAAT-AGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTATGAAAGTTTA
1 GGGGTAAAATGA-TAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTT-TGGAAGTTTA
* * *
33882558 -AGGAAAAATGATAATTTTGGGAGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGATAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAGTTTA
* *
33882616 GGGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAG-TTC
1 GGGGTAAAATGATAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGA-AGTTTA
* * * * * *
33882674 GAGGGTAAAACGGTAATTTTGGTGAAATCAGGG-T-AAAATGGAGTTTTGAAAGATTTG
1 G-GGGTAAAATGATAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAG-TTTA
* * *
33882731 GGGGTAAAAT-AGTAATTTT-G-GAAGTTTGAGGG-T-AAAATGGTAA-TTTGGAGGTTTCA
1 GGGGTAAAATGA-TAATTTTGGTGAA-ATCG-GGGTTAAAAATGG-AATTTTGGAAGTTT-A
* * * *
33882787 GGGTTAAAGATGA-AATTTT--AGAAAGTTTGGGGTTAAAAATGAAATTTTGGAAAGTTTA
1 GGGGTAAA-ATGATAATTTTGGTGAAA--TCGGGGTTAAAAATGGAATTTTGG-AAGTTTA
*
33882845 GGGGTAAAATGGTAATTTT
1 GGGGTAAAATGATAATTTT
33882864 TAGATAGTTT
Statistics
Matches: 441, Mismatches: 66, Indels: 67
0.77 0.11 0.12
Matches are distributed among these distances:
54 3 0.01
55 7 0.02
56 65 0.15
57 34 0.08
58 187 0.42
59 134 0.30
60 11 0.02
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (57 bp):
GGGGTAAAATGATAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTA
Found at i:33882420 original size:29 final size:29
Alignment explanation
Indices: 33882380--33882714 Score: 109
Period size: 29 Copynumber: 11.5 Consensus size: 29
33882370 TTTGGAAAGT
*
33882380 TTAGGGAT-AAAACGGTAATTTTGGTGAAA
1 TTAGGG-TCAAAATGGTAATTTTGGTGAAA
*
33882409 TTAGGGTCAAAAATGG-AATTTT-G-AAAGA
1 TTAGGGTC-AAAATGGTAATTTTGGTGAA-A
33882437 TTCGAGGG-CAAAATGGTAATTTTGGTGAAA
1 TT--AGGGTCAAAATGGTAATTTTGGTGAAA
* * *
33882467 TCAGGGTTAAAAATGG-AGTTTT-G-GAAA
1 TTAGGG-TCAAAATGGTAATTTTGGTGAAA
*
33882494 GTTTAAGGGT-AAAATAGTAATTTTGGGTGAAA
1 --TT-AGGGTCAAAATGGTAATTTT-GGTGAAA
** * *
33882526 TCGGGGTTAAAAATGG-AA-TTT-ATGAAA
1 TTAGGG-TCAAAATGGTAATTTTGGTGAAA
* * * *
33882553 GTTTAAGG-AAAAATGATAATTTTGGGAGAAA
1 --TTAGGGTCAAAATGGTAATTTT-GGTGAAA
** *
33882584 TCGGGGTTAAAAATGG-AATTTT-G-GAAA
1 TTAGGG-TCAAAATGGTAATTTTGGTGAAA
33882611 GTTTAGGGGT-AAAATGGTAATTTTGGGTGAAA
1 --TTA-GGGTCAAAATGGTAATTTT-GGTGAAA
** * * *
33882643 TCGGGGTTAAAAATGG-AATTTTGGAG-AG
1 TTAGGG-TCAAAATGGTAATTTTGGTGAAA
*
33882671 TTCGAGGGT-AAAACGGTAATTTTGGTGAAA
1 TT--AGGGTCAAAATGGTAATTTTGGTGAAA
*
33882701 TCAGGGT-AAAATGG
1 TTAGGGTCAAAATGG
33882715 AGTTTTGAAA
Statistics
Matches: 230, Mismatches: 36, Indels: 81
0.66 0.10 0.23
Matches are distributed among these distances:
27 22 0.10
28 52 0.23
29 70 0.30
30 50 0.22
31 28 0.12
32 8 0.03
ACGTcount: A:0.37, C:0.03, G:0.30, T:0.30
Consensus pattern (29 bp):
TTAGGGTCAAAATGGTAATTTTGGTGAAA
Found at i:33882533 original size:59 final size:59
Alignment explanation
Indices: 33882296--33882751 Score: 470
Period size: 58 Copynumber: 7.8 Consensus size: 59
33882286 GGAAAAATTG
* * ** * **
33882296 GGGTT-AAAATGGGATTTTGG-AAGATTCGGAGGTAAAATGATAATTTTTAGTGAAATCA
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAAG-GGTAAAATGGTAATTTTGGGTGAAATCA
** * * *
33882354 AAGTTAAAAATAGG-GTTTTGGAAAGTTT-AGGGATAAAACGGTAATTTT-GGTGAAATTA
1 GGGTTAAAAAT-GGAATTTTGGAAAGTTTAAGGG-TAAAATGGTAATTTTGGGTGAAATCA
* ** *
33882412 GGGTCAAAAATGGAATTTT-GAAAGATTCGAGGGCAAAATGGTAATTTT-GGTGAAATCA
1 GGGTTAAAAATGGAATTTTGGAAAG-TTTAAGGGTAAAATGGTAATTTTGGGTGAAATCA
* * *
33882470 GGGTTAAAAATGGAGTTTTGGAAAGTTTAAGGGTAAAATAGTAATTTTGGGTGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGGTGAAATCA
* * * *
33882529 GGGTTAAAAATGGAATTTAT-GAAAGTTTAA-GGAAAAATGATAATTTTGGGAGAAATCG
1 GGGTTAAAAATGGAATTT-TGGAAAGTTTAAGGGTAAAATGGTAATTTTGGGTGAAATCA
* *
33882587 GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTGGGTGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGGTGAAATCA
* ** *
33882646 GGGTTAAAAATGGAATTTTGGAGAGTTCGAGGGTAAAACGGTAATTTT-GGTGAAATCA
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGGTGAAATCA
* ** *
33882704 GGG-T-AAAATGGAGTTTT-GAAAGATTTGGGGGTAAAATAGTAATTTTGG
1 GGGTTAAAAATGGAATTTTGGAAAG-TTTAAGGGTAAAATGGTAATTTTGG
33882752 AAGTTTGAGG
Statistics
Matches: 339, Mismatches: 45, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
55 4 0.01
56 31 0.09
57 10 0.03
58 148 0.44
59 138 0.41
60 8 0.02
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.31
Consensus pattern (59 bp):
GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGGTGAAATCA
Found at i:33882538 original size:117 final size:117
Alignment explanation
Indices: 33882267--33882751 Score: 544
Period size: 117 Copynumber: 4.2 Consensus size: 117
33882257 TGACTCCCGG
* ** * * *
33882267 GGGTAAAA-ATGTAATTTTAGGAAAAATTGGGGTT-AAAATGGGATTTTGGAAGATTCG-GAGGT
1 GGGTAAAATA-GTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAGATTCGAG-GGT
* **
33882329 AAAATGATAATTTTTAGTGAAATCAAAGTTAAAAATAGG-GTTTTGGAAAGTTT-A
64 AAAATGATAA-TTTTGGTGAAATCAGGGTTAAAAAT-GGAGTTTTGGAAAGTTTAA
** ** * *
33882383 GGGATAAAACGGTAATTTT-GGTGAAATTAGGGTCAAAAATGGAATTTTGAAAGATTCGAGGGCA
1 GGG-TAAAATAGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAGATTCGAGGGTA
*
33882447 AAATGGTAATTTTGGTGAAATCAGGGTTAAAAATGGAGTTTTGGAAAGTTTAA
65 AAATGATAATTTTGGTGAAATCAGGGTTAAAAATGGAGTTTTGGAAAGTTTAA
* * *
33882500 GGGTAAAATAGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTATGAAAG-TT-TAAGGAA
1 GGGTAAAATAGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTT-TGAAAGATTCGAGGGTA
* * * *
33882563 AAATGATAATTTTGGGAGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
65 AAATGATAATTTT-GGTGAAATCAGGGTTAAAAATGGAGTTTTGGAAAGTTTAA
* *
33882617 GGGTAAAATGGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTTG-GAGAGTTCGAGGGTA
1 GGGTAAAATAGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAGA-TTCGAGGGTA
* * **
33882681 AAACGGTAATTTTGGTGAAATCAGGG-T-AAAATGGAGTTTT-GAAAGATTTGG
65 AAATGATAATTTTGGTGAAATCAGGGTTAAAAATGGAGTTTTGGAAAG-TTTAA
33882732 GGGTAAAATAGTAATTTTGG
1 GGGTAAAATAGTAATTTTGG
33882752 AAGTTTGAGG
Statistics
Matches: 319, Mismatches: 37, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
114 5 0.02
115 39 0.12
116 82 0.26
117 171 0.54
118 22 0.07
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.31
Consensus pattern (117 bp):
GGGTAAAATAGTAATTTTGGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAGATTCGAGGGTAA
AATGATAATTTTGGTGAAATCAGGGTTAAAAATGGAGTTTTGGAAAGTTTAA
Found at i:33882735 original size:28 final size:27
Alignment explanation
Indices: 33882652--33882863 Score: 121
Period size: 28 Copynumber: 7.5 Consensus size: 27
33882642 ATCGGGGTTA
* *
33882652 AAAATGGAATTTTGGAGAGTTCGAGGGT
1 AAAATGGAATTTT-GAAAGTTTGAGGGT
* *
33882680 AAAACGGTAATTTTGGTGAAA---TCAGGGT
1 AAAATGG-AA-TTT--TGAAAGTTTGAGGGT
* *
33882708 AAAATGGAGTTTTGAAAGATTTGGGGGT
1 AAAATGGAATTTTGAAAG-TTTGAGGGT
* *
33882736 AAAATAGTAATTTTGGAAGTTTGAGGGT
1 AAAAT-GGAATTTTGAAAGTTTGAGGGT
* * *
33882764 AAAATGGTAA-TTTGGAGGTTTCAGGGTT
1 AAAATGG-AATTTTGAAAGTTTGAGGG-T
*
33882792 AAAGATGAAATTTTAGAAAGTTTG-GGGTT
1 AAA-ATGGAATTTT-GAAAGTTTGAGGG-T
*
33882821 AAAAATGAAATTTTGGAAAGTTT-AGGGGT
1 -AAAATGGAATTTT-GAAAGTTTGA-GGGT
33882850 AAAATGGTAATTTT
1 AAAATGG-AATTTT
33882864 TAGATAGTTT
Statistics
Matches: 145, Mismatches: 21, Indels: 35
0.72 0.10 0.17
Matches are distributed among these distances:
24 5 0.03
26 3 0.02
27 16 0.11
28 54 0.37
29 48 0.33
30 15 0.10
31 3 0.02
32 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (27 bp):
AAAATGGAATTTTGAAAGTTTGAGGGT
Found at i:33882789 original size:27 final size:28
Alignment explanation
Indices: 33882659--33882863 Score: 95
Period size: 29 Copynumber: 7.2 Consensus size: 28
33882649 TTAAAAATGG
**
33882659 AATTTTGGAGAG-TTCGAGGGTAAAACGGT
1 AATTTTGGA-AGTTTC-AGGGTAAAATAGT
* *
33882688 AATTTTGGTGAA--ATCAGGGTAAAAT-GG
1 AATTTT-G-GAAGTTTCAGGGTAAAATAGT
* * **
33882715 AGTTTTGAAAGATTTGGGGGTAAAATAGT
1 AATTTTGGAAG-TTTCAGGGTAAAATAGT
* *
33882744 AATTTTGGAAGTTTGAGGGTAAAATGGT
1 AATTTTGGAAGTTTCAGGGTAAAATAGT
* *
33882772 AA-TTTGGAGGTTTCAGGGTTAAAGAT-GA
1 AATTTTGGAAGTTTCAGGG-TAAA-ATAGT
* * *
33882800 AATTTTAGAAAGTTT-GGGGTTAAAA-ATGA
1 AATTTT-GGAAGTTTCAGGG-TAAAATA-GT
*
33882829 AATTTTGGAAAGTTT-AGGGGTAAAATGGT
1 AATTTTGG-AAGTTTCA-GGGTAAAATAGT
33882858 AATTTT
1 AATTTT
33882864 TAGATAGTTT
Statistics
Matches: 138, Mismatches: 23, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
25 2 0.01
26 1 0.01
27 20 0.14
28 45 0.33
29 57 0.41
30 11 0.08
31 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.34
Consensus pattern (28 bp):
AATTTTGGAAGTTTCAGGGTAAAATAGT
Found at i:33882822 original size:29 final size:30
Alignment explanation
Indices: 33882787--33882877 Score: 107
Period size: 29 Copynumber: 3.1 Consensus size: 30
33882777 GGAGGTTTCA
*
33882787 GGGTTAAAGATGAAATTTTAGAAAGTTT-G
1 GGGTTAAAAATGAAATTTTAGAAAGTTTAG
*
33882816 GGGTTAAAAATGAAATTTTGGAAAGTTTAG
1 GGGTTAAAAATGAAATTTTAGAAAGTTTAG
* *
33882846 GGG-T-AAAATGGTAATTTTTAGATAGTTTAG
1 GGGTTAAAAAT-G-AAATTTTAGAAAGTTTAG
33882876 GG
1 GG
33882878 ACCTATAAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 5 0.09
29 28 0.52
30 21 0.39
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.35
Consensus pattern (30 bp):
GGGTTAAAAATGAAATTTTAGAAAGTTTAG
Found at i:33884505 original size:17 final size:18
Alignment explanation
Indices: 33884478--33884521 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
33884468 ATTTAAATTG
33884478 AATTCAAAATAAATTTAA
1 AATTCAAAATAAATTTAA
*
33884496 AATT-AAAATAAGTTT-A
1 AATTCAAAATAAATTTAA
*
33884512 ATTTCAAAAT
1 AATTCAAAAT
33884522 GGTTTGGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (18 bp):
AATTCAAAATAAATTTAA
Found at i:33884997 original size:76 final size:76
Alignment explanation
Indices: 33884869--33885258 Score: 613
Period size: 76 Copynumber: 5.1 Consensus size: 76
33884859 TGATGCTCTG
*
33884869 TCTTGCTCTTACTTCAATTTAAGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
1 TCTTGCTCTTACTTCAATTT--CAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
*
33884934 GGATAGGAAAAGA
64 GGATAGGAAATGA
*
33884947 TCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
33885012 ATAGGAAATGA
66 ATAGGAAATGA
*
33885023 TCTTGATGCTCTGT-CTTCAATTTCAGAGATAAAGACTTGTTATCCTA-CTTTACTTCAATTTCA
1 TC-T--TGCTCT-TACTTCAATTTCAGAGATAAAGACTTGATATCC-AGCTTTACTTCAATTTCA
33885086 AGAGGATAGGAAATGA
61 AGAGGATAGGAAATGA
*
33885102 TCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
33885167 ATAGGAAATGA
66 ATAGGAAATGA
* * * * *
33885178 TCTTGCTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCTAACTCTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
33885243 ATAGGAAATGA
66 ATAGGAAATGA
33885254 TCTTG
1 TCTTG
33885259 ATGCTCTGTC
Statistics
Matches: 292, Mismatches: 13, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
75 2 0.01
76 197 0.67
77 1 0.00
78 21 0.07
79 69 0.24
80 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (76 bp):
TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
ATAGGAAATGA
Found at i:33885319 original size:167 final size:167
Alignment explanation
Indices: 33884947--33885597 Score: 905
Period size: 167 Copynumber: 3.9 Consensus size: 167
33884937 TAGGAAAAGA
*
33884947 TCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
*
33885012 ATAGGAAATGATCTTGATGCTCTGT-CTTCAATTTCAGAGATAAAGACTTGTTATCCT-ACTTTA
66 ATAGGAAATGATCTT-ATGCTCT-TACTTCAATTTCAGAGATAAAGACTTGTTAT-CTAACTCTA
33885075 CTTCAATTTCAAGAGGATAGGAAATGATCTT-A-------
128 CTTCAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTG
33885107 -----CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
*
33885167 ATAGGAAATGATC-T-TGCTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCTAACTCTACTT
66 ATAGGAAATGATCTTATGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCTAACTCTACTT
33885230 CAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTG
131 CAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTG
*
33885267 TCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTA-CTTTACTTCAATTTCAAG
1 TCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCC-AGCTTTACTTCAATTTCAAG
* *
33885331 AGGATAGGAAATGATC-T-TGCTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTA
63 AGGATAGGAAATGATCTTATGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCTAACTCTA
33885394 CTTCAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTG
128 CTTCAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTG
*
33885434 TCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTA-CTTTACTTCAATTTCAAG
1 TCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCC-AGCTTTACTTCAATTTCAAG
*
33885498 AGGATAGGAAATGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCT
63 AGGATAGGAAATGAT-C-TTA--T-GCTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCT
* *
33885563 AACTTTACTTCAATTTCAATAGGATAAGG-AATGAT
121 AACTCTACTTCAATTTCAAGAGGAT-AGGAAATGAT
33885598 GTTTGATTTA
Statistics
Matches: 453, Mismatches: 10, Indels: 40
0.90 0.02 0.08
Matches are distributed among these distances:
151 3 0.01
152 70 0.15
153 1 0.00
154 1 0.00
155 72 0.16
165 16 0.04
167 219 0.48
168 2 0.00
170 1 0.00
173 1 0.00
174 17 0.04
176 47 0.10
177 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (167 bp):
TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
ATAGGAAATGATCTTATGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCTAACTCTACTT
CAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTG
Found at i:33885397 original size:76 final size:77
Alignment explanation
Indices: 33885267--33885425 Score: 275
Period size: 76 Copynumber: 2.1 Consensus size: 77
33885257 TGATGCTCTG
* *
33885267 TCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTACTTTACTTCAATTTCAAGA
1 TCTTGCTCTTACTTCAATTTCA-AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA
33885332 GGATAGGAAATGA
65 GGATAGGAAATGA
*
33885345 TCTTGCTCTTACTTCAATTTC-AGAGATAGAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 TCTTGCTCTTACTTCAATTTCAAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
33885409 GATAGGAAATGA
66 GATAGGAAATGA
33885421 TCTTG
1 TCTTG
33885426 ATGCTCTGTC
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 57 0.73
78 21 0.27
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (77 bp):
TCTTGCTCTTACTTCAATTTCAAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAATGA
Found at i:33885531 original size:85 final size:85
Alignment explanation
Indices: 33885177--33885598 Score: 512
Period size: 91 Copynumber: 5.0 Consensus size: 85
33885167 ATAGGAAATG
* *
33885177 ATCTTGCTCTTACTTCAATTTC--AGAGATAGAGACTTGTTAT-CTAACTCTACTTCAATTTCAA
1 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCT-ACTTTACTTCAATTTCAA
33885239 GAGGATAGGAAATGATCTTGATGCTCT
65 GAGGATAGG-AA--A---TGATGCTCT
*
33885266 GTCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTACTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTACTTTACTTCAATTTCAAG
33885331 AGGATAGG-AA--ATG----
66 AGGATAGGAAATGATGCTCT
* * *
33885344 ATCTTGCTCTTACTTCAATTTC--AGAGATAGAGACTTGTTATCCAACTCTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTACTTTACTTCAATTTCAAG
33885407 AGGATAGGAAATGATCTTGATGCTCT
66 AGGATAGG-AA--A---TGATGCTCT
*
33885433 GTCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTACTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTACTTTACTTCAATTTCAAG
*
33885498 AGGATAGGAAATGATGCTTT
66 AGGATAGGAAATGATGCTCT
* *
33885518 ATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTAT-CTAACTTTACTTCAATTTCAA
1 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCT-ACTTTACTTCAATTTCAA
*
33885582 TAGGATAAGG-AATGATG
65 GAGGAT-AGGAAATGATG
33885599 TTTGATTTAA
Statistics
Matches: 297, Mismatches: 16, Indels: 44
0.83 0.04 0.12
Matches are distributed among these distances:
76 46 0.15
78 22 0.07
80 1 0.00
82 3 0.01
84 2 0.01
85 81 0.27
86 3 0.01
87 1 0.00
88 1 0.00
89 43 0.14
90 2 0.01
91 90 0.30
92 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (85 bp):
ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTACTTTACTTCAATTTCAAG
AGGATAGGAAATGATGCTCT
Found at i:33885589 original size:40 final size:40
Alignment explanation
Indices: 33885442--33885580 Score: 151
Period size: 40 Copynumber: 3.4 Consensus size: 40
33885432 TGTCTTGCTC
*
33885442 TTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCT-ACT
1 TTACTTCAATTTCAGAGAGATAAAGACTTGCTAT-CTAACT
*
33885482 TTACTTCAATTTCA-AGAGGATAGGAA-A-TGATGCTTTATCTAGCT
1 TTACTTCAATTTCAGAGA-GATA--AAGACT--TGC--TATCTAACT
33885526 CTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCTAACT
1 -TTACTTCAATTTCAGAGAGATAAAGACTTGCTATCTAACT
33885567 TTACTTCAATTTCA
1 TTACTTCAATTTCA
33885581 ATAGGATAAG
Statistics
Matches: 84, Mismatches: 3, Indels: 24
0.76 0.03 0.22
Matches are distributed among these distances:
39 3 0.04
40 33 0.39
41 9 0.11
42 4 0.05
43 7 0.08
44 6 0.07
45 19 0.23
46 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (40 bp):
TTACTTCAATTTCAGAGAGATAAAGACTTGCTATCTAACT
Found at i:33885630 original size:398 final size:387
Alignment explanation
Indices: 33884827--33885597 Score: 1114
Period size: 398 Copynumber: 1.9 Consensus size: 387
33884817 TATCCAGCTT
33884827 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTGTCTTGCTCTTACTTCAATTTAAG
1 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTGTCTTGCTCTTACTTCAATTTAAG
33884892 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
66 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
* * *
33884957 ACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATG
131 ACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
33885022 ATCTTGATGCTCTGTCTTCAATTTCAGAGATAAAGACTTGTTATCCTACTTTACTTCAATTTCAA
196 ATCTTGATGCTCTGTCTTCAATTTCAGAGATAAAGACTTGTTATCCTACTTTACTTCAATTTCAA
*
33885087 GAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTAC
261 GAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTAC
33885152 TTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAGAGACTTGTTA
326 TTCAATTTCAAGAGGATAGGAAATGA--TTG--C-TA-TTCAATTTCAGAGAT----ACTTG-TA
33885217 TCTAACTC
380 TCTAACTC
*
33885225 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTGTCTTGCTCTTACTTCAATTTCAG
1 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTGTCTTGCTCTTACTTCAATTTAAG
* *
33885290 AGAGATAAAGACTTGTTATCCTA-CTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCT
66 AGAGATAAAGACTTGATATCC-AGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCT
* *
33885354 TACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAT
130 TACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAT
33885419 GATCTTGATGCTCTGTCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCTACTTT
195 GATCTTGATG--C--TC-TG----T-CTTCAATTTC--AGAGATAAAGACTTGTTATCCTACTTT
33885484 ACTTCAATTTCAAGAGGATAGGAAATGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATA
248 ACTTCAATTTCAAGAGGATAGGAAATGAT-C----T-TA-CTCTTACTTCAATTTC--AGAGATA
* * *
33885549 AAGACTTGCTATCTAACTTTACTTCAATTTCAATAGGATAAGG-AATGAT
304 AAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGAT-AGGAAATGAT
33885598 GTTTGATTTA
Statistics
Matches: 338, Mismatches: 12, Indels: 27
0.90 0.03 0.07
Matches are distributed among these distances:
398 194 0.57
399 1 0.00
400 1 0.00
402 2 0.01
403 2 0.01
407 1 0.00
408 10 0.03
410 56 0.17
411 1 0.00
415 1 0.00
416 2 0.01
417 17 0.05
419 47 0.14
420 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (387 bp):
TACTTCAATTTCAAGAGGATAGGAAATGATCTTGATGCTCTGTCTTGCTCTTACTTCAATTTAAG
AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
ACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
ATCTTGATGCTCTGTCTTCAATTTCAGAGATAAAGACTTGTTATCCTACTTTACTTCAATTTCAA
GAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTAC
TTCAATTTCAAGAGGATAGGAAATGATTGCTATTCAATTTCAGAGATACTTGTATCTAACTC
Found at i:33888018 original size:12 final size:12
Alignment explanation
Indices: 33888001--33888038 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
33887991 CCCTTTTCTC
33888001 TTTTTTTGTTTG
1 TTTTTTTGTTTG
33888013 TTTTTTTGTTATG
1 TTTTTTTGTT-TG
33888026 TTTTTTT-TTTG
1 TTTTTTTGTTTG
33888037 TT
1 TT
33888039 ATAACACGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 4 0.16
12 12 0.48
13 9 0.36
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.84
Consensus pattern (12 bp):
TTTTTTTGTTTG
Found at i:33888034 original size:16 final size:17
Alignment explanation
Indices: 33888007--33888040 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
33887997 TCTCTTTTTT
33888007 TGTTTGTTTTTTTGTTA
1 TGTTTGTTTTTTTGTTA
33888024 TGTTT-TTTTTTTGTTA
1 TGTTTGTTTTTTTGTTA
33888040 T
1 T
33888041 AACACGTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.06, C:0.00, G:0.15, T:0.79
Consensus pattern (17 bp):
TGTTTGTTTTTTTGTTA
Found at i:33892645 original size:59 final size:59
Alignment explanation
Indices: 33892581--33893036 Score: 481
Period size: 59 Copynumber: 7.8 Consensus size: 59
33892571 GAAAATTTAG
* * *
33892581 GGTTAAAAATGGGATTTTGG-AAGATTCGGGGGTAAAATGATAATTTTTAGTGAAATCGA
1 GGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGATAATTTTTGGTGAAATCGA
* ** * * *
33892640 AGTTAAAAATGGGGTTTTGGAAAGTTTGAGGGTAAAATGGTAA-TTTTGGTAAAATC-A
1 GGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGA
* * * *
33892697 GGGTAAAAAATGGAATTTTGG-AAGATTCGAGGGCAAAATGGTGA-TTTTGGTGAAATCGA
1 -GGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGATAATTTTTGGTGAAATCGA
** *
33892756 GGTTAAAAAT-GAAGTTTTGGAAAGTTTAAGGGTAAAAT-ATTAATTTTGGGTGAAATCGA
1 GGTTAAAAATGGAA-TTTTGGAAAGTTCGAGGGTAAAATGA-TAATTTTTGGTGAAATCGA
** *
33892815 GGTTAAAAATGGAATTTAT-GAAAGTTTAAGGGTAAAATGATAATTTTGGGTGAAATCGA
1 GGTTAAAAATGGAATTT-TGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGA
* * * *
33892874 GGTTAAAAATGGAATTTTGGAAAGTT-TAGGGGTAAAATGGTAATTTTGGGTGAAATCGG
1 GGTTAAAAATGGAATTTTGGAAAGTTCGA-GGGTAAAATGATAATTTTTGGTGAAATCGA
* *
33892933 GGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAACGGTAA-TTTTGGTGAAATC-A
1 GGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGA
* *
33892990 -GTGTAAAAATGGAGTTTT-GAAAGATTCGGGGGTAAAAT-AGTAATTTT
1 GGT-TAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGA-TAATTTT
33893037 GGAAGTTTGA
Statistics
Matches: 346, Mismatches: 33, Indels: 37
0.83 0.08 0.09
Matches are distributed among these distances:
56 7 0.02
57 36 0.10
58 100 0.29
59 194 0.56
60 9 0.03
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.32
Consensus pattern (59 bp):
GGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGA
Found at i:33892686 original size:29 final size:29
Alignment explanation
Indices: 33892654--33893164 Score: 215
Period size: 29 Copynumber: 17.6 Consensus size: 29
33892644 AAAAATGGGG
33892654 TTTTGGAAAGTTTGAGGGTAAAATGGTAA
1 TTTTGGAAAGTTTGAGGGTAAAATGGTAA
* *
33892683 TTTTGGTAAA--ATCAGGGTAAAAAATGG-AA
1 TTTTGG-AAAGTTTGAGGGT--AAAATGGTAA
* * *
33892712 TTTTGG-AAGATTCGAGGGCAAAATGGTGA
1 TTTTGGAAAG-TTTGAGGGTAAAATGGTAA
* *
33892741 TTTTGGTGAAA--TCGAGGTTAAAAAT-G-AA
1 TTTT-G-GAAAGTTTGAGGGT-AAAATGGTAA
* **
33892769 GTTTTGGAAAGTTTAAGGGTAAAATATTAA
1 -TTTTGGAAAGTTTGAGGGTAAAATGGTAA
* *
33892799 TTTTGGGTGAAA--TCGAGGTTAAAAATGG-AA
1 TTTT--G-GAAAGTTTGAGGGT-AAAATGGTAA
* *
33892829 TTTAT-GAAAGTTTAAGGGTAAAATGATAA
1 TTT-TGGAAAGTTTGAGGGTAAAATGGTAA
* *
33892858 TTTTGGGTGAAA--TCGAGGTTAAAAATGG-AA
1 TTTT--G-GAAAGTTTGAGGGT-AAAATGGTAA
33892888 TTTTGGAAAGTTT-AGGGGTAAAATGGTAA
1 TTTTGGAAAGTTTGA-GGGTAAAATGGTAA
*
33892917 TTTTGGGTGAAA--TCG-GGGTTAAAAATGG-AA
1 TTTT--G-GAAAGTTTGAGGG-T-AAAATGGTAA
* *
33892947 TTTTGGAAAGTTCGAGGGTAAAACGGTAA
1 TTTTGGAAAGTTTGAGGGTAAAATGGTAA
* * *
33892976 TTTTGGTGAAA---TCAGTGTAAAAATGG-AG
1 TTTT-G-GAAAGTTTGAGGGT-AAAATGGTAA
* * *
33893004 TTTT-GAAAGATTCGGGGGTAAAATAGTAA
1 TTTTGGAAAG-TTTGAGGGTAAAATGGTAA
33893033 TTTTGG-AAGTTTGAGGGTAAAATGGTAA
1 TTTTGGAAAGTTTGAGGGTAAAATGGTAA
* *
33893061 -TTTGG-AGGTTTCG-GGGTTAAAGAT-GAAA
1 TTTTGGAAAGTTT-GAGGG-TAAA-ATGGTAA
*
33893089 TTTTGGAAAGTTTG-GGGTTAAAAAT-GAAA
1 TTTTGGAAAGTTTGAGGG-T-AAAATGGTAA
* *
33893118 TTTTAGAAAGTTTAAGGGTAAAATGGTAA
1 TTTTGGAAAGTTTGAGGGTAAAATGGTAA
*
33893147 TTTTTGGATAGTTT-AGGG
1 -TTTTGGAAAGTTTGAGGG
33893165 ACCTATAAAC
Statistics
Matches: 368, Mismatches: 53, Indels: 122
0.68 0.10 0.22
Matches are distributed among these distances:
25 4 0.01
27 31 0.08
28 87 0.24
29 128 0.35
30 78 0.21
31 26 0.07
32 14 0.04
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (29 bp):
TTTTGGAAAGTTTGAGGGTAAAATGGTAA
Found at i:33892892 original size:118 final size:116
Alignment explanation
Indices: 33892581--33893150 Score: 549
Period size: 118 Copynumber: 4.9 Consensus size: 116
33892571 GAAAATTTAG
* * * * *
33892581 GGTTAAAAATGGGATTTTGGAAGATTCGGGGGTAAAATGATAATTTTTAGTGAAATCGAAGTTAA
1 GGTTAAAAATGGAATTTTGAAAG-TTCGAGGGTAAAATGATAA-TTTTGGTGAAATCGAGGTTAA
** * * *
33892646 AAATGGGGTTTTGGAAAGTTTGAGGGTAAAATGGTAATTTT-GGTAAAATC-A
64 AAATGGAATTTTGGAAAGTTTAAGGGTAAAATAGTAATTTTGGGTGAAATCGA
* * * * *
33892697 GGGTAAAAAATGGAATTTTGGAAGATTCGAGGGCAAAATGGTGATTTTGGTGAAATCGAGGTTAA
1 -GGTTAAAAATGGAATTTTGAAAG-TTCGAGGGTAAAATGATAATTTTGGTGAAATCGAGGTTAA
*
33892762 AAAT-GAAGTTTTGGAAAGTTTAAGGGTAAAATATTAATTTTGGGTGAAATCGA
64 AAATGGAA-TTTTGGAAAGTTTAAGGGTAAAATAGTAATTTTGGGTGAAATCGA
**
33892815 GGTTAAAAATGGAATTTATGAAAGTTTAAGGGTAAAATGATAATTTTGGGTGAAATCGAGGTTAA
1 GGTTAAAAATGGAATTT-TGAAAGTTCGAGGGTAAAATGATAATTTT-GGTGAAATCGAGGTTAA
* * *
33892880 AAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTGGGTGAAATCGG
64 AAATGGAATTTTGGAAAGTTTAAGGGTAAAATAGTAATTTTGGGTGAAATCGA
* *
33892933 GGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAACGGTAATTTTGGTGAAATC-A-GTGTAA
1 GGTTAAAAATGGAATTTT-GAAAGTTCGAGGGTAAAATGATAATTTTGGTGAAATCGAGGT-TAA
* *** * *
33892996 AAATGGAGTTTT-GAAAGATTCGGGGGTAAAATAGTAATTTT--G-GAAGTTTGA
64 AAATGGAATTTTGGAAAG-TTTAAGGGTAAAATAGTAATTTTGGGTGAA-ATCGA
* * * * *
33893047 GGGT-AAAATGGTAA-TTTGGAGGTTTCG-GGGTTAAAGATGA-AATTTT-G-GAAAGTTTGGGG
1 GGTTAAAAATGG-AATTTTGAAAG-TTCGAGGG-TAAA-ATGATAATTTTGGTGAAA--TCGAGG
* * *
33893106 TTAAAAATGAAATTTTAGAAAGTTTAAGGGTAAAATGGTAATTTT
60 TTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATAGTAATTTT
33893151 TGGATAGTTT
Statistics
Matches: 385, Mismatches: 49, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
111 4 0.01
112 7 0.02
113 28 0.07
114 42 0.11
115 15 0.04
116 88 0.23
117 89 0.23
118 109 0.28
119 3 0.01
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.32
Consensus pattern (116 bp):
GGTTAAAAATGGAATTTTGAAAGTTCGAGGGTAAAATGATAATTTTGGTGAAATCGAGGTTAAAA
ATGGAATTTTGGAAAGTTTAAGGGTAAAATAGTAATTTTGGGTGAAATCGA
Found at i:33893160 original size:59 final size:59
Alignment explanation
Indices: 33892580--33893155 Score: 470
Period size: 59 Copynumber: 9.9 Consensus size: 59
33892570 GGAAAATTTA
* *** * *
33892580 GGGTTAAAAATGGGATTTTGG-AAGATTCGGGGGTAAAATGATAATTTT-TAGTGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAG-TTTAAGGGTAAAATGGTAATTTTGGA-TGAAATCG
** ** * * *
33892639 AAGTTAAAAATGGGGTTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTGG-TAAAATCA
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGATGAAATCG
* ** * *
33892697 GGGTAAAAAATGGAATTTTGG-AAGATTCGAGGGCAAAATGGTGATTTTGG-TGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAG-TTTAAGGGTAAAATGGTAATTTTGGATGAAATCG
* ** *
33892755 AGGTTAAAAAT-GAAGTTTTGGAAAGTTTAAGGGTAAAATATTAATTTTGGGTGAAATCG
1 GGGTTAAAAATGGAA-TTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGATGAAATCG
* * *
33892814 AGGTTAAAAATGGAATTTAT-GAAAGTTTAAGGGTAAAATGATAATTTTGGGTGAAATCG
1 GGGTTAAAAATGGAATTT-TGGAAAGTTTAAGGGTAAAATGGTAATTTTGGATGAAATCG
* * *
33892873 AGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTGGGTGAAATCG
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGATGAAATCG
** * *
33892932 GGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAACGGTAATTTTGG-TGAAATCA
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGATGAAATCG
* * *** * ** *
33892990 GTG-TAAAAATGGAGTTTT-GAAAGATTCGGGGGTAAAATAGTAATTTTGGA--AGTTTG
1 GGGTTAAAAATGGAATTTTGGAAAG-TTTAAGGGTAAAATGGTAATTTTGGATGAAATCG
* ** * * *
33893046 AGGG-T-AAAATGGTAA-TTTGG-AGGTTTCGGGGTTAAAGAT-GAAATTTTGGA--AAGTTTG
1 -GGGTTAAAAATGG-AATTTTGGAAAGTTTAAGGG-TAAA-ATGGTAATTTTGGATGAA-ATCG
* *
33893103 GGGTTAAAAATGAAATTTTAGAAAGTTTAAGGGTAAAATGGTAATTTTTGGAT
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAA-TTTTGGAT
33893156 AGTTTAGGGA
Statistics
Matches: 434, Mismatches: 59, Indels: 47
0.80 0.11 0.09
Matches are distributed among these distances:
55 6 0.01
56 37 0.09
57 58 0.13
58 111 0.26
59 215 0.50
60 7 0.02
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.32
Consensus pattern (59 bp):
GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGATGAAATCG
Found at i:33894778 original size:11 final size:11
Alignment explanation
Indices: 33894762--33894817 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
33894752 TATAATAATG
33894762 TTAAATTTAAA-
1 TTAAA-TTAAAT
33894773 TTAAATTCAAAT
1 TTAAATT-AAAT
*
33894785 TTAAATTGAAT
1 TTAAATTAAAT
* *
33894796 TCAAAATAAAT
1 TTAAATTAAAT
33894807 TTAAAATTAAA
1 TT-AAATTAAA
33894818 ATAAGTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
10 2 0.06
11 20 0.56
12 14 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:33894784 original size:17 final size:17
Alignment explanation
Indices: 33894764--33894800 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
33894754 TAATAATGTT
33894764 AAATTTAAATTAAATTC
1 AAATTTAAATTAAATTC
*
33894781 AAATTTAAATTGAATTC
1 AAATTTAAATTAAATTC
33894798 AAA
1 AAA
33894801 ATAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTTAAATTAAATTC
Found at i:33894818 original size:17 final size:18
Alignment explanation
Indices: 33894793--33894836 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
33894783 ATTTAAATTG
33894793 AATTCAAAATAAATTTAA
1 AATTCAAAATAAATTTAA
*
33894811 AATT-AAAATAAGTTT-A
1 AATTCAAAATAAATTTAA
*
33894827 ATTTCAAAAT
1 AATTCAAAAT
33894837 GGTTTGGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (18 bp):
AATTCAAAATAAATTTAA
Found at i:33903508 original size:58 final size:59
Alignment explanation
Indices: 33903168--33903506 Score: 404
Period size: 59 Copynumber: 5.8 Consensus size: 59
33903158 GAAGATTTAG
* * * *
33903168 GGTTAAAAAGGGGATTTT-GAAAGGTTCGAGGGGTAAAATGGTAA-TTTTAGTGAAATCGA
1 GGTTAAAAATGGAATTTTGGAAA-GTTTG-GGGGTAAAATGGTAATTTTTGGTGAAATCGA
* * * * * **
33903227 GATTTAAAATGGGACTTTGGAAAGTTTGGGGGT-AGATGGTAATTTTTGG-GAGTTTCG-
1 GGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGA-AATCGA
* ***
33903284 GGGTAAAAATGGAATTTTGGAAAGTTCAAGGGTAAAATGGTAATTTTTGGTGAAATCGA
1 GGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCGA
* * *
33903343 GGTTAAAAATGGGATATTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTAAAATC-A
1 GGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCGA
*
33903401 GGGTT-AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGGAATCGA
1 -GGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCGA
**
33903460 GGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTT
1 GGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTT
33903507 GGAAGTTTTG
Statistics
Matches: 238, Mismatches: 33, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
57 35 0.15
58 84 0.35
59 115 0.48
60 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.33
Consensus pattern (59 bp):
GGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCGA
Found at i:33903527 original size:117 final size:117
Alignment explanation
Indices: 33903144--33903528 Score: 460
Period size: 117 Copynumber: 3.3 Consensus size: 117
33903134 TTTGAGGGCA
* * * *
33903144 AAAAT-GTAA-TTTTGGAAGATTTAGGGTTAAAAAGGGGATTTT-GAAAGGTTCGAGGGGTAAAA
1 AAAATGGTAATTTTTGGAAG-TTTCGGGGTAAAAATGGAATTTTGGAAA-GTTCG-GGGGTAAAA
* * * *
33903206 TGGTAA-TTTTAGTGAAATCGAGATTTAAAATGGGACTTTGGAAAGTTTGGGGGT
63 TGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGT
* * **
33903260 -AGATGGTAATTTTTGGGAGTTTCGGGGTAAAAATGGAATTTTGGAAAGTTCAAGGGTAAAATGG
1 AAAATGGTAATTTTTGGAAGTTTCGGGGTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGG
*
33903324 TAATTTTTGGTGAAATCGAGGTTAAAAATGGGATATTGGAAAGTTTGGGGGT
66 TAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGT
** * * *
33903376 AAAATGGTAATTTTTGGTAA-AATCAGGGTTAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATG
1 AAAATGGTAATTTTTGG-AAGTTTCGGGGTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATG
* * **
33903440 GTAATTTTTGGTGGAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGT
65 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGT
* *
33903493 AAAATGGTAA-TTTTGGAAGTTTTGGGGGTCAAAATG
1 AAAATGGTAATTTTTGGAAG-TTTCGGGGTAAAAATG
33903529 TACTTTTCTG
Statistics
Matches: 229, Mismatches: 32, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
115 19 0.08
116 76 0.33
117 133 0.58
118 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.33
Consensus pattern (117 bp):
AAAATGGTAATTTTTGGAAGTTTCGGGGTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGG
TAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGT
Found at i:33903535 original size:29 final size:30
Alignment explanation
Indices: 33903465--33903565 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 30
33903455 ATCGAGGTTA
* * **
33903465 AAAATGGAATTTT-GGAAAGTTTAAGGGT-
1 AAAATGTAATTTTCGGAAATTTTGGGGGTC
*
33903493 AAAATGGTAATTTT-GGAAGTTTTGGGGGTC
1 AAAAT-GTAATTTTCGGAAATTTTGGGGGTC
* * *
33903523 AAAATGTACTTTTCTGAAATTTTTGGGGTC
1 AAAATGTAATTTTCGGAAATTTTGGGGGTC
*
33903553 AAAATGTAGTTTT
1 AAAATGTAATTTT
33903566 TAGATAATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 5 0.08
29 25 0.42
30 30 0.50
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTCGGAAATTTTGGGGGTC
Found at i:33904400 original size:16 final size:17
Alignment explanation
Indices: 33904379--33904413 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
33904369 TTTTGAAACC
33904379 AAATCCAGATCTGG-GA
1 AAATCCAGATCTGGAGA
33904395 AAATCCAGATCTGGAGA
1 AAATCCAGATCTGGAGA
33904412 AA
1 AA
33904414 TTTCGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (17 bp):
AAATCCAGATCTGGAGA
Found at i:33905356 original size:13 final size:13
Alignment explanation
Indices: 33905340--33905381 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
33905330 ATTCGGGCCC
33905340 TTGTAAATGGACT
1 TTGTAAATGGACT
33905353 TTGTAAATGGACT
1 TTGTAAATGGACT
33905366 TTGTAAATGGACT
1 TTGTAAATGGACT
33905379 TTG
1 TTG
33905382 ATTTTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (13 bp):
TTGTAAATGGACT
Found at i:33905417 original size:17 final size:17
Alignment explanation
Indices: 33905395--33905478 Score: 100
Period size: 17 Copynumber: 5.0 Consensus size: 17
33905385 TTAATTTTAG
* *
33905395 TTTAATATTATTTTAAA
1 TTTAATATAAATTTAAA
*
33905412 TTTAAT-TAAACTTAAA
1 TTTAATATAAATTTAAA
33905428 TTTAA-AGTAAATTTAAA
1 TTTAATA-TAAATTTAAA
*
33905445 TTTAAAATAAATTTAAA
1 TTTAATATAAATTTAAA
*
33905462 TTTAAGATAAATTTAAA
1 TTTAATATAAATTTAAA
33905479 ACCCTTTTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
16 12 0.20
17 46 0.78
18 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (17 bp):
TTTAATATAAATTTAAA
Found at i:33905429 original size:11 final size:11
Alignment explanation
Indices: 33905406--33905478 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
33905396 TTAATATTAT
*
33905406 TTTAAATTTAA
1 TTTAAATTAAA
33905417 -TTAAACTTAAA
1 TTTAAA-TTAAA
*
33905428 TTTAAAGTAAA
1 TTTAAATTAAA
33905439 TTTAAATTTAAA
1 TTTAAA-TTAAA
*
33905451 -ATAAATTTAAA
1 TTTAAA-TTAAA
33905462 TTTAAGA-TAAA
1 TTTAA-ATTAAA
33905473 TTTAAA
1 TTTAAA
33905479 ACCCTTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
10 6 0.12
11 33 0.63
12 12 0.23
13 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:33905444 original size:6 final size:6
Alignment explanation
Indices: 33905406--33905478 Score: 68
Period size: 6 Copynumber: 13.0 Consensus size: 6
33905396 TTAATATTAT
* *
33905406 TTTAAA TTT-AA -TTAAA CTTAAA TTTAAA -GTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
33905451 -ATAAA TTTAAA TTTAAGA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA
33905479 ACCCTTTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
4 3 0.05
5 15 0.27
6 36 0.65
7 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:33905848 original size:38 final size:38
Alignment explanation
Indices: 33905799--33906002 Score: 132
Period size: 38 Copynumber: 5.4 Consensus size: 38
33905789 CTATCCAACT
33905799 TTACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTC
1 TTACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTC
* * ** ***
33905837 TTACTTCAATTTC-A-GAGATAAAGATTTGTTATCCAACTC
1 TTACTTCAATTTCAAGGGGAT-AGGAAATG--ATCTTGCTC
* * *
33905876 -TACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTC
1 TTACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTC
* * ** ***
33905913 TTACTTCAATTTC-A-GAGATAAAGATTTGTTATCCAACTC
1 TTACTTCAATTTCAAGGGGAT-AGGAAATG--ATCTTGCTC
* * *
33905952 -TACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTC
1 TTACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTC
33905989 TTACTTCAATTTCA
1 TTACTTCAATTTCA
33906003 GAGATAAAGA
Statistics
Matches: 117, Mismatches: 37, Indels: 24
0.66 0.21 0.13
Matches are distributed among these distances:
36 7 0.06
37 21 0.18
38 62 0.53
39 21 0.18
40 6 0.05
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (38 bp):
TTACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTC
Found at i:33905881 original size:76 final size:76
Alignment explanation
Indices: 33905750--33906525 Score: 529
Period size: 76 Copynumber: 10.0 Consensus size: 76
33905740 TCGAGGCTTC
* * *
33905750 ATCTTGCTCTTACTTCAATTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAA-TTT-CAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
* *
33905815 GGGATAGGAAATG
64 AGGATAGGAAACG
*
33905828 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
33905893 GATAGGAAACG
66 GATAGGAAACG
* *
33905904 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
33905969 GATAGGAAACG
66 GATAGGAAACG
* *
33905980 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTATTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
*
33906045 GATAGGAAATG
66 GATAGGAAACG
* * * ** ** ** * * *
33906056 ATGTTGGTGCCTCATTTTAC-TCTTACTTCA-ATTTCTGAGGGACGAAGGCTTGT--TA-TCCAG
1 AT-CT--TG-CTC---TTACTTC-AATTTCAGA--GAT-AAAGAC--TTG-TTATCCAACTCTA-
* * **** * * *
33906116 CTT-TACTTCAATTTCAAGAGGATAGG
51 CTTCAATTTCAA-GAGGATAGGAAACG
*** * * * * ** * * * *** * * *
33906142 AAAATGATGTT-GTTCTTACTTT-A-ATTTCAGAGA-TAAAGACT-TGTTA-TCCAGC-TCTACT
1 ATCTTGCTCTTACTTC--AATTTCAGAGAT-AAAGACT--TG-TTATCCAACTCTA-CTTCAATT
**** * * *
33906200 TCAATTTCAAGAGGATAGG
59 TCAA-GAGGATAGGAAACG
*** *
33906219 A-AAGGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTT
1 ATCTTG--CTC----TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTT
*
33906283 CAAGAGGATAGGAAATG
60 CAAGAGGATAGGAAACG
* * *
33906300 ATGTTGGTCATT-CTTCAATTTCAGAGATAAAGATTTGTTATCCAACTCTACTTCAATTTCAAGA
1 ATCTTGCTC-TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA
33906364 GGATAGGAAACG
65 GGATAGGAAACG
* *
33906376 ATGTTGCTCTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
*
33906441 GATAGGAAATG
66 GATAGGAAACG
*
33906452 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
33906517 GATAGGAAA
66 GATAGGAAA
33906526 TGATGTTGGT
Statistics
Matches: 576, Mismatches: 84, Indels: 78
0.78 0.11 0.11
Matches are distributed among these distances:
75 3 0.01
76 409 0.71
77 44 0.08
78 19 0.03
79 8 0.01
80 8 0.01
81 16 0.03
82 23 0.04
83 17 0.03
84 1 0.00
85 13 0.02
86 11 0.02
87 1 0.00
88 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAACG
Found at i:33906035 original size:152 final size:152
Alignment explanation
Indices: 33905753--33906533 Score: 1159
Period size: 152 Copynumber: 5.0 Consensus size: 152
33905743 AGGCTTCATC
* * * *
33905753 TTGCTCTTACTTCAATTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGGGG
1 TTGCTCTTACTTCAA-TTT-CAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
* *
33905818 ATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGTTATCCAACTCTACTTCA
64 ATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCA
33905883 ATTTCAAGAGGATAGGAAACGATG
129 ATTTCAAGAGGATAGGAAACGATG
*
33905907 TTGCTCTTACTTCAATTTCAGAGATAAAGATTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
* *
33905972 AGGAAACGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTATTTCAAT
66 AGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAAT
*
33906037 TTCAAGAGGATAGGAAATGATG
131 TTCAAGAGGATAGGAAACGATG
* ** * * *
33906059 TTGGTGCCTCATTTTACTCTTACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTT
1 -T--TG----------CTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTT
* *
33906124 CAATTTCAAGAGGATAGGAAAATGATGTTGTTCTTACTTTAATTTCAGAGATAAAGACTTGTTAT
51 CAATTTCAAGAGGATAGG-AAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
* * *
33906189 CCAGCTCTACTTCAATTTCAAGAGGATAGGAAAGGATC
115 CCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATG
33906227 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
* *
33906292 AGGAAATGATGTTGGTCATT-CTTCAATTTCAGAGATAAAGATTTGTTATCCAACTCTACTTCAA
66 AGGAAATGATGTTGCTC-TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAA
33906356 TTTCAAGAGGATAGGAAACGATG
130 TTTCAAGAGGATAGGAAACGATG
*
33906379 TTGCTCTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
33906444 AGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAAT
66 AGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAAT
*
33906509 TTCAAGAGGATAGGAAATGATG
131 TTCAAGAGGATAGGAAACGATG
33906531 TTG
1 TTG
33906534 GTCCTTCTTC
Statistics
Matches: 569, Mismatches: 40, Indels: 38
0.88 0.06 0.06
Matches are distributed among these distances:
151 2 0.00
152 347 0.61
153 49 0.09
154 15 0.03
155 18 0.03
165 18 0.03
167 43 0.08
168 77 0.14
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (152 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
AGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAAT
TTCAAGAGGATAGGAAACGATG
Found at i:33906139 original size:91 final size:90
Alignment explanation
Indices: 33905986--33906153 Score: 248
Period size: 91 Copynumber: 1.9 Consensus size: 90
33905976 AACGATGTTG
* *
33905986 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTATTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGACAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
33906051 -AAATGATGTTGGTGCCTCATTTTA
66 AAAATGATGTTGGTGCCTCATTTTA
* * * * *
33906075 CTCTTACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTC--AGAGACAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA
33906140 GGAAAATGATGTTG
64 GGAAAATGATGTTG
33906154 TTCTTACTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
89 16 0.23
91 42 0.61
92 11 0.16
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (90 bp):
CTCTTACTTCAATTTCAGAGACAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
AAAATGATGTTGGTGCCTCATTTTA
Found at i:33906526 original size:76 final size:76
Alignment explanation
Indices: 33906075--33906533 Score: 740
Period size: 76 Copynumber: 6.0 Consensus size: 76
33906065 CCTCATTTTA
* ** * * *
33906075 CTCTTACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA
33906140 GGAAAATGATGTTG
64 GG-AAATGATGTTG
* * *
33906154 TTCTTACTTTAATTTCAGAGATAAAGACTTGTTATCCAGCTCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
* *
33906219 AAAGGATCTTG
66 AAATGATGTTG
33906230 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
33906295 AAATGATGTTG
66 AAATGATGTTG
* *
33906306 GTCATT-CTTCAATTTCAGAGATAAAGATTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 CTC-TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
*
33906370 GAAACGATGTTG
65 GAAATGATGTTG
*
33906382 CTCTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
33906447 AAATGATGTTG
66 AAATGATGTTG
33906458 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
33906523 AAATGATGTTG
66 AAATGATGTTG
33906534 GTCCTTCTTC
Statistics
Matches: 356, Mismatches: 22, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
75 2 0.01
76 294 0.83
77 46 0.13
79 14 0.04
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (76 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
AAATGATGTTG
Found at i:33918971 original size:29 final size:30
Alignment explanation
Indices: 33918913--33919356 Score: 168
Period size: 30 Copynumber: 15.1 Consensus size: 30
33918903 AAAATGGGAC
*
33918913 TTTGGAAAG-TTCGGGGGTAAAATGGTAATT
1 TTTGG-AAGTTTCGGGGTTAAAATGGTAATT
*
33918943 TTTGGGAGTTTCGGGGTTAAAATGG-AA-T
1 TTTGGAAGTTTCGGGGTTAAAATGGTAATT
* *
33918971 TTTGAAAAGTTTAGGGG-TAAAATGGTAATT
1 TTTG-GAAGTTTCGGGGTTAAAATGGTAATT
*
33919001 TTTGGTGAA--ATCGGGGTTAAAAAT-G-AGATT
1 TTT-G-GAAGTTTCGGGGTT-AAAATGGTA-ATT
*** * *
33919031 TTCAAAAG-TTCGGGGGTAAAATGGTAATC
1 TTTGGAAGTTTCGGGGTTAAAATGGTAATT
* ** *
33919060 TTTGATAAAATT-GGGGTTAAAAATGG-GA-T
1 TTTG-GAAGTTTCGGGGTT-AAAATGGTAATT
*
33919089 TTTGGAAAG-TTCGGGGGTAAAATGGTAATT
1 TTTGG-AAGTTTCGGGGTTAAAATGGTAATT
* * *
33919119 TTTGGGAGTTTCGAGGTTAAAAT-G-AAAT
1 TTTGGAAGTTTCGGGGTTAAAATGGTAATT
33919147 TTTGGAAAGTTT-GAGGG-TAAAATGGTAATT
1 TTTGG-AAGTTTCG-GGGTTAAAATGGTAATT
* * * *
33919177 TTTGGTGAA--ATCGAGGATAAAAATAG-AATT
1 TTT-G-GAAGTTTCG-GGGTTAAAATGGTAATT
* * * * *
33919207 TTAGAAATTTTAGGGGTAAAAAT-GTAATT
1 TTTGGAAGTTTCGGGGTTAAAATGGTAATT
** ** *
33919236 TTTGGTGGAATCGAGGTTAAAAATGG-AA-T
1 TTTGGAAGTTTCGGGGTT-AAAATGGTAATT
*
33919265 TTTGGAAAGTTTAGGGG-TAAAATGGTAA-T
1 TTTGG-AAGTTTCGGGGTTAAAATGGTAATT
* * *
33919294 TTTAGAAGTTTTAGGGGTCAAAAT-GTAATT
1 TTTGGAAG-TTTCGGGGTTAAAATGGTAATT
** * * *
33919324 TTCTAAAATTTTTGGGGTTAAAAT-GTAGTT
1 TT-TGGAAGTTTCGGGGTTAAAATGGTAATT
33919354 TTT
1 TTT
33919357 AGATAATATA
Statistics
Matches: 311, Mismatches: 65, Indels: 77
0.69 0.14 0.17
Matches are distributed among these distances:
28 57 0.18
29 106 0.34
30 116 0.37
31 31 0.10
32 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.36
Consensus pattern (30 bp):
TTTGGAAGTTTCGGGGTTAAAATGGTAATT
Found at i:33919041 original size:117 final size:115
Alignment explanation
Indices: 33918839--33919296 Score: 442
Period size: 117 Copynumber: 3.9 Consensus size: 115
33918829 GGAAGATTTA
* * * * * * * *
33918839 GGGTTAAAAGGGGATTTTAAAAGGTTCGAGGGGTAAAATGGTAA-TTTTAGTCAAATTGAGATTT
1 GGGTTAAAATGGAATTTTAAAA-GTT-TAGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTA
* * *
33918903 AAAATGGGACTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGGAGTTTCG
64 AAAATGAGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGGA-ATTCG
*
33918956 GGGTTAAAATGGAATTTTGAAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAA
1 GGGTTAAAATGGAATTTT-AAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAA
** * **
33919021 AAATGAGATTTTCAAAAGTTCGGGGGTAAAATGGTAATCTTTGATAAAATT-G
65 AAATGAGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTG--GGAATTCG
* * ** **
33919073 GGGTTAAAAATGGGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG-GAGTTTCGAGGTT
1 GGGTT-AAAATGGAATTTT-AAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGA-AATCGAGGTT
* * * *
33919137 -AAAATGAAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTGAAATCG
63 AAAAATGAGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG-GAATTCG
* * * * *
33919190 AGGATAAAAATAGAATTTTAGAAATTTTAGGGGTAAAAAT-GTAATTTTTGGTGGAATCGAGGTT
1 -GGGTTAAAATGGAATTTTA-AAAGTTTAGGGGT-AAAATGGTAATTTTTGGTGAAATCGAGGTT
**
33919254 AAAAATG-GAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTT
63 AAAAATGAG-ATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTT
33919297 AGAAGTTTTA
Statistics
Matches: 280, Mismatches: 47, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
116 19 0.07
117 159 0.57
118 101 0.36
119 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (115 bp):
GGGTTAAAATGGAATTTTAAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAA
AATGAGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGGAATTCG
Found at i:33919053 original size:59 final size:59
Alignment explanation
Indices: 33918851--33919296 Score: 410
Period size: 59 Copynumber: 7.6 Consensus size: 59
33918841 GTTAAAAGGG
* * * * * *
33918851 GATTTT-AAAAGGTTCGAGGGGTAAAATGGTAA-TTTTAGTCAAATTGAGATTTAAAATGG
1 GATTTTGAAAA-GTTCG-GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGA
* * ** *
33918910 GACTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG-GAGTTTCGGGGTT-AAAATG-
1 GATTTTGAAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGA-AATCGAGGTTAAAAATGA
** *
33918967 GAATTTTGAAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGA
1 G-ATTTTGAAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGA
* * * * * * *
33919027 GATTTTCAAAAGTTCGGGGGTAAAATGGTAATCTTTGATAAAATTGGGGTTAAAAATGG
1 GATTTTGAAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGA
* **
33919086 GATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG-GAGTTTCGAGGTT-AAAATGA
1 GATTTTGAAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGA-AATCGAGGTTAAAAATGA
* * * * *
33919144 AATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGATAAAAAT-A
1 GATTTTGAAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGA
* ** *
33919202 GAATTTT-AGAAATTTTAGGGGTAAAAAT-GTAATTTTTGGTGGAATCGAGGTTAAAAATG-
1 G-ATTTTGA-AAAGTTCGGGGGT-AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGA
* **
33919261 GAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTT
1 G-ATTTTGAAAAGTTCGGGGGTAAAATGGTAATTTT
33919297 AGAAGTTTTA
Statistics
Matches: 323, Mismatches: 48, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
57 1 0.00
58 118 0.37
59 195 0.60
60 9 0.03
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (59 bp):
GATTTTGAAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGA
Found at i:33919083 original size:31 final size:30
Alignment explanation
Indices: 33918955--33919120 Score: 86
Period size: 29 Copynumber: 5.7 Consensus size: 30
33918945 TGGGAGTTTC
*
33918955 GGGGTT-AAAATGG-AATTTTGA-AAAGTTT
1 GGGGTTAAAAATGGTAATTTTGATAAA-ATT
* * *
33918983 AGGGG-T-AAAATGGTAATTTTTGGTGAAATC
1 -GGGGTTAAAAATGGTAA-TTTTGATAAAATT
* *
33919013 GGGGTTAAAAAT-G-AGATTTTCA-AAAGTT
1 GGGGTTAAAAATGGTA-ATTTTGATAAAATT
*
33919041 CGGGGGT-AAAATGGTAATCTTTGATAAAATT
1 -GGGGTTAAAAATGGTAAT-TTTGATAAAATT
* * *
33919072 GGGGTTAAAAATGG-GATTTTG-GAAAGTT
1 GGGGTTAAAAATGGTAATTTTGATAAAATT
*
33919100 CGGGGGT-AAAATGGTAATTTT
1 -GGGGTTAAAAATGGTAATTTT
33919121 TGGGAGTTTC
Statistics
Matches: 105, Mismatches: 18, Indels: 28
0.70 0.12 0.19
Matches are distributed among these distances:
28 28 0.27
29 37 0.35
30 21 0.20
31 19 0.18
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (30 bp):
GGGGTTAAAAATGGTAATTTTGATAAAATT
Found at i:33919139 original size:176 final size:173
Alignment explanation
Indices: 33918851--33919296 Score: 592
Period size: 176 Copynumber: 2.5 Consensus size: 173
33918841 GTTAAAAGGG
* * * *
33918851 GATTTTAAAAGGTTCGAGGGGTAAAATGGTAATTTT-AGTCAAATTGAGATTTAAAATGGGACTT
1 GATTTTAAAA-GTTCG-GGGGTAAAATGGTAATTTTGA-TAAAATTGAGGTTAAAAATGGGATTT
* *
33918915 TGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGGAGTTTCGGGGTTAAAATGGAATTTTGAAAAG
63 TGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGGAGTTTCGAGGTTAAAATGAAATTTTGAAAAG
* *
33918980 TTT-AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGA
128 TTTGA-GGGTAAAATGGTAATTTTTGGTGAAATCGAGGATAAAAAT-A
*
33919027 GATTTTCAAAAGTTCGGGGGTAAAATGGTAATCTTTGATAAAATTGGGGTTAAAAATGGGATTTT
1 GATTTT-AAAAGTTCGGGGGTAAAATGGTAAT-TTTGATAAAATTGAGGTTAAAAATGGGATTTT
*
33919092 GGAAAGTTCGGGGGTAAAATGGTAATTTTTGGGAGTTTCGAGGTTAAAATGAAATTTTGGAAAGT
64 GGAAAGTTCGGGGGTAAAATGGTAATTTTTGGGAGTTTCGAGGTTAAAATGAAATTTTGAAAAGT
33919157 TTGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGATAAAAATA
129 TTGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGATAAAAATA
* ** * ** * *
33919202 GAATTTTAGAAATTTTAGGGGTAAAAAT-GTAATTTTTGGTGGAATCGAGGTTAAAAATGGAATT
1 G-ATTTTA-AAAGTTCGGGGGT-AAAATGGTAA-TTTTGATAAAATTGAGGTTAAAAATGGGATT
**
33919266 TTGGAAAGTTTAGGGGTAAAATGGTAATTTT
62 TTGGAAAGTTCGGGGGTAAAATGGTAATTTT
33919297 AGAAGTTTTA
Statistics
Matches: 241, Mismatches: 21, Indels: 16
0.87 0.08 0.06
Matches are distributed among these distances:
175 19 0.08
176 210 0.87
177 12 0.05
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (173 bp):
GATTTTAAAAGTTCGGGGGTAAAATGGTAATTTTGATAAAATTGAGGTTAAAAATGGGATTTTGG
AAAGTTCGGGGGTAAAATGGTAATTTTTGGGAGTTTCGAGGTTAAAATGAAATTTTGAAAAGTTT
GAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGATAAAAATA
Found at i:33919302 original size:28 final size:31
Alignment explanation
Indices: 33919255--33919348 Score: 99
Period size: 29 Copynumber: 3.2 Consensus size: 31
33919245 ATCGAGGTTA
*
33919255 AAAATGG-AATTTTGGAAAG-TTTAGGGGT-
1 AAAATGGTAATTTTAGAAAGTTTTAGGGGTC
33919283 AAAATGGTAATTTTAG-AAGTTTTAGGGGTC
1 AAAATGGTAATTTTAGAAAGTTTTAGGGGTC
** * * *
33919313 AAAAT-GTAATTTTCTAAAATTTTTGGGGTT
1 AAAATGGTAATTTTAGAAAGTTTTAGGGGTC
33919343 AAAATG
1 AAAATG
33919349 TAGTTTTTAG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
28 10 0.18
29 24 0.44
30 21 0.38
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.37
Consensus pattern (31 bp):
AAAATGGTAATTTTAGAAAGTTTTAGGGGTC
Found at i:33920071 original size:16 final size:17
Alignment explanation
Indices: 33920046--33920080 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
33920036 TTTTGAAACC
33920046 AAATCCAGATCTGG-GA
1 AAATCCAGATCTGGAGA
*
33920062 AAATCTAGATCTGGAGA
1 AAATCCAGATCTGGAGA
33920079 AA
1 AA
33920081 TTTCGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (17 bp):
AAATCCAGATCTGGAGA
Found at i:33921017 original size:13 final size:13
Alignment explanation
Indices: 33921001--33921029 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
33920991 ATTCGGGCCC
33921001 TTGTAAATGGACT
1 TTGTAAATGGACT
33921014 TTGTAAATGGACT
1 TTGTAAATGGACT
33921027 TTG
1 TTG
33921030 ATTTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (13 bp):
TTGTAAATGGACT
Found at i:33921080 original size:6 final size:6
Alignment explanation
Indices: 33921065--33921139 Score: 52
Period size: 6 Copynumber: 12.8 Consensus size: 6
33921055 TTAAATTTGA
* * *
33921065 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT GAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
33921113 -AAAAT TTAAAT TTAAGA- -TAAAT TTAAA
1 TTAAAT TTAAAT TTAA-AT TTAAAT TTAAA
33921140 ACCCTCTTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
4 4 0.07
5 7 0.13
6 37 0.69
7 1 0.02
8 5 0.09
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:33921100 original size:14 final size:14
Alignment explanation
Indices: 33921081--33921107 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33921071 TTAAATTTAA
33921081 AGTAAATTTAAATG
1 AGTAAATTTAAATG
33921095 AGTAAATTTAAAT
1 AGTAAATTTAAAT
33921108 TTAAAAAAAT
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:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
AGTAAATTTAAATG
Found at i:33921119 original size:16 final size:17
Alignment explanation
Indices: 33921098--33921139 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
33921088 TTAAATGAGT
33921098 AAATTTAAATTTAA-AA
1 AAATTTAAATTTAAGAA
*
33921114 AAATTTAAATTTAAGAT
1 AAATTTAAATTTAAGAA
33921131 AAATTTAAA
1 AAATTTAAA
33921140 ACCCTCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
AAATTTAAATTTAAGAA
Found at i:33921120 original size:30 final size:31
Alignment explanation
Indices: 33921066--33921123 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
33921056 TAAATTTGAT
*
33921066 TAAACTTAAATTTAAAGTAAATTTAAATGAG
1 TAAACTTAAATTTAAAGAAAATTTAAATGAG
*
33921097 TAAATTTAAATTTAAA-AAAATTTAAAT
1 TAAACTTAAATTTAAAGAAAATTTAAAT
33921124 TTAAGATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (31 bp):
TAAACTTAAATTTAAAGAAAATTTAAATGAG
Found at i:33921438 original size:11 final size:11
Alignment explanation
Indices: 33921422--33921447 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33921412 CAATTAAGCT
33921422 AATTTCTTCAA
1 AATTTCTTCAA
33921433 AATTTCTTCAA
1 AATTTCTTCAA
33921444 AATT
1 AATT
33921448 AGTGAATAAA
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:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTTCTTCAA
Found at i:33923765 original size:18 final size:18
Alignment explanation
Indices: 33923742--33923779 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
33923732 TCTTCCTCTT
33923742 CCTCTACCTATACCTATA
1 CCTCTACCTATACCTATA
* *
33923760 CCTCTACCTCTACCTTTA
1 CCTCTACCTATACCTATA
33923778 CC
1 CC
33923780 CCTTCCTTTA
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:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (18 bp):
CCTCTACCTATACCTATA
Found at i:33926322 original size:10 final size:10
Alignment explanation
Indices: 33926256--33926337 Score: 53
Period size: 10 Copynumber: 8.2 Consensus size: 10
33926246 AATTTTTAAA
*
33926256 ATTTAAAA-A
1 ATTTAAAATT
33926265 ATTTAAAA-T
1 ATTTAAAATT
33926274 ATTGTAAAAATT
1 ATT-T-AAAATT
* *
33926286 ATTTTAACTT
1 ATTTAAAATT
* *
33926296 TTTTAAAAAT
1 ATTTAAAATT
33926306 A-TTAAAATT
1 ATTTAAAATT
*
33926315 ATTTAAAAAT
1 ATTTAAAATT
*
33926325 ATCTAAAAATT
1 AT-TTAAAATT
33926336 AT
1 AT
33926338 ATATTTTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
9 19 0.34
10 20 0.36
11 13 0.23
12 4 0.07
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (10 bp):
ATTTAAAATT
Found at i:33930149 original size:15 final size:17
Alignment explanation
Indices: 33930130--33930170 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
33930120 TTAATTCTTA
33930130 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
33930146 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
33930162 AAAATTATA
1 AAAATTATA
33930171 TTTTTACGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:33930163 original size:24 final size:24
Alignment explanation
Indices: 33930130--33930197 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 24
33930120 TTAATTCTTA
*
33930130 AAAATTATAAAAATATAAATTATT
1 AAAATAATAAAAATATAAATTATT
* *
33930154 AAAATAAT-AAAAT-TATATTTTT
1 AAAATAATAAAAATATAAATTATT
**
33930176 ACGATAATAAAAATATACAATT
1 AAAATAATAAAAATATA-AATT
33930198 TAATTTTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 13 0.37
23 10 0.29
24 9 0.26
25 3 0.09
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (24 bp):
AAAATAATAAAAATATAAATTATT
Found at i:33934474 original size:16 final size:16
Alignment explanation
Indices: 33934450--33934489 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
33934440 GAACACATAA
*
33934450 ATTTAAAACAATATAT
1 ATTTGAAACAATATAT
*
33934466 ATTTGAAACCATATAT
1 ATTTGAAACAATATAT
33934482 ATTTGAAA
1 ATTTGAAA
33934490 ACTTTTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTTGAAACAATATAT
Found at i:33949200 original size:13 final size:15
Alignment explanation
Indices: 33949167--33949202 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
33949157 TAATTGTGAT
33949167 CTAA-TCAAATTAAG
1 CTAATTCAAATTAAG
33949181 CTAATTCAAA-TAAG
1 CTAATTCAAATTAAG
33949195 -TAATTCAA
1 CTAATTCAA
33949203 GTTCGAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 8 0.38
15 5 0.24
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.31
Consensus pattern (15 bp):
CTAATTCAAATTAAG
Found at i:33954425 original size:6 final size:6
Alignment explanation
Indices: 33954414--33954439 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
33954404 AAATGGAGAT
33954414 AGAGGG AGAGGG AGAGGG AGAGGG AG
1 AGAGGG AGAGGG AGAGGG AGAGGG AG
33954440 GGGGGGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
AGAGGG
Found at i:33962507 original size:17 final size:16
Alignment explanation
Indices: 33962487--33962576 Score: 76
Period size: 17 Copynumber: 5.3 Consensus size: 16
33962477 CATTTGAAAA
33962487 TTAAATTTATTTTAAT
1 TTAAATTTATTTTAAT
33962503 CTTAAATTTATTTTAAAT
1 -TTAAATTTATTTT-AAT
*
33962521 TT-AATTTAAATTTAAAT
1 TTAAATTT--ATTTTAAT
*
33962538 TTAAATTTAATTTAAAT
1 TTAAATTT-ATTTTAAT
*
33962555 TT-AATATTATTATAAAT
1 TTAAAT-TTATT-TTAAT
33962572 TTAAA
1 TTAAA
33962577 AAGAAAAGTC
Statistics
Matches: 65, Mismatches: 1, Indels: 13
0.82 0.01 0.16
Matches are distributed among these distances:
16 11 0.17
17 40 0.62
18 14 0.22
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAATTTATTTTAAT
Found at i:33962518 original size:11 final size:11
Alignment explanation
Indices: 33962484--33962559 Score: 100
Period size: 11 Copynumber: 6.8 Consensus size: 11
33962474 AACCATTTGA
*
33962484 AAATTAAATTT
1 AAATTTAATTT
*
33962495 -ATTTTAATCTT
1 AAATTTAAT-TT
*
33962506 AAATTTATTTT
1 AAATTTAATTT
33962517 AAATTTAATTT
1 AAATTTAATTT
33962528 AAATTTAAATTT
1 AAATTT-AATTT
33962540 AAATTTAATTT
1 AAATTTAATTT
33962551 AAATTTAAT
1 AAATTTAAT
33962560 ATTATTATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
10 6 0.11
11 34 0.60
12 17 0.30
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:33962576 original size:6 final size:6
Alignment explanation
Indices: 33962487--33962558 Score: 82
Period size: 6 Copynumber: 12.7 Consensus size: 6
33962477 CATTTGAAAA
* *
33962487 TTAAAT TT--AT TTTAAT CTTAAAT TT-ATT TTAAAT TT-AAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
33962532 TTAAAT TTAAAT TT-AAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
33962559 TATTATTATA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
4 4 0.07
5 14 0.25
6 34 0.60
7 5 0.09
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:33963290 original size:13 final size:13
Alignment explanation
Indices: 33963272--33963310 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
33963262 AATAACCATA
33963272 ATAATTAATAATT
1 ATAATTAATAATT
*
33963285 ATAATTAATATTT
1 ATAATTAATAATT
*
33963298 ATGATT-ATAATT
1 ATAATTAATAATT
33963310 A
1 A
33963311 ATGTCAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (13 bp):
ATAATTAATAATT
Found at i:33963323 original size:19 final size:19
Alignment explanation
Indices: 33963278--33963328 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
33963268 CATAATAATT
*
33963278 AATAATTATAATTAATATT
1 AATAATTATAATTAATATC
* * *
33963297 TATGATTATAATTAATGTC
1 AATAATTATAATTAATATC
33963316 AATAATTAATAAT
1 AATAATT-ATAAT
33963329 ATTAAATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (19 bp):
AATAATTATAATTAATATC
Found at i:33964271 original size:162 final size:162
Alignment explanation
Indices: 33964083--33964424 Score: 522
Period size: 162 Copynumber: 2.1 Consensus size: 162
33964073 ATTGCTTTTC
* *
33964083 AATTGAGTCCTATGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTCT
1 AATT-AGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTAT
*
33964148 GCATTTAGTCCCTAACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTA
65 GCATTTAGTCCCTAACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTA
* * * *
33964213 CAAAAATGGCCCAAGAATTTTTCATGGTTTATA
130 CAAAAATGGCCCAAGAATGTTTCAAGATTTACA
*
33964246 AATTAGTCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTATG
1 AATTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTATG
* ***
33964311 CATTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTAC
66 CATTTAGTCCCTAACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTAC
* * *
33964376 GAAATTGGTCCAAGAATGTTTCAAGATTTACA
131 AAAAATGGCCCAAGAATGTTTCAAGATTTACA
* *
33964408 ACTTAATCCTTTGACTG
1 AATTAGTCCTTTGACTG
33964425 CTGGATGCCT
Statistics
Matches: 162, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
162 158 0.98
163 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (162 bp):
AATTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTATG
CATTTAGTCCCTAACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTAC
AAAAATGGCCCAAGAATGTTTCAAGATTTACA
Found at i:33964588 original size:29 final size:29
Alignment explanation
Indices: 33964541--33964863 Score: 154
Period size: 29 Copynumber: 11.0 Consensus size: 29
33964531 CTACTTTCTG
*
33964541 ACCCT-GAAACTTCTAAAAATTACCATTTT
1 ACCCTCGAATCTTCT-AAAATTACCATTTT
33964570 ACCCTCGAATCTTCTAAAATT-CCATTTTT
1 ACCCTCGAATCTTCTAAAATTACCA-TTTT
* ** *
33964599 AACCC-CGATTTCACCAAAAATTACCATTTT
1 -ACCCTCGA-ATCTTCTAAAATTACCATTTT
*
33964629 ACCCCCGAATCTTCTAAAATT-CCATTTTT
1 ACCCTCGAATCTTCTAAAATTACCA-TTTT
* ** *
33964658 AACCC-CGATTTCACCAAAAATTACCATTTT
1 -ACCCTCGA-ATCTTCTAAAATTACCATTTT
* * *
33964688 ACCCCCAAATCTTTTAAAATT-CCATTTTT
1 ACCCTCGAATCTTCTAAAATTACCA-TTTT
*
33964717 AACCC-CG-ATTTTCACTGAAAATTACCATTTT
1 -ACCCTCGAATCTT--CT-AAAATTACCATTTT
* *
33964748 ACCCCCGAA-CTTTCCAAAATT-CCATTTTT
1 ACCCTCGAATC-TTCTAAAATTACCA-TTTT
* ** * *
33964777 AACCCT-GATTTCACCAAAAATCACCATTTT
1 -ACCCTCGA-ATCTTCTAAAATTACCATTTT
*
33964807 ACCCTCGAA-CTTTCCAAAATT-CCATTTT
1 ACCCTCGAATC-TTCTAAAATTACCATTTT
* *
33964835 AACCTCG-AT-TTCACCAAAATTACCATTTT
1 ACCCTCGAATCTT--CTAAAATTACCATTTT
33964864 GCCCCCGGGT
Statistics
Matches: 227, Mismatches: 36, Indels: 62
0.70 0.11 0.19
Matches are distributed among these distances:
26 2 0.01
27 1 0.00
28 38 0.17
29 85 0.37
30 73 0.32
31 22 0.10
32 6 0.03
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (29 bp):
ACCCTCGAATCTTCTAAAATTACCATTTT
Found at i:33964627 original size:59 final size:59
Alignment explanation
Indices: 33964555--33964870 Score: 469
Period size: 59 Copynumber: 5.4 Consensus size: 59
33964545 TGAAACTTCT
*
33964555 AAAAATTACCATTTTACCCTCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
33964614 AAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* * *
33964673 AAAAATTACCATTTTACCCCCAAATCTTTTAAAATTCCATTTTTAACCCCGATTTTCACT
1 AAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGA-TTTCACC
* * *
33964733 GAAAATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCATTTTTAACCCTGATTTCACC
1 AAAAATTACCATTTTACCCCCGAATC-TTCTAAAATTCCATTTTTAACCCCGATTTCACC
* * * *
33964792 AAAAATCACCATTTTACCCTCGAA-CTTTCCAAAATTCCA-TTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAATC-TTCTAAAATTCCATTTTTAACCCCGATTTCACC
*
33964850 -AAAATTACCATTTTGCCCCCG
1 AAAAATTACCATTTTACCCCCG
33964871 GGTATCCAAA
Statistics
Matches: 237, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
57 18 0.08
58 17 0.07
59 151 0.64
60 51 0.22
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:33964787 original size:119 final size:116
Alignment explanation
Indices: 33964555--33964905 Score: 481
Period size: 119 Copynumber: 3.0 Consensus size: 116
33964545 TGAAACTTCT
*
33964555 AAAAATTACCATTTTACCCTCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCA-CAAAAAT
* *
33964620 TACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
65 TACCATTTTACCCCCGAAT-TTCCAAAATTCCATTTTTAACCCTGATTTCACC
* * *
33964673 AAAAATTACCATTTTACCCCCAAATCTTTTAAAATTCCATTTTTAACCCCGATTTTCACTGAAAA
1 AAAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCCGA-TTTCAC-AAAAA
33964738 TTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACC
64 TTACCATTTTACCCCCGAA-TTTCCAAAATTCCATTTTTAACCCTGATTTCACC
* * * *
33964792 AAAAATCACCATTTTACCCTCGAA-CTTTCCAAAATTCCA-TTTTAACCTCGATTTCACCAAAAT
1 AAAAATTACCATTTTACCCTCGAATCTTT-TAAAATTCCATTTTTAACCCCGATTTCACAAAAAT
* ** * * *
33964855 TACCATTTTGCCCCCGGGTATCCAAAAGTCCCATTTTTCACCCTGATTTCA
65 TACCATTTTACCCCCGAATTTCCAAAA-TTCCATTTTTAACCCTGATTTCA
33964906 TCGTTTATCA
Statistics
Matches: 210, Mismatches: 18, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
115 8 0.04
116 41 0.20
117 6 0.03
118 65 0.31
119 89 0.42
120 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (116 bp):
AAAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACAAAAATT
ACCATTTTACCCCCGAATTTCCAAAATTCCATTTTTAACCCTGATTTCACC
Found at i:33968261 original size:19 final size:20
Alignment explanation
Indices: 33968239--33968287 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
33968229 TTACAAAAAT
33968239 AATT-AAAATAATTTTTAAA
1 AATTCAAAATAATTTTTAAA
33968258 AATTCAAAATAATTTTT-AA
1 AATTCAAAATAATTTTTAAA
*
33968277 GATTCAAAATA
1 AATTCAAAATA
33968288 TTAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (20 bp):
AATTCAAAATAATTTTTAAA
Found at i:33972220 original size:6 final size:6
Alignment explanation
Indices: 33972209--33972266 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
33972199 AATTAAATTT
* * * *
33972209 ATTTTA ATTTTA AATTT- ATTTTA AATTCA ATTTTA A-TTTA AATTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
*
33972255 ATATT- ATTTTA A
1 ATTTTA ATTTTA A
33972267 ATTCAAAAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTTA
Found at i:33972221 original size:17 final size:17
Alignment explanation
Indices: 33972201--33972269 Score: 86
Period size: 17 Copynumber: 4.1 Consensus size: 17
33972191 CATTTGGAAA
*
33972201 TTAAATTTATTTTAATT
1 TTAAATTTATTTTAAAT
33972218 TTAAATTTATTTTAAAT
1 TTAAATTTATTTTAAAT
* * *
33972235 TCAATTTTAATTTAAAT
1 TTAAATTTATTTTAAAT
33972252 TT-AATATTATTTTAAAT
1 TTAAAT-TTATTTTAAAT
33972269 T
1 T
33972270 CAAAAAGAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 2 0.05
17 42 0.95
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAAATTTATTTTAAAT
Found at i:33973066 original size:29 final size:30
Alignment explanation
Indices: 33973013--33973094 Score: 78
Period size: 32 Copynumber: 2.7 Consensus size: 30
33973003 TTGAATGTAT
* *
33973013 ATTAATAGTAATTAATAA-CTATTTT-CAAC
1 ATTAATAGTAA-TAATAATTTTTTTTACAAC
* * *
33973042 ATTAATATTATTAATAATTTTTTTTAAATAAC
1 ATTAATAGTAATAATAATTTTTTTT--ACAAC
33973074 ATTAATAGTAATAATAATTTT
1 ATTAATAGTAATAATAATTTT
33973095 AATAATAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
28 6 0.14
29 14 0.33
32 22 0.52
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (30 bp):
ATTAATAGTAATAATAATTTTTTTTACAAC
Found at i:33973097 original size:12 final size:12
Alignment explanation
Indices: 33973082--33973106 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33973072 ACATTAATAG
33973082 TAATAATAATTT
1 TAATAATAATTT
33973094 TAATAATAATTT
1 TAATAATAATTT
33973106 T
1 T
33973107 TATTAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:33974156 original size:30 final size:29
Alignment explanation
Indices: 33974121--33974229 Score: 146
Period size: 30 Copynumber: 3.7 Consensus size: 29
33974111 TAATTGTCCA
*
33974121 AAAATTATATTTTAACCCTAAAACTTTTT
1 AAAATTACATTTTAACCCTAAAACTTTTT
*
33974150 GAAAATTGCATTTTAACCCTAAAACTTTTCT
1 -AAAATTACATTTTAACCCTAAAACTTTT-T
* * *
33974181 AATATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCTAAAACTTTT-T
33974211 AAAATTACATTTTAACCCT
1 AAAATTACATTTTAACCCT
33974230 CGAACCTTCC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
30 69 0.99
31 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (29 bp):
AAAATTACATTTTAACCCTAAAACTTTTT
Found at i:33974254 original size:60 final size:61
Alignment explanation
Indices: 33974117--33974258 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 61
33974107 TCCCTAATTG
* * ** * *
33974117 TCCAAAAATT-ATATTTTAACCCTAAAACTTTTTGAAAATTGCATTTTAACCCTAAAACTTT
1 TCCAAAATTTCAT-TTTTGACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTCT
* * * **
33974178 TCTAATATTACA-TTTTGACCCTAAAACTTTTCCAAAATTACATTTTAACCCTCGAAC-CT
1 TCCAAAATTTCATTTTTGACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTCT
33974237 TCCAAAATTTCATTTTTGACCC
1 TCCAAAATTTCATTTTTGACCC
33974259 CGATTTTACC
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
59 10 0.15
60 48 0.74
61 6 0.09
62 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.39
Consensus pattern (61 bp):
TCCAAAATTTCATTTTTGACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTCT
Found at i:33974283 original size:60 final size:58
Alignment explanation
Indices: 33974205--33974370 Score: 178
Period size: 60 Copynumber: 2.8 Consensus size: 58
33974195 ACCCTAAAAC
* *
33974205 TTTTCCAAAATTAC-ATTTTAACCCTCGAACCTTCCAAAATTTCATTTTT-GACCCCGA
1 TTTTCCAAAATTACAATTTTAACCCCCGAACCTTCCAAAATTCCATTTTTAG-CCCCGA
* ** *
33974262 TTTTACCAAAATTTACAATTTTACCCCCCGAATTTTCCAAAGTTCCATTTTTAGCCCCGA
1 TTTT-CCAAAA-TTACAATTTTAACCCCCGAACCTTCCAAAATTCCATTTTTAGCCCCGA
* **
33974322 TTTCTCCAAAATTACAATTTT-GCCCCCGAA-AGTCCAAAATTACCATTTT
1 TTT-TCCAAAATTACAATTTTAACCCCCGAACCTTCCAAAATT-CCATTTT
33974371 GCCCCCGGGT
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
57 12 0.13
58 21 0.23
59 14 0.15
60 44 0.47
61 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (58 bp):
TTTTCCAAAATTACAATTTTAACCCCCGAACCTTCCAAAATTCCATTTTTAGCCCCGA
Found at i:33974347 original size:28 final size:27
Alignment explanation
Indices: 33974205--33974375 Score: 110
Period size: 29 Copynumber: 5.9 Consensus size: 27
33974195 ACCCTAAAAC
*
33974205 TTTTCCAAAATTAC-ATTTTAACCCTCGAA
1 TTTTCCAAAATTACAATTTT-GCCC-CG-A
** * *
33974234 CCTTCCAAAATTTCATTTTTGACCCCGA
1 TTTTCCAAAATTACAATTTTG-CCCCGA
*
33974262 TTTTACCAAAATTTACAATTTTACCCCCCGAA
1 TTTT-CCAAAA-TTACAATTTT--GCCCCG-A
* * *
33974294 TTTTCCAAAGTTCCATTTTTAGCCCCGA
1 TTTTCCAAAATTACAATTTT-GCCCCGA
33974322 TTTCTCCAAAATTACAATTTTGCCCCCGA
1 TTT-TCCAAAATTACAATTTTG-CCCCGA
*** *
33974351 AAGTCCAAAATTACCATTTTGCCCC
1 TTTTCCAAAATTACAATTTTGCCCC
33974376 CGGGTATCCA
Statistics
Matches: 111, Mismatches: 22, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
27 4 0.04
28 25 0.23
29 44 0.40
30 23 0.21
31 10 0.09
32 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (27 bp):
TTTTCCAAAATTACAATTTTGCCCCGA
Found at i:33975873 original size:9 final size:10
Alignment explanation
Indices: 33975854--33975890 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
33975844 GTAATAAATA
33975854 TAATAATTTT
1 TAATAATTTT
33975864 TAATAATTTT
1 TAATAATTTT
*
33975874 TAA-AATTTA
1 TAATAATTTT
33975883 T-ATAATTT
1 TAATAATTT
33975891 AGAAAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
8 1 0.04
9 11 0.44
10 13 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TAATAATTTT
Found at i:33978618 original size:21 final size:21
Alignment explanation
Indices: 33978574--33978632 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
33978564 TTTTTAAAAA
**
33978574 AAATATAAAATATAAATTTAT
1 AAATATAAAATATAAATCAAT
33978595 AAATATAAAATA-AAATCAATT
1 AAATATAAAATATAAATCAA-T
*
33978616 AAACAATAAAAATATAA
1 AAA-TAT-AAAATATAA
33978633 GAAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 5 0.16
21 16 0.52
22 2 0.06
23 6 0.19
24 2 0.06
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATATAAAATATAAATCAAT
Found at i:33983181 original size:26 final size:26
Alignment explanation
Indices: 33983145--33983199 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
33983135 TTGTCTGATA
33983145 CACCGCAACAATATGATATGCATTAC
1 CACCGCAACAATATGATATGCATTAC
33983171 CACCGCAACAATATGATATGCATTAC
1 CACCGCAACAATATGATATGCATTAC
33983197 CAC
1 CAC
33983200 AAAATAGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (26 bp):
CACCGCAACAATATGATATGCATTAC
Found at i:33985361 original size:21 final size:19
Alignment explanation
Indices: 33985335--33985378 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
33985325 ACGTCAGCTG
33985335 ATTTTTAAAATTATTAAAATT
1 ATTTTTAAAA-TA-TAAAATT
33985356 ATTTTTTAAAATATAAAATT
1 A-TTTTTAAAATATAAAATT
33985376 ATT
1 ATT
33985379 AAAATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 8 0.36
21 3 0.14
22 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTTAAAATATAAAATT
Found at i:33985372 original size:20 final size:22
Alignment explanation
Indices: 33985336--33985378 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
33985326 CGTCAGCTGA
33985336 TTTTTAAAATTATTAAAATTAT
1 TTTTTAAAATTATTAAAATTAT
33985358 TTTTTAAAA-TA-TAAAATTAT
1 TTTTTAAAATTATTAAAATTAT
33985378 T
1 T
33985379 AAAATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.48
21 2 0.10
22 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTTAAAATTATTAAAATTAT
Found at i:33985382 original size:29 final size:31
Alignment explanation
Indices: 33985340--33985412 Score: 123
Period size: 29 Copynumber: 2.4 Consensus size: 31
33985330 AGCTGATTTT
33985340 TAAAATTATTAAAATTA-TTTTTTAAAAT-A
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
*
33985369 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
33985400 TAAAATTATTAAA
1 TAAAATTATTAAA
33985413 TAATTTTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 17 0.41
30 10 0.24
31 14 0.34
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTTTTTAAAATAA
Found at i:33985419 original size:30 final size:29
Alignment explanation
Indices: 33985340--33985419 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
33985330 AGCTGATTTT
*
33985340 TAAAATTATTAAA-ATTATTTTTTAAAATA
1 TAAAATTATTAAATAAT-TTTTTTAAAATA
* *
33985369 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATT-AAATAATTTTTTTAAAAT-A
33985400 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATAATTTT
33985420 AATTTCCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 10 0.23
30 22 0.50
31 12 0.27
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TAAAATTATTAAATAATTTTTTTAAAATA
Found at i:33985450 original size:15 final size:15
Alignment explanation
Indices: 33985430--33985464 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
33985420 AATTTCCAAT
33985430 TTCATCTTCTTCTTC
1 TTCATCTTCTTCTTC
33985445 TTCATCTTCTTCTTC
1 TTCATCTTCTTCTTC
*
33985460 ATCAT
1 TTCAT
33985465 TTTAATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.31, G:0.00, T:0.57
Consensus pattern (15 bp):
TTCATCTTCTTCTTC
Found at i:33985454 original size:12 final size:12
Alignment explanation
Indices: 33985437--33985462 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33985427 AATTTCATCT
33985437 TCTTCTTCTTCA
1 TCTTCTTCTTCA
33985449 TCTTCTTCTTCA
1 TCTTCTTCTTCA
33985461 TC
1 TC
33985463 ATTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.35, G:0.00, T:0.58
Consensus pattern (12 bp):
TCTTCTTCTTCA
Found at i:33997490 original size:21 final size:23
Alignment explanation
Indices: 33997435--33997516 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 23
33997425 ATATTTTACT
* *
33997435 TTAA-ATTATATTAAAATATATA
1 TTAATATTTTATTAAATTATATA
33997457 TTAATACTTTTATTAAATTATATA
1 TTAATA-TTTTATTAAATTATATA
*
33997481 TT-AT-TTTTATTAAATTA-ATT
1 TTAATATTTTATTAAATTATATA
*
33997501 TTAATAATTATATTAA
1 TTAAT-ATTTTATTAA
33997517 TAATAATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
20 4 0.08
21 15 0.29
22 4 0.08
23 11 0.22
24 17 0.33
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATATTTTATTAAATTATATA
Found at i:33997508 original size:9 final size:9
Alignment explanation
Indices: 33997496--33997570 Score: 57
Period size: 9 Copynumber: 8.6 Consensus size: 9
33997486 TTTATTAAAT
*
33997496 TAATTTTAA
1 TAATTATAA
*
33997505 TAATTATAT
1 TAATTATAA
*
33997514 TAATAATAA
1 TAATTATAA
*
33997523 T-TTTATTAA
1 TAATTA-TAA
33997532 -AATT-TAA
1 TAATTATAA
*
33997539 TAATAATAA
1 TAATTATAA
*
33997548 TAATAATAA
1 TAATTATAA
*
33997557 TAATAATAA
1 TAATTATAA
33997566 TAATT
1 TAATT
33997571 TATACAAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 3 0.06
8 5 0.09
9 45 0.85
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATTATAA
Found at i:33997518 original size:12 final size:12
Alignment explanation
Indices: 33997438--33997566 Score: 58
Period size: 12 Copynumber: 11.2 Consensus size: 12
33997428 TTTTACTTTA
33997438 AATTATATTAA-
1 AATTATATTAAT
33997449 AATATATATTAAT
1 AAT-TATATTAAT
* *
33997462 ACTTTTATT-A-
1 AATTATATTAAT
*
33997472 AATTATA-TATT
1 AATTATATTAAT
* *
33997483 ATTTTTATT-A-
1 AATTATATTAAT
*
33997493 AATTAATTTTAAT
1 AATT-ATATTAAT
33997506 AATTATATTAAT
1 AATTATATTAAT
* * *
33997518 AATAATTTTATT
1 AATTATATTAAT
*
33997530 AA-AAT-TTAAT
1 AATTATATTAAT
* *
33997540 AATAATAATAAT
1 AATTATATTAAT
* *
33997552 AATAATAATAAT
1 AATTATATTAAT
33997564 AAT
1 AAT
33997567 AATTTATACA
Statistics
Matches: 91, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
9 1 0.01
10 14 0.15
11 18 0.20
12 52 0.57
13 6 0.07
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (12 bp):
AATTATATTAAT
Found at i:33997542 original size:3 final size:3
Alignment explanation
Indices: 33997536--33997569 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
33997526 TATTAAAATT
33997536 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
33997570 TTATACAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:33999771 original size:12 final size:12
Alignment explanation
Indices: 33999754--33999778 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33999744 ATGAAATCCC
33999754 TGTATGTATATA
1 TGTATGTATATA
33999766 TGTATGTATATA
1 TGTATGTATATA
33999778 T
1 T
33999779 TTAAAAGGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TGTATGTATATA
Found at i:34000737 original size:31 final size:31
Alignment explanation
Indices: 34000702--34000862 Score: 120
Period size: 31 Copynumber: 5.4 Consensus size: 31
34000692 TAACATAATC
* *
34000702 TTTGGTACTTAAACTTGATATTTTTTTTTAA
1 TTTGGTACCTAAACTTGATATTTTTTCTTAA
* *
34000733 TTTGGTACCTAAA-TT--T-TTTTTACTCAA
1 TTTGGTACCTAAACTTGATATTTTTTCTTAA
* * *
34000760 TTTGGTACATGAACTTGATACTTTTTCTTAA
1 TTTGGTACCTAAACTTGATATTTTTTCTTAA
** **
34000791 TTTGGTACCTAAACTT--T-TTTTGGACCCAA
1 TTTGGTACCTAAACTTGATATTTT-TTCTTAA
* ** * *
34000820 TTTGGTACCTGAACTTGGCATATTTTCCTAA
1 TTTGGTACCTAAACTTGATATTTTTTCTTAA
34000851 TTTGGTACCTAA
1 TTTGGTACCTAA
34000863 GTTTTTTTAT
Statistics
Matches: 99, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
27 19 0.19
28 6 0.06
29 19 0.19
30 3 0.03
31 49 0.49
32 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (31 bp):
TTTGGTACCTAAACTTGATATTTTTTCTTAA
Found at i:34000775 original size:58 final size:59
Alignment explanation
Indices: 34000702--34000886 Score: 219
Period size: 60 Copynumber: 3.1 Consensus size: 59
34000692 TAACATAATC
* * *
34000702 TTTGGTACTTAAACTTGATATTTTTTTTTAATTTGGTACCTAAATTTTTTT-TACTCAA
1 TTTGGTACATGAACTTGATATTTTTTCTTAATTTGGTACCTAAATTTTTTTATACTCAA
* ** *
34000760 TTTGGTACATGAACTTGATACTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGACCCAA
1 TTTGGTACATGAACTTGATATTTTTTCTTAATTTGGTACCTAAA-TTTTTTTATACTCAA
* ** * * * *
34000820 TTTGGTACCTGAACTTGGCATATTTTCCTAATTTGGTACCTAAGTTTTTTTATATTCAA
1 TTTGGTACATGAACTTGATATTTTTTCTTAATTTGGTACCTAAATTTTTTTATACTCAA
*
34000879 ATTGGTAC
1 TTTGGTAC
34000887 CTAAATTTAT
Statistics
Matches: 107, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
58 40 0.37
59 25 0.23
60 42 0.39
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (59 bp):
TTTGGTACATGAACTTGATATTTTTTCTTAATTTGGTACCTAAATTTTTTTATACTCAA
Found at i:34000904 original size:59 final size:57
Alignment explanation
Indices: 34000730--34000904 Score: 152
Period size: 60 Copynumber: 3.0 Consensus size: 57
34000720 TATTTTTTTT
* * * ** *
34000730 TAATTTGGTACCTAAATTTTTTTTACTCAATTTGGTACATGAACTTGATACTTTTTCT
1 TAATTTGGTACCTAAATTTTTTTTACTCAATTTGGTACCT-AAATTTATAAATTTTCC
* * * *** *
34000788 TAATTTGGTACCTAAACTTTTTTTGGACCCAATTTGGTACCTGAACTTGGCATATTTTCC
1 TAATTTGGTACCTAAA-TTTTTTT-TACTCAATTTGGTACCT-AAATTTATAAATTTTCC
* * *
34000848 TAATTTGGTACCTAAGTTTTTTTATATTCAAATTGGTACCTAAATTTATTAAATTTT
1 TAATTTGGTACCTAAATTTTTTT-TACTCAATTTGGTACCTAAATTTA-TAAATTTT
34000905 GTAAAAATTA
Statistics
Matches: 95, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
58 20 0.21
59 33 0.35
60 42 0.44
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.47
Consensus pattern (57 bp):
TAATTTGGTACCTAAATTTTTTTTACTCAATTTGGTACCTAAATTTATAAATTTTCC
Found at i:34001171 original size:86 final size:87
Alignment explanation
Indices: 34001043--34001210 Score: 241
Period size: 86 Copynumber: 1.9 Consensus size: 87
34001033 AAAAATTAGA
* **
34001043 TACCAAATTAGGAAAAAGAGTCAAGTTCGGGTACCAAATTGGACC-CCAAAAAGTTTAAGTACCA
1 TACCAAATTAGGAAAAAGAGTCAAGTTCGAGTACCAAATTGGACCAAAAAAAAGTTTAAGTACCA
*
34001107 ACTTAA-AAAAAACTGTCTTAAG
66 AATTAAGAAAAAA-TGTCTTAAG
* * * *
34001129 TACCAAATTAGGAAAGAGTGTCAAGTTTGAGTACCAAATTGGACCAAAAAAAAGTTTAGGTACCA
1 TACCAAATTAGGAAAAAGAGTCAAGTTCGAGTACCAAATTGGACCAAAAAAAAGTTTAAGTACCA
34001194 AATTAAGAAAAAATGTC
66 AATTAAGAAAAAATGTC
34001211 AAGTTCAAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
86 41 0.57
87 25 0.35
88 6 0.08
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (87 bp):
TACCAAATTAGGAAAAAGAGTCAAGTTCGAGTACCAAATTGGACCAAAAAAAAGTTTAAGTACCA
AATTAAGAAAAAATGTCTTAAG
Found at i:34001223 original size:31 final size:31
Alignment explanation
Indices: 34001093--34001227 Score: 99
Period size: 31 Copynumber: 4.5 Consensus size: 31
34001083 GGACCCCAAA
*
34001093 AAGTTTAAGTACCAACTTAA-AAAAAACTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAA-TGTC
* * *
34001124 ----TTAAGTACCAAATTAGGAAAGAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAATGTC
* * *
34001151 AAGTTTGAGTACCAAATT-GGACCAAAAA---A
1 AAGTTTAAGTACCAAATTAAGA--AAAAATGTC
*
34001180 AAGTTTAGGTACCAAATTAAGAAAAAATGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAATGTC
*
34001211 AAGTTCAAGTACCAAAT
1 AAGTTTAAGTACCAAAT
34001228 ATTATATTAA
Statistics
Matches: 79, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
27 18 0.23
28 9 0.11
29 16 0.20
30 5 0.06
31 28 0.35
32 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAGAAAAAATGTC
Found at i:34001437 original size:16 final size:17
Alignment explanation
Indices: 34001415--34001460 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
34001405 AAAATCTATT
34001415 TATATTTTATTATTTTA
1 TATATTTTATTATTTTA
* *
34001432 -ATATTTAATAATTTTA
1 TATATTTTATTATTTTA
*
34001448 TACATTTTATTAT
1 TATATTTTATTAT
34001461 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TATATTTTATTATTTTA
Found at i:34006223 original size:57 final size:59
Alignment explanation
Indices: 34006162--34006273 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 59
34006152 TATTTTGATT
* *
34006162 CAATTTGATACTTGAACTTGATA-TTTTT-TTAATTTGATATCTAAATTTTTTTGGACG
1 CAATTTGATACTTGAACTTAATATTTTTTCTTAATTTGATACCTAAATTTTTTTGGACG
** * *
34006219 CAATTTTCTTCTTGAACTTAATATTTTTTTCTTAATTTGGTACCTAAATTTTTTT
1 CAATTTGATACTTGAACTTAATA-TTTTTTCTTAATTTGATACCTAAATTTTTTT
34006274 AAATTTAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 19 0.41
59 5 0.11
60 22 0.48
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (59 bp):
CAATTTGATACTTGAACTTAATATTTTTTCTTAATTTGATACCTAAATTTTTTTGGACG
Found at i:34018536 original size:37 final size:36
Alignment explanation
Indices: 34018495--34018564 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
34018485 TATATTTTAT
* ** *
34018495 ATATCATTATATTATATTATTTAAATATTATTTACAA
1 ATATCATTATAGTA-AACATTTAAATATAATTTACAA
34018532 ATATCATTATAGTAAACATTTAAATATAATTTA
1 ATATCATTATAGTAAACATTTAAATATAATTTA
34018565 TTATTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 16 0.55
37 13 0.45
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (36 bp):
ATATCATTATAGTAAACATTTAAATATAATTTACAA
Found at i:34021798 original size:19 final size:19
Alignment explanation
Indices: 34021760--34021798 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
34021750 AGTTACATTC
** *
34021760 AATATAAAAAATTTCTAAA
1 AATATAAAAAAAATCCAAA
34021779 AATATAAAAAAAATCCAAA
1 AATATAAAAAAAATCCAAA
34021798 A
1 A
34021799 TATCTTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (19 bp):
AATATAAAAAAAATCCAAA
Found at i:34030213 original size:61 final size:58
Alignment explanation
Indices: 34030131--34030250 Score: 132
Period size: 60 Copynumber: 2.0 Consensus size: 58
34030121 AGGGTTTTCA
* * * *
34030131 AGGACTAACTTGGATAAAAAAAAAAGTTGAAGTCCCAAAGTGGGAACATTTGCCAAGTTC
1 AGGACTAACTTGGA-CAAAAAAAAAGTTCAAGCCCCAAAGTGGGAA-AGTTGCCAAGTTC
** * * *
34030191 AGGACCTAACTTGGACCCAAAAAAAGTTCAGGCCCCAATGTGGGGAAGTTGCCAAGTTC
1 AGGA-CTAACTTGGACAAAAAAAAAGTTCAAGCCCCAAAGTGGGAAAGTTGCCAAGTTC
34030250 A
1 A
34030251 AATCCCAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
59 13 0.26
60 27 0.54
61 10 0.20
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (58 bp):
AGGACTAACTTGGACAAAAAAAAAGTTCAAGCCCCAAAGTGGGAAAGTTGCCAAGTTC
Found at i:34042404 original size:15 final size:16
Alignment explanation
Indices: 34042379--34042412 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
34042369 AAAATAAATT
34042379 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
34042395 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
34042410 TTT
1 TTT
34042413 TTAAAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:34042659 original size:16 final size:17
Alignment explanation
Indices: 34042626--34042660 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
34042616 TTTTAATTTA
*
34042626 TATCTAAATAAACTTTT
1 TATCTAAATAAACCTTT
34042643 TATCTAAA-AAACCTTT
1 TATCTAAATAAACCTTT
34042659 TA
1 TA
34042661 ATATAAATGT
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:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (17 bp):
TATCTAAATAAACCTTT
Found at i:34042988 original size:3 final size:3
Alignment explanation
Indices: 34042980--34043005 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34042970 TATCCATCCC
34042980 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
34043006 AGTGAAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:34052942 original size:24 final size:24
Alignment explanation
Indices: 34052885--34052957 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
34052875 GGGTACTCAT
* * *
34052885 CTGGTAGAAACAGTTATGTCAGCA
1 CTGGAAGAAGCAGTCATGTCAGCA
*
34052909 CTGGAAGAAGCAGTCATGTCAGCG
1 CTGGAAGAAGCAGTCATGTCAGCA
* * *
34052933 CTGGAAGAAGTAGCCATGGCAGCA
1 CTGGAAGAAGCAGTCATGTCAGCA
34052957 C
1 C
34052958 AATTACCCTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.18
Consensus pattern (24 bp):
CTGGAAGAAGCAGTCATGTCAGCA
Found at i:34053567 original size:15 final size:13
Alignment explanation
Indices: 34053538--34053577 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 13
34053528 CTCTTTTCAC
34053538 TTTCTTTTTTCCT
1 TTTCTTTTTTCCT
34053551 TTTCTTTCTTCTCCT
1 TTTCTTT-TT-TCCT
34053566 TTTCTTTATTTC
1 TTTCTTT-TTTC
34053578 AAGATGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 7 0.29
14 4 0.17
15 13 0.54
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTTTTCCT
Found at i:34054807 original size:103 final size:103
Alignment explanation
Indices: 34054628--34054840 Score: 426
Period size: 103 Copynumber: 2.1 Consensus size: 103
34054618 TATCGTTTTC
34054628 CTACAAAAACATATCACAATTAGTATTGGGGTTCAGTTGCTTCAATGTCTCCTAAATTATAGATC
1 CTACAAAAACATATCACAATTAGTATTGGGGTTCAGTTGCTTCAATGTCTCCTAAATTATAGATC
34054693 TACCCTAAACCATAATTTAACAACAGACAACCAGAAAA
66 TACCCTAAACCATAATTTAACAACAGACAACCAGAAAA
34054731 CTACAAAAACATATCACAATTAGTATTGGGGTTCAGTTGCTTCAATGTCTCCTAAATTATAGATC
1 CTACAAAAACATATCACAATTAGTATTGGGGTTCAGTTGCTTCAATGTCTCCTAAATTATAGATC
34054796 TACCCTAAACCATAATTTAACAACAGACAACCAGAAAA
66 TACCCTAAACCATAATTTAACAACAGACAACCAGAAAA
34054834 CTACAAA
1 CTACAAA
34054841 CAAATATGAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (103 bp):
CTACAAAAACATATCACAATTAGTATTGGGGTTCAGTTGCTTCAATGTCTCCTAAATTATAGATC
TACCCTAAACCATAATTTAACAACAGACAACCAGAAAA
Found at i:34058067 original size:15 final size:15
Alignment explanation
Indices: 34058047--34058078 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34058037 TTTTGGAGAC
34058047 TTCTACCGATACCTG
1 TTCTACCGATACCTG
34058062 TTCTACCGATACCTG
1 TTCTACCGATACCTG
34058077 TT
1 TT
34058079 GGACAAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (15 bp):
TTCTACCGATACCTG
Found at i:34058958 original size:53 final size:53
Alignment explanation
Indices: 34058874--34059013 Score: 199
Period size: 53 Copynumber: 2.6 Consensus size: 53
34058864 TTCACATTTG
* ** * * *
34058874 ATAACTCACAATGACACGGAGTCATCGGACCTTTAATCCGTAATAGGGTTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGCAATAGGATTCAA
*
34058927 ATAACTCACGATGACACAAAGTCATCAGACCTTTAATCCGCAATAGGATTCAA
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGCAATAGGATTCAA
* *
34058980 ATAACTCAAGATGACACAAAGTTATCGGACCTTT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTT
34059014 TTGCATTTAC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 77 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (53 bp):
ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCGCAATAGGATTCAA
Found at i:34062714 original size:2 final size:2
Alignment explanation
Indices: 34062707--34062778 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
34062697 ACTATAAAAT
34062707 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
34062749 TA TA 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 TA TA
34062779 AAAGAAAACT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34064074 original size:8 final size:8
Alignment explanation
Indices: 34064052--34064080 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
34064042 TTATATTGTT
34064052 TAATTTAA
1 TAATTTAA
34064060 T-ATTTAA
1 TAATTTAA
34064067 TAATTTAA
1 TAATTTAA
34064075 TAATTT
1 TAATTT
34064081 TTTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TAATTTAA
Found at i:34065547 original size:17 final size:17
Alignment explanation
Indices: 34065525--34065564 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34065515 TAACCTTTTT
*
34065525 TTTTAATTTTTTTA-ATA
1 TTTTAATATTTTTATA-A
34065542 TTTTAATATTTTTATAA
1 TTTTAATATTTTTATAA
34065559 TTTTAA
1 TTTTAA
34065565 AATTATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTAATATTTTTATAA
Found at i:34065690 original size:24 final size:25
Alignment explanation
Indices: 34065651--34065697 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
34065641 ATGTTAATAA
*
34065651 TCAAATTTAACTAAAAAAATAAAGG
1 TCAAATTTAACGAAAAAAATAAAGG
*
34065676 TCAAA-TTAACGAAAAATATAAA
1 TCAAATTTAACGAAAAAAATAAA
34065698 TATTGAGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.23
Consensus pattern (25 bp):
TCAAATTTAACGAAAAAAATAAAGG
Found at i:34071899 original size:18 final size:17
Alignment explanation
Indices: 34071878--34071932 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
34071868 TTGCATTTGG
34071878 TTTCTTTACTAGTTTGTT
1 TTTCTTTACTAGTTT-TT
34071896 TTTC-TT-CTTAGTTTTGT
1 TTTCTTTAC-TAGTTTT-T
*
34071913 TTTCTTTACTGGTTTATT
1 TTTCTTTACTAGTTT-TT
34071931 TT
1 TT
34071933 GTGTGGTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
16 2 0.06
17 13 0.42
18 14 0.45
19 2 0.06
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.69
Consensus pattern (17 bp):
TTTCTTTACTAGTTTTT
Found at i:34073400 original size:18 final size:18
Alignment explanation
Indices: 34073368--34073402 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34073358 ATTTGAACAC
34073368 TTTTAAAAATGTTAATCA
1 TTTTAAAAATGTTAATCA
34073386 TTTTGAAAAAT-TTAATC
1 TTTT-AAAAATGTTAATC
34073403 TTTATGTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (18 bp):
TTTTAAAAATGTTAATCA
Found at i:34077181 original size:18 final size:18
Alignment explanation
Indices: 34077123--34077194 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
34077113 ATTTTAGTAA
* *
34077123 AATTTTTTA-AAAATTAT
1 AATTTTTTATAATATTTT
34077140 -ATTTTTTAT-AT-TTTT
1 AATTTTTTATAATATTTT
*
34077155 CTATATTTTTATAATATTTT
1 -AAT-TTTTTATAATATTTT
34077175 AATTTTTTATAA-ATTTT
1 AATTTTTTATAATATTTT
34077192 AAT
1 AAT
34077195 CATTTTTCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 10 0.22
18 16 0.35
19 4 0.09
20 4 0.09
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTTTTATAATATTTT
Found at i:34077182 original size:8 final size:9
Alignment explanation
Indices: 34077136--34077185 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
34077126 TTTTTAAAAA
34077136 TTATATTTT
1 TTATATTTT
34077145 TTATATTTT
1 TTATATTTT
34077154 TCTATA-TTT
1 T-TATATTTT
*
34077163 TTATAATATT
1 TTAT-ATTTT
34077173 TTA-ATTTT
1 TTATATTTT
34077181 TTATA
1 TTATA
34077186 AATTTTAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 10 0.29
9 16 0.46
10 9 0.26
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (9 bp):
TTATATTTT
Found at i:34077200 original size:18 final size:18
Alignment explanation
Indices: 34077161--34077200 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34077151 TTTTCTATAT
*
34077161 TTTTATAATATTTTAATT
1 TTTTATAATATTTTAATA
34077179 TTTTATAA-ATTTTAATCA
1 TTTTATAATATTTTAAT-A
34077197 TTTT
1 TTTT
34077201 TCTACCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATAATATTTTAATA
Found at i:34085105 original size:54 final size:52
Alignment explanation
Indices: 34084875--34085115 Score: 322
Period size: 52 Copynumber: 4.6 Consensus size: 52
34084865 ATAAATGAAA
* *
34084875 AGGTCTGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
34084927 AGGTCCAATGACTAAGTGTCTTCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
34084979 AGGTCCGATGACTAAGTGTTATCATGAGTAAATGAATCCTTTACGGATTGTG
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* ** *
34085031 AGGTCCGATGACTAAGTGTCATCGTGAGTACATGAATCTCCTTTACGGAACAAG
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAA--TCCTTTACGGATTATG
* *
34085085 AGGTCCGATAACCATA-TGTCATCGTGAGTAT
1 AGGTCCGATGACTA-AGTGTCATCGTGAGTAT
34085116 TAAATGAAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
52 127 0.77
54 38 0.23
55 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (52 bp):
AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:34085549 original size:23 final size:23
Alignment explanation
Indices: 34085518--34085564 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
34085508 TTTAAGTACC
34085518 TTGTATTGACATAAAT-CATGAAT
1 TTGTATTGACATAAATGCAT-AAT
* *
34085541 TTGTGTTGACTTAAATGCATAAT
1 TTGTATTGACATAAATGCATAAT
34085564 T
1 T
34085565 AAAGTTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (23 bp):
TTGTATTGACATAAATGCATAAT
Done.