Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
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: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 29
Found at i:2833183 original size:30 final size:30
Alignment explanation
Indices: 2833137--2833237 Score: 159
Period size: 30 Copynumber: 3.4 Consensus size: 30
2833127 ATGCATTGCA
*
2833137 AGCCGGATTCTAAAAAAC-AGAACTGGTTTC
1 AGCCGGATTCTGAAAAACGA-AACTGGTTTC
*
2833167 AGCCAGATTCTGAAAAACGAAACTGGTTTC
1 AGCCGGATTCTGAAAAACGAAACTGGTTTC
*
2833197 AGTCGGATTCTGAAAAACGAAACTGGTTTC
1 AGCCGGATTCTGAAAAACGAAACTGGTTTC
2833227 AGCCGGATTCT
1 AGCCGGATTCT
2833238 CAATACCGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
30 64 0.98
31 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (30 bp):
AGCCGGATTCTGAAAAACGAAACTGGTTTC
Found at i:2834786 original size:21 final size:22
Alignment explanation
Indices: 2834762--2834815 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
2834752 AAGATGACTG
2834762 ATAATCTATTAA-ACATACTCA
1 ATAATCTATTAATACATACTCA
2834783 ATAATCTA--AATTACATACTCA
1 ATAATCTATTAA-TACATACTCA
2834804 ATAATCTATTAA
1 ATAATCTATTAA
2834816 GTTATACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.07
21 25 0.86
23 2 0.07
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAATCTATTAATACATACTCA
Found at i:2841916 original size:10 final size:10
Alignment explanation
Indices: 2841903--2841943 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
2841893 TGTGGAACCT
2841903 TATGGAAGAG
1 TATGGAAGAG
*
2841913 TATGGAAGAA
1 TATGGAAGAG
2841923 TATGGAAGAG
1 TATGGAAGAG
2841933 -AGTGGAAGAG
1 TA-TGGAAGAG
2841943 T
1 T
2841944 GTAGAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 1 0.04
10 26 0.96
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (10 bp):
TATGGAAGAG
Found at i:2846811 original size:10 final size:10
Alignment explanation
Indices: 2846798--2846838 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
2846788 TGTGGAACCT
2846798 TATGGAAGAG
1 TATGGAAGAG
*
2846808 TATGGAAGAA
1 TATGGAAGAG
2846818 TATGGAAGAG
1 TATGGAAGAG
**
2846828 GGTGGAAGAG
1 TATGGAAGAG
2846838 T
1 T
2846839 GTAGAGTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (10 bp):
TATGGAAGAG
Found at i:2853909 original size:27 final size:25
Alignment explanation
Indices: 2853868--2853957 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 25
2853858 ATTAAGAAGA
*
2853868 ATAAAATTTTAAAAAAATAATGAATTT
1 ATAAAATTTTTAAAAAATAAT-AA-TT
*
2853895 ATAAAATTTTT-AAAAATAA-AAAT
1 ATAAAATTTTTAAAAAATAATAATT
*
2853918 ATAAAATTATTTAAAATATATAATACTT
1 ATAAAATT-TTTAAAA-A-ATAATAATT
2853946 -TAAAATTTTTAA
1 ATAAAATTTTTAA
2853958 GAGACCCTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.17
24 5 0.09
25 3 0.06
26 14 0.26
27 21 0.39
28 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (25 bp):
ATAAAATTTTTAAAAAATAATAATT
Found at i:2853935 original size:17 final size:17
Alignment explanation
Indices: 2853913--2853951 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2853903 TTTAAAAATA
2853913 AAAATATAAAATTA-TTT
1 AAAATATAAAA-TACTTT
*
2853930 AAAATATATAATACTTT
1 AAAATATAAAATACTTT
2853947 AAAAT
1 AAAAT
2853952 TTTTAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATATAAAATACTTT
Found at i:2853942 original size:24 final size:23
Alignment explanation
Indices: 2853894--2853957 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 23
2853884 ATAATGAATT
2853894 TATAAAATTTTTAAAAATAAAAA
1 TATAAAATTTTTAAAAATAAAAA
*
2853917 TATAAAATTATTTAAAATATATAATAC
1 TATAAAATT-TTTAAAA-ATA-AA-AA
*
2853944 TTTAAAATTTTTAA
1 TATAAAATTTTTAA
2853958 GAGACCCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 9 0.26
24 7 0.20
25 3 0.09
26 7 0.20
27 9 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TATAAAATTTTTAAAAATAAAAA
Found at i:2854576 original size:99 final size:99
Alignment explanation
Indices: 2854462--2854663 Score: 368
Period size: 99 Copynumber: 2.0 Consensus size: 99
2854452 TTTTGTATTT
* * *
2854462 AACTTATATAATAATATCACCGCAAAATCAATATTTTTCGATAATTATGAAATTAGAATATATCA
1 AACTTATATAATAATATCACCACAAAAGCAATATTTTTCGATAATTATGAAATTAGAATACATCA
2854527 CACTTTAAATTAATGATCGAAAGTTTAGTCATTC
66 CACTTTAAATTAATGATCGAAAGTTTAGTCATTC
2854561 AACTTATATAATAATATCACCACAAAAGCAATATTTTTCGATAATTATGAAATTAGAATACATCA
1 AACTTATATAATAATATCACCACAAAAGCAATATTTTTCGATAATTATGAAATTAGAATACATCA
*
2854626 TACTTTAAATTAATGATCGAAAGTTTAGTCATTC
66 CACTTTAAATTAATGATCGAAAGTTTAGTCATTC
2854660 AACT
1 AACT
2854664 ATAATATTTT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (99 bp):
AACTTATATAATAATATCACCACAAAAGCAATATTTTTCGATAATTATGAAATTAGAATACATCA
CACTTTAAATTAATGATCGAAAGTTTAGTCATTC
Found at i:2854800 original size:23 final size:22
Alignment explanation
Indices: 2854774--2854847 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
2854764 TAATTTTATG
*
2854774 TATTTATAAAATTTATATTA-AA
1 TATTTATAAAAATTAT-TTATAA
2854796 T-TATTATAAAAATTATTTATAA
1 TAT-TTATAAAAATTATTTATAA
*
2854818 TATTT-TAAAAA-TATTTTAAAAA
1 TATTTATAAAAATTA-TTT-ATAA
2854840 TATTTATA
1 TATTTATA
2854848 TATGTTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
20 2 0.05
21 13 0.30
22 26 0.59
23 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTATAAAAATTATTTATAA
Found at i:2854832 original size:11 final size:11
Alignment explanation
Indices: 2854816--2854844 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2854806 AATTATTTAT
2854816 AATATTTTAAA
1 AATATTTTAAA
2854827 AATATTTTAAA
1 AATATTTTAAA
2854838 AATATTT
1 AATATTT
2854845 ATATATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AATATTTTAAA
Found at i:2854835 original size:21 final size:22
Alignment explanation
Indices: 2854774--2854844 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 22
2854764 TAATTTTATG
* *
2854774 TATTTATAAAATTTATATT-AAAT
1 TATTT-TAAAAATTAT-TTAAAAA
* *
2854797 TATTATAAAAATTATTT-ATAA
1 TATTTTAAAAATTATTTAAAAA
2854818 TATTTTAAAAA-TATTTTAAAAA
1 TATTTTAAAAATTA-TTTAAAAA
2854840 TATTT
1 TATTT
2854845 ATATATGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.05
21 17 0.43
22 17 0.43
23 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTTAAAAATTATTTAAAAA
Found at i:2854860 original size:31 final size:32
Alignment explanation
Indices: 2854791--2854861 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
2854781 AAAATTTATA
*
2854791 TTAAATTATTATAAAAATTATTTATAATATTT
1 TTAAAATATTATAAAAATTATTTATAATATTT
* *
2854823 TAAAAATATTTTAAAAA-TATTTAT-ATATGTT
1 TTAAAATATTATAAAAATTATTTATAATAT-TT
2854854 TTAAAATA
1 TTAAAATA
2854862 ATGTTACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.12
31 16 0.47
32 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (32 bp):
TTAAAATATTATAAAAATTATTTATAATATTT
Found at i:2859302 original size:29 final size:27
Alignment explanation
Indices: 2859256--2859315 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
2859246 CGTCATGTAC
* *
2859256 TATTTTTTAAAAATAAAACTT-TTAAAA
1 TATTTTATAAAAATAAAA-TTATAAAAA
2859283 TATTTTATAATAAGATAAAATTATAAAAA
1 TATTTTATAA-AA-ATAAAATTATAAAAA
2859312 TATT
1 TATT
2859316 AGAGTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 9 0.32
28 4 0.14
29 15 0.54
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
TATTTTATAAAAATAAAATTATAAAAA
Found at i:2859506 original size:16 final size:16
Alignment explanation
Indices: 2859474--2859504 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2859464 ATTGTGATAT
2859474 TTTTTAAAATTTTAAA
1 TTTTTAAAATTTTAAA
2859490 TTTTT-AAATTTTAAA
1 TTTTTAAAATTTTAAA
2859505 ATCTTATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAAAATTTTAAA
Found at i:2860330 original size:21 final size:21
Alignment explanation
Indices: 2860290--2860363 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
2860280 TATTTTTAAT
*
2860290 TATATTTTTTTATTTATTTAC
1 TATATTCTTTTATTTATTTAC
*
2860311 TATATTCTTTT-TTTATTTTATT
1 TATATTCTTTTATTTA-TTTA-C
* *
2860333 TATATTATATTATTTATATTA-
1 TATATTCTTTTATTTAT-TTAC
2860354 TATATATCTT
1 TATAT-TCTT
2860364 ATATCATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
20 4 0.10
21 19 0.45
22 12 0.29
23 7 0.17
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (21 bp):
TATATTCTTTTATTTATTTAC
Found at i:2860345 original size:14 final size:14
Alignment explanation
Indices: 2860323--2860387 Score: 67
Period size: 14 Copynumber: 4.4 Consensus size: 14
2860313 TATTCTTTTT
*
2860323 TTATTTTATTTATA
1 TTATATTATTTATA
2860337 TTATATTATTTATA
1 TTATATTATTTATA
2860351 TTATATATATCTTATA
1 TTATAT-TAT-TTATA
* * *
2860367 TCATTTTATATATA
1 TTATATTATTTATA
2860381 TATATAT
1 T-TATAT
2860388 ATATAGATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
14 24 0.57
15 9 0.21
16 9 0.21
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATATTATTTATA
Found at i:2860352 original size:25 final size:25
Alignment explanation
Indices: 2860272--2860377 Score: 71
Period size: 25 Copynumber: 4.4 Consensus size: 25
2860262 TTTCGTCACA
*
2860272 TATTTATATATT-TTTA-ATTATAT
1 TATTTATATTTTATTTATATTATAT
*
2860295 T-TTTTTA-TTTATTTACTA-TAT-T
1 TATTTATATTTTATTTA-TATTATAT
* *
2860317 CTTTTTTTATTTTATTTATATTATAT
1 -TATTTATATTTTATTTATATTATAT
* * *
2860343 TATTTATATTATATATATCTTATAT
1 TATTTATATTTTATTTATATTATAT
*
2860368 CATTTTATAT
1 TA-TTTATAT
2860378 ATATATATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
21 2 0.03
22 10 0.15
23 5 0.08
24 9 0.14
25 32 0.48
26 8 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTTATATTTTATTTATATTATAT
Found at i:2860380 original size:25 final size:25
Alignment explanation
Indices: 2860337--2860387 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
2860327 TTTATTTATA
*
2860337 TTATATTATTTATATTATATATATC
1 TTATATCATTTATATTATATATATC
2860362 TTATATCATTTTATATATATATATAT
1 TTATATCA-TTTATAT-TATATATAT
2860388 ATATAGATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
26 7 0.30
27 9 0.39
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATATCATTTATATTATATATATC
Found at i:2860522 original size:5 final size:4
Alignment explanation
Indices: 2860495--2860550 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 4
2860485 TATTTTTGTT
2860495 TTTA TTTA TTTA TTTA TTTA TATTA TATTA TATTA TATT- TTTA CTTTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA T-TTA T-TTA T-TTA TTTA -TTTA
2860543 TTTTA TTT
1 -TTTA TTT
2860551 TTTTCTATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
3 2 0.04
4 21 0.44
5 25 0.52
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:2860525 original size:10 final size:8
Alignment explanation
Indices: 2860495--2860550 Score: 51
Period size: 8 Copynumber: 6.4 Consensus size: 8
2860485 TATTTTTGTT
2860495 TTTATTTA
1 TTTATTTA
2860503 TTTATTTA
1 TTTATTTA
2860511 TTTATATTA
1 TTTAT-TTA
2860520 TATTATATTA
1 T-TTAT-TTA
2860530 TATT-TTTA
1 T-TTATTTA
2860538 CTTTATTTTA
1 -TTTA-TTTA
2860548 TTT
1 TTT
2860551 TTTTCTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
8 18 0.42
9 9 0.21
10 16 0.37
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTATTTA
Found at i:2860561 original size:13 final size:13
Alignment explanation
Indices: 2860545--2860569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2860535 TTACTTTATT
2860545 TTATTTTTTTCTA
1 TTATTTTTTTCTA
2860558 TTATTTTTTTCT
1 TTATTTTTTTCT
2860570 TAATATCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTTTCTA
Found at i:2860562 original size:18 final size:19
Alignment explanation
Indices: 2860520--2860564 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
2860510 ATTTATATTA
*
2860520 TATTATATTATATTTTTAC
1 TATTATTTTATATTTTTAC
*
2860539 T-TTATTTTAT-TTTTTTC
1 TATTATTTTATATTTTTAC
2860556 TATTATTTT
1 TATTATTTT
2860565 TTTCTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 15 0.65
19 1 0.04
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (19 bp):
TATTATTTTATATTTTTAC
Found at i:2860567 original size:31 final size:31
Alignment explanation
Indices: 2860496--2860567 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
2860486 ATTTTTGTTT
*
2860496 TTATTTATTTATTTATTTATATTATATTATA
1 TTATTTTTTTATTTATTTATATTATATTATA
* * * *
2860527 TTATATTTTTACTTTATTT-TATTTTTTTCTA
1 TTATTTTTTTA-TTTATTTATATTATATTATA
2860558 TTATTTTTTT
1 TTATTTTTTT
2860568 CTTAATATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 27 0.79
32 7 0.21
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (31 bp):
TTATTTTTTTATTTATTTATATTATATTATA
Found at i:2860633 original size:38 final size:38
Alignment explanation
Indices: 2860558--2860643 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
2860548 TTTTTTTCTA
*
2860558 TTATTT-TTTT-CTTAATATCATGTATATCTTTATTTT
1 TTATTTGTTTTACTTAATATCATATATATCTTTATTTT
* * *
2860594 TTATTTGTTTTACTTAGTATTATATATATTTATTA-TTT
1 TTATTTGTTTTACTTAATATCATATATATCT-TTATTTT
2860632 TTATTTGTTTTA
1 TTATTTGTTTTA
2860644 GTAAATACTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.14
37 4 0.09
38 30 0.70
39 3 0.07
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (38 bp):
TTATTTGTTTTACTTAATATCATATATATCTTTATTTT
Found at i:2860780 original size:10 final size:10
Alignment explanation
Indices: 2860758--2860799 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
2860748 TTTTTTAACA
*
2860758 TTTTATTCA-
1 TTTTATTTAT
2860767 TTTTATTTAT
1 TTTTATTTAT
*
2860777 TTTTTTTTAT
1 TTTTATTTAT
2860787 TTTT-TTTAT
1 TTTTATTTAT
2860796 TTTT
1 TTTT
2860800 TACGTGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 17 0.57
10 13 0.43
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:2860780 original size:19 final size:19
Alignment explanation
Indices: 2860758--2860799 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2860748 TTTTTTAACA
2860758 TTTTATTCATTTTATTTAT
1 TTTTATTCATTTTATTTAT
* * *
2860777 TTTTTTTTATTTTTTTTAT
1 TTTTATTCATTTTATTTAT
2860796 TTTT
1 TTTT
2860800 TACGTGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTATTCATTTTATTTAT
Found at i:2860784 original size:14 final size:14
Alignment explanation
Indices: 2860766--2860798 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2860756 CATTTTATTC
2860766 ATTTTATTTATTTTT
1 ATTTTATTT-TTTTT
2860781 -TTTTATTTTTTTT
1 ATTTTATTTTTTTT
2860794 ATTTT
1 ATTTT
2860799 TTACGTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
ATTTTATTTTTTTT
Found at i:2860800 original size:10 final size:10
Alignment explanation
Indices: 2860767--2860800 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2860757 ATTTTATTCA
*
2860767 TTTTATTTAT
1 TTTTTTTTAT
2860777 TTTTTTTTA-
1 TTTTTTTTAT
2860786 TTTTTTTTAT
1 TTTTTTTTAT
2860796 TTTTT
1 TTTTT
2860801 ACGTGTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:2862105 original size:20 final size:20
Alignment explanation
Indices: 2862077--2862114 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2862067 TGGGTTTGAG
*
2862077 TATCAATACTGGATGAACAA
1 TATCAATACTAGATGAACAA
*
2862097 TATCGATACTAGATGAAC
1 TATCAATACTAGATGAAC
2862115 TGAGATGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TATCAATACTAGATGAACAA
Found at i:2862406 original size:175 final size:175
Alignment explanation
Indices: 2862115--2862442 Score: 476
Period size: 175 Copynumber: 1.9 Consensus size: 175
2862105 CTAGATGAAC
* *
2862115 TGAGATGAATTTTTGGGATTTCCAAATGAGAGTATCGATATTGCTGGGGAGAGTATCAATACAAC
1 TGAGATGAATTTATGGGATTTCCAAATGAGAGTATCGATACTGCTGGGGAGAGTATCAATACAAC
* * * * * * *
2862180 CCCTATAGTATTGGTACTTAGGGTATACAATATCGATATTGGGCTACATTTTCAACAACAAAAGC
66 CCCTACAATATTGATACTCAAGGTATACAATATCAATATTGGGCCACATTTTCAACAACAAAAGC
*
2862245 CACTTTTGGTACCGATACTCATAGGAGTTTCGATATTGGATAAAT
131 CACTTTTGGCACCGATACTCATAGGAGTTTCGATATTGGATAAAT
* * * ***
2862290 TGAGATGAATTTATGGGATTTCTAAATGGGAGTATCGATACTGCTGGGGAGAGTATCTATATTGC
1 TGAGATGAATTTATGGGATTTCCAAATGAGAGTATCGATACTGCTGGGGAGAGTATCAATACAAC
2862355 CCCTACAATATTGATACTCAAGGTATACAATATCAATATTGGGCCACATTTTCAACAACAAAAGC
66 CCCTACAATATTGATACTCAAGGTATACAATATCAATATTGGGCCACATTTTCAACAACAAAAGC
* * * *
2862420 GATTTTTTGCATCGATACTCATA
131 CACTTTTGGCACCGATACTCATA
2862443 AGGGTATTGA
Statistics
Matches: 133, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
175 133 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (175 bp):
TGAGATGAATTTATGGGATTTCCAAATGAGAGTATCGATACTGCTGGGGAGAGTATCAATACAAC
CCCTACAATATTGATACTCAAGGTATACAATATCAATATTGGGCCACATTTTCAACAACAAAAGC
CACTTTTGGCACCGATACTCATAGGAGTTTCGATATTGGATAAAT
Found at i:2862494 original size:26 final size:26
Alignment explanation
Indices: 2862458--2862510 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2862448 ATTGATACTT
2862458 GACCCTGAGTGATGTGATCCTAACCA
1 GACCCTGAGTGATGTGATCCTAACCA
2862484 GACCCTGAGTGATGTGATCCTAACCA
1 GACCCTGAGTGATGTGATCCTAACCA
2862510 G
1 G
2862511 CCCCATCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (26 bp):
GACCCTGAGTGATGTGATCCTAACCA
Found at i:2869678 original size:114 final size:114
Alignment explanation
Indices: 2869478--2869811 Score: 560
Period size: 114 Copynumber: 2.9 Consensus size: 114
2869468 GATCATGCAG
* * * * *
2869478 TTCATCTTTCAATTCCAATGATTGGTTTTGGGGTTTATACCGAACCAGATCAGATAACTCAAATA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
* ** *
2869543 ACACTTCTAGAAAATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACATTTCTACTAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
2869592 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
2869657 ACATTTCTACTAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACATTTCTACTAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
*
2869706 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATTAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
* *
2869771 ACATTTCCACTAGATGCTATTGGGCCTCCTTATTTCTACTA
66 ACATTTCTACTAGATGCTATTGGGTCTCCTTATTTCTACTA
2869812 CGAGAACGTG
Statistics
Matches: 208, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 208 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACATTTCTACTAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:2871964 original size:8 final size:8
Alignment explanation
Indices: 2871951--2872005 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
2871941 AATTTCTCCC
2871951 CTTTTTTT
1 CTTTTTTT
2871959 CTTTTTTCT
1 CTTTTTT-T
* *
2871968 CATTTTTC
1 CTTTTTTT
*
2871976 CTTTTTCAT
1 CTTTTT-TT
2871985 CTTTTTTTT
1 C-TTTTTTT
2871994 CTTTTTTT
1 CTTTTTTT
2872002 CTTT
1 CTTT
2872006 CTTTACTGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 23 0.61
9 10 0.26
10 5 0.13
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (8 bp):
CTTTTTTT
Found at i:2872025 original size:23 final size:23
Alignment explanation
Indices: 2871995--2872039 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
2871985 CTTTTTTTTC
2871995 TTTTTTTCTTTCTTTACTGGATT
1 TTTTTTTCTTTCTTTACTGGATT
*
2872018 TTTTTTTCTTTCTTTGCTGGAT
1 TTTTTTTCTTTCTTTACTGGAT
2872040 GAGTATAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.07, C:0.13, G:0.11, T:0.69
Consensus pattern (23 bp):
TTTTTTTCTTTCTTTACTGGATT
Found at i:2874905 original size:7 final size:7
Alignment explanation
Indices: 2874871--2874912 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
2874861 ATAAGAGTAT
2874871 AAATGCA
1 AAATGCA
* *
2874878 CAATGAA
1 AAATGCA
2874885 AAATGCA
1 AAATGCA
2874892 AAGATGCA
1 AA-ATGCA
2874900 AAATGC-
1 AAATGCA
2874906 AAATGCA
1 AAATGCA
2874913 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:2876443 original size:26 final size:28
Alignment explanation
Indices: 2876401--2876465 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 28
2876391 AAATAAAATG
*
2876401 AAATATTA-AAAAATAAT-A-TACATAT
1 AAATATTATGAAAATAATAAGTACATAT
*
2876426 AAATATTATGAAAATAATAAGTATATAT
1 AAATATTATGAAAATAATAAGTACATAT
2876454 AAAT-TT-TGAAAA
1 AAATATTATGAAAA
2876466 GAAAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 8 0.23
26 14 0.40
27 3 0.09
28 10 0.29
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (28 bp):
AAATATTATGAAAATAATAAGTACATAT
Found at i:2878801 original size:3 final size:3
Alignment explanation
Indices: 2878793--2878836 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
2878783 ATTAATTATT
*
2878793 TAA TAA TAA T-A TAA T-A TAA TAA TAA -AA CAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2878837 ATAAAGCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 8 0.22
3 29 0.78
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2878814 original size:16 final size:15
Alignment explanation
Indices: 2878793--2878839 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
2878783 ATTAATTATT
2878793 TAATAATAATATAATA
1 TAATAATAATA-AATA
* *
2878809 TAATAATAAAACAAAA
1 TAATAATAATA-AATA
2878825 TAATAATAATAAATA
1 TAATAATAATAAATA
2878840 AAGCAAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 3 0.12
16 23 0.88
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAATAATAAATA
Found at i:2881891 original size:31 final size:31
Alignment explanation
Indices: 2881853--2881915 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2881843 GTTGGAGAAC
2881853 CCATAGATGAGTCCATATGATTTTAGTTGTT
1 CCATAGATGAGTCCATATGATTTTAGTTGTT
2881884 CCATAGATGAGTCCATATGATTTTAGTTGTT
1 CCATAGATGAGTCCATATGATTTTAGTTGTT
2881915 C
1 C
2881916 TTGGAACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (31 bp):
CCATAGATGAGTCCATATGATTTTAGTTGTT
Found at i:2884942 original size:43 final size:43
Alignment explanation
Indices: 2884778--2884954 Score: 165
Period size: 43 Copynumber: 4.1 Consensus size: 43
2884768 TTTATGTTAT
* * * * * *
2884778 CAAAAGCCGTAAAAAGTCTGGTTATTTAGCTGCGTTTTGGATG
1 CAAACGCCATAAAAAGTCAGGTTATTTAGCAGCATTTTGGATA
* * * ** * *
2884821 CAAACGTCACAAAAAATCAGGTTATTTAATAGCGTTTTGGAGA
1 CAAACGCCATAAAAAGTCAGGTTATTTAGCAGCATTTTGGATA
* * *
2884864 CAAACGCCGTAAAAAGTCATGCTATTTAGCAGCATTTTGGATA
1 CAAACGCCATAAAAAGTCAGGTTATTTAGCAGCATTTTGGATA
* * * * *
2884907 CAAACGCCATAAAAAGTCAGATTATTTATCGGCATTTTAGACA
1 CAAACGCCATAAAAAGTCAGGTTATTTAGCAGCATTTTGGATA
2884950 CAAAC
1 CAAAC
2884955 ATCGCTAATG
Statistics
Matches: 105, Mismatches: 29, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (43 bp):
CAAACGCCATAAAAAGTCAGGTTATTTAGCAGCATTTTGGATA
Found at i:2884953 original size:86 final size:86
Alignment explanation
Indices: 2884778--2884954 Score: 205
Period size: 86 Copynumber: 2.1 Consensus size: 86
2884768 TTTATGTTAT
* * * * * * *
2884778 CAAAAGCCGTAAAAAGTCTGGTTATTTAGCTGCGTTTTGGATGCAAACGTCACAAAAAATCAGGT
1 CAAACGCCGTAAAAAGTCTGGCTATTTAGCAGCATTTTGGATACAAACGCCACAAAAAATCAGAT
* * *
2884843 TATTTAATAGCGTTTTGGAGA
66 TATTTAATAGCATTTTAGACA
* *
2884864 CAAACGCCGTAAAAAGTCAT-GCTATTTAGCAGCATTTTGGATACAAACGCCATAAAAAGTCAGA
1 CAAACGCCGTAAAAAGTC-TGGCTATTTAGCAGCATTTTGGATACAAACGCCACAAAAAATCAGA
*
2884928 TTATTT-ATCGGCATTTTAGACA
65 TTATTTAAT-AGCATTTTAGACA
2884950 CAAAC
1 CAAAC
2884955 ATCGCTAATG
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 2 0.03
86 73 0.96
87 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (86 bp):
CAAACGCCGTAAAAAGTCTGGCTATTTAGCAGCATTTTGGATACAAACGCCACAAAAAATCAGAT
TATTTAATAGCATTTTAGACA
Found at i:2888523 original size:2 final size:2
Alignment explanation
Indices: 2888516--2888544 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2888506 AAATAACGTA
2888516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2888545 ATTGAGGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2890483 original size:23 final size:23
Alignment explanation
Indices: 2890453--2890505 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
2890443 GTGTGGTGAA
2890453 GGGTTTTGGTTATTGTAGTACTT
1 GGGTTTTGGTTATTGTAGTACTT
2890476 GGGTTTTGGTTATTGTAGTACTT
1 GGGTTTTGGTTATTGTAGTACTT
*
2890499 GTGTTTT
1 GGGTTTT
2890506 CTTTTAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.11, C:0.04, G:0.30, T:0.55
Consensus pattern (23 bp):
GGGTTTTGGTTATTGTAGTACTT
Found at i:2896852 original size:31 final size:31
Alignment explanation
Indices: 2896810--2896868 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2896800 AATTTAAAAG
* *
2896810 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
2896841 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
2896869 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:2896919 original size:22 final size:22
Alignment explanation
Indices: 2896893--2896935 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2896883 TAATAAATTA
2896893 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2896915 TTTAAAATAAATTAATCCATA
1 TTTAAAATAAATCAATCCATA
2896936 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2896944 original size:22 final size:22
Alignment explanation
Indices: 2896895--2896943 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2896885 ATAAATTATT
**
2896895 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
2896917 TAAAATAAATTAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2896940 TAAA
1 TAAA
2896944 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2896991 original size:80 final size:80
Alignment explanation
Indices: 2896898--2897374 Score: 706
Period size: 80 Copynumber: 5.8 Consensus size: 80
2896888 AATTATTTAA
*
2896898 AATAAATCAATCCATATTTTAAAATAAATTAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
2896963 CCATACAACTAAAAT
66 CCATACAACTAAAAT
* * *
2896978 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAGT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
2897043 CCATACTAA-TAAATTATTT
66 CCATAC-AACTAAA--A--T
* * *
2897062 AAAATAAATCAATTCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAACCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
2897127 ATCCATACAACTACAAT
64 ATCCATACAACTAAAAT
*
2897144 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
2897209 CCATACTAA-TAAATTATTT
66 CCATAC-AACTAAA--A--T
* *
2897228 AAAATAATCAATCGATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 AATA-AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
*
2897293 TCCATACAACTACAAT
65 TCCATACAACTAAAAT
*
2897309 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
2897374 C
66 C
2897375 TATATTTTAA
Statistics
Matches: 362, Mismatches: 20, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
80 202 0.56
81 8 0.02
82 3 0.01
83 1 0.00
84 8 0.02
85 70 0.19
86 70 0.19
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTAAAAT
Found at i:2897031 original size:32 final size:32
Alignment explanation
Indices: 2896995--2897301 Score: 256
Period size: 32 Copynumber: 10.8 Consensus size: 32
2896985 CAATCCATAT
*
2896995 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
2897027 TTTAAAATAAATCAGTCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
2897059 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
2897081 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* * *
2897113 TTTAAAATAAACCAATCCATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
2897143 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
2897161 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
2897193 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
2897225 TTTAAAAT-AATC-A---AT-C-GAT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
2897246 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
2897278 TTTAAAATAAATCAATCCATACAA
1 TTTAAAATAAATCAATCCATACAA
2897302 CTACAATAAT
Statistics
Matches: 225, Mismatches: 15, Indels: 70
0.73 0.05 0.23
Matches are distributed among these distances:
20 1 0.00
21 8 0.04
22 37 0.16
23 3 0.01
24 1 0.00
25 3 0.01
26 22 0.10
27 3 0.01
28 6 0.03
29 1 0.00
30 4 0.02
31 6 0.03
32 130 0.58
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:2897157 original size:166 final size:166
Alignment explanation
Indices: 2896883--2897374 Score: 880
Period size: 166 Copynumber: 3.0 Consensus size: 166
2896873 ACAACTACAA
* *
2896883 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATTAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *
2896948 TTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCT
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
2897013 ATACAAATAAATTATTTAAAATAAATCAGTCCATAC
131 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
*
2897049 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCTATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
2897114 TTAAAATAAACCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
2897179 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
131 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
2897215 TAATAAATTATTTAAAAT-AATCAA-TCGATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TAATAAATTATTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
2897278 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATC
65 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
*
2897343 CATACTAATAAATTATTTAAAATAAATCAATC
130 CATACAAATAAATTATTTAAAATAAATCAATC
2897375 TATATTTTAA
Statistics
Matches: 314, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
164 2 0.01
165 135 0.43
166 177 0.56
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (166 bp):
TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATACAAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:2897186 original size:18 final size:18
Alignment explanation
Indices: 2897165--2897222 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
2897155 CCATATTTTA
2897165 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
2897183 AAATAAAT-TAT--TTA-
1 AAATAAATCAATCCATAC
2897197 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
*
2897215 TAATAAAT
1 AAATAAAT
2897223 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
17 4 0.13
18 15 0.48
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:2897209 original size:54 final size:54
Alignment explanation
Indices: 2897144--2897478 Score: 343
Period size: 54 Copynumber: 6.1 Consensus size: 54
2897134 CAACTACAAT
*
2897144 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * ** * * *
2897198 AATAAATCAATCCATA--CT--AATAAAT-TATTTAAAATAATCAATCGATATTTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAT---TA-TTTAA
*
2897251 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
2897309 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
2897363 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
2897417 AATAAATCAATCCATATTTTAAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTT-AAAATAAATCAATCCATACTAATAAATTATTTAA
2897472 AATAAAT
1 AATAAAT
2897479 TATTTTAAAA
Statistics
Matches: 234, Mismatches: 19, Indels: 55
0.76 0.06 0.18
Matches are distributed among these distances:
48 25 0.11
49 13 0.06
50 9 0.04
52 6 0.03
53 16 0.07
54 90 0.38
55 41 0.18
57 2 0.01
58 11 0.05
59 2 0.01
60 1 0.00
61 1 0.00
63 1 0.00
65 1 0.00
67 9 0.04
68 6 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:2897355 original size:22 final size:23
Alignment explanation
Indices: 2897280--2897354 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
2897270 ATAAATTATT
2897280 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
2897302 CTACAATAATAAATCAATCTATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
2897328 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
2897351 TAAA
1 TAAA
2897355 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:2897365 original size:32 final size:32
Alignment explanation
Indices: 2897326--2897478 Score: 173
Period size: 32 Copynumber: 5.4 Consensus size: 32
2897316 CAATCTATAT
2897326 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2897358 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2897380 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2897412 TTTAAAATAAATCAATCCATA-T--T---TTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2897438 ---AAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2897467 TTTAAAATAAAT
1 TTTAAAATAAAT
2897479 TATTTTAAAA
Statistics
Matches: 102, Mismatches: 0, Indels: 38
0.73 0.00 0.27
Matches are distributed among these distances:
22 13 0.13
23 20 0.20
24 2 0.02
26 8 0.08
27 4 0.04
28 4 0.04
29 4 0.04
30 1 0.01
31 3 0.03
32 43 0.42
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:2897409 original size:22 final size:22
Alignment explanation
Indices: 2897360--2897408 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2897350 ATAAATTATT
* **
2897360 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
2897382 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2897405 TAAA
1 TAAA
2897409 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2897487 original size:15 final size:15
Alignment explanation
Indices: 2897458--2897599 Score: 129
Period size: 15 Copynumber: 9.5 Consensus size: 15
2897448 AATCCATACT
2897458 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
2897472 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
2897487 AATAAATCAATCTATTTTTTAT
1 AAT--A--AAT-TA--TTTTAA
2897509 AAT-AATTATTTTTAA
1 AATAAATTA-TTTTAA
*
2897524 AATAAATTATTTTAT
1 AATAAATTATTTTAA
2897539 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2897554 AAT-AATTA---T--
1 AATAAATTATTTTAA
*
2897563 AATAAATTATTTTAT
1 AATAAATTATTTTAA
2897578 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2897593 AATAAAT
1 AATAAAT
2897600 AACCTTATTA
Statistics
Matches: 108, Mismatches: 5, Indels: 29
0.76 0.04 0.20
Matches are distributed among these distances:
9 3 0.03
10 5 0.05
11 1 0.01
13 1 0.01
14 14 0.13
15 60 0.56
16 7 0.06
17 4 0.04
19 3 0.03
20 2 0.02
22 8 0.07
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:2897587 original size:54 final size:52
Alignment explanation
Indices: 2897457--2897599 Score: 173
Period size: 54 Copynumber: 2.7 Consensus size: 52
2897447 CAATCCATAC
* **
2897457 TAATAAATTA-TTTAAAATAAATTATTTTAAAATAAATCAATCTATTTTTTA
1 TAATAAATTATTTTAAAATAAATTATTTTAAAATAAATCAATCTAATAATTA
* * * *
2897508 TAAT-AATTATTTTTAAAATAAATTATTTTATAATAAATTATTTTAAAATAATTA
1 TAATAAATTA-TTTTAAAATAAATTATTTTAAAATAAATCAATCT--AATAATTA
*
2897562 TAATAAATTATTTTATAATAAATTATTTTAAAATAAAT
1 TAATAAATTATTTTAAAATAAATTATTTTAAAATAAAT
2897600 AACCTTATTA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
50 5 0.06
51 4 0.05
52 29 0.37
54 35 0.45
55 5 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.48
Consensus pattern (52 bp):
TAATAAATTATTTTAAAATAAATTATTTTAAAATAAATCAATCTAATAATTA
Found at i:2899663 original size:24 final size:24
Alignment explanation
Indices: 2899636--2899683 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2899626 ATTTAACAGA
*
2899636 ATTTATAAAGTTTAAATTTATAAT
1 ATTTATAAAGATTAAATTTATAAT
* **
2899660 ATTTTTAGGGATTAAATTTATAAT
1 ATTTATAAAGATTAAATTTATAAT
2899684 TTAAATATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTATAAAGATTAAATTTATAAT
Found at i:2900078 original size:4 final size:5
Alignment explanation
Indices: 2900055--2900083 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
2900045 TATATATATA
2900055 TTATT TTATT TTATT TTA-T TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT
2900084 AGTATCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:2901366 original size:2 final size:2
Alignment explanation
Indices: 2901359--2901383 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2901349 ATTTATTTAG
2901359 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2901384 TCCCTAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2906668 original size:170 final size:171
Alignment explanation
Indices: 2906381--2907279 Score: 1123
Period size: 170 Copynumber: 5.3 Consensus size: 171
2906371 TTTTTTCTCT
* * * *
2906381 ATTTGCAGCATAGCTCAAGGTGAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAAAAAAAGACCTTCGAGTTCGATTACA
* * *
2906446 CTCAGCTCAAAGGCATATC-AATTTACAGCATAACTCAAGGTGAGAAGGGTTATATGTCAACCAA
66 CTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAA
* * *
2906510 GACCTTCGAGTTCAATTACACTCATCTCAAAGGCAAATCAA
131 GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
*
2906551 ATTTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAAAAAAAGACCTTCAAGTTCGATTACA
1 ATTTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAAAAAAAGACCTTCGAGTTCGATTACA
* *
2906616 CTCAGCTCAAAGGCATATC-AATTTACAACATAACTCAAGGTGAGAAGGGTTATCTGTCAACCAA
66 CTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAA-CAA
*
2906680 A-ATCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
130 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
* * * * * *
2906721 ATTTATAGTATAGCTCAAAGTGAGAAGGGTTATCTATCAACAAAAGACCTTCAAGTTCGATTACA
1 ATTTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAAAAAAAGACCTTCGAGTTCGATTACA
* *
2906786 CTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAA
66 CTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAAC-AA
*
2906851 AGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCATATC-A
130 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
* * ** * * *
2906892 ATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGT-TAACCAAGTCCTTCGAGTTTGATTTCA
1 ATTTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAAAAAAAGACCTTCGAGTTCGATTACA
2906956 CTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAA
66 CTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAAC-AA
* *
2907021 AGACCTTCGAGTTTGATTACATTCAGCTCAAAGGCATATCTAA
130 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATC-AA
* ** ** **
2907064 TTTTACAGCAT-GACTCAAGGCAAGAAATTGTTATCTGTC-AGCAAAGACCTTCGAGTTCGATTA
1 ATTTACAGCATAG-CTCAAGGTGAG-AAGGGTTATCTGTCAAAAAAAGACCTTCGAGTTCGATTA
* * * ** * * * * *
2907127 CATTCATCTCAAAGGAACATCAAATTTGTAGCATAGCTCAAGGAGATAAGGGCTATCTGTCAA-T
64 CACTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACA
* * * * * * *
2907191 AATACCCTCGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAT
129 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
* * **
2907234 ATTTACAGCATAGTTTAA-GTAGAGAAAAGTTATCTGTCAACAAAAA
1 ATTTACAGCATAGCTCAAGGT-GAGAAGGGTTATCTGTCAA-AAAAA
2907280 TTGTTGAGTT
Statistics
Matches: 638, Mismatches: 78, Indels: 25
0.86 0.11 0.03
Matches are distributed among these distances:
169 13 0.02
170 369 0.58
171 116 0.18
172 56 0.09
173 84 0.13
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (171 bp):
ATTTACAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAAAAAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAA
GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
Found at i:2906854 original size:256 final size:256
Alignment explanation
Indices: 2906381--2907278 Score: 1149
Period size: 256 Copynumber: 3.5 Consensus size: 256
2906371 TTTTTTCTCT
* * * *
2906381 ATTTGCAGCATAGCTCAAGGTGAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGTGAGAAGGGCTATCTGTCAACCAAA-ACCTTCGAGTTCGATTACA
* * *
2906446 CTCAGCTCAAAGGCATATC-AATTTACAGCATAACTCAAGGTGAGAAGGGTTATATGTCAAC-CA
65 CTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAAGTGAGAAGGGTTATCTGTCAACAAA
* * * *
2906509 AGACCTTCGAGTTCAATTACACTCATCTCAAAGGCAAATCAAATTTACAGCATAGCTCAAGGTGA
130 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAATCAAATTTACAGCATAACTCAAGGCGA
* *
2906574 GAAGGGTTATCTGTCAAAAAAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCATATCA
195 GAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCA
* * *
2906636 ATTTACAACATAACTCAAGGTGAGAAGGGTTATCTGTCAACCAAAATCTTCGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGTGAGAAGGGCTATCTGTCAACCAAAACCTTCGAGTTCGATTACAC
* * * *
2906701 TCAGCTCAAAGGCATATCAAATTTATAGTATAGCTCAAAGTGAGAAGGGTTATCTATCAACAAAA
66 TCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAAGTGAGAAGGGTTATCTGTCAACAAAA
* *
2906766 GACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAG
131 GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAATCAAATTTACAGCATAACTCAAGGCGAG
* *
2906831 AAGGGCTATCTGTCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCATATCA
196 AAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCA
* * ** * *
2906892 ATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTTAACCAAGTCCTTCGAGTTTGATTTCAC
1 ATTTACAGCATAACTCAAGGTGAGAAGGGCTATCTGTCAACCAAAACCTTCGAGTTCGATTACAC
* *
2906957 TCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAA
66 TCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAAGTGAGAAGGGTTATCTGTCAACAAAA
* * * * * *
2907022 GACCTTCGAGTTTGATTACATTCAGCTCAAAGGCATATCTAATTTTACAGCATGACTCAAGGCAA
131 GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAATC-AAATTTACAGCATAACTCAAGGCGA
** * * * * *
2907087 GAAATTGTTATCTGTCAGC-AAAGACCTTCGAGTTCGATTACATTCATCTCAAAGGAACATCAA
195 G-AAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATC-A
** * * * * * * * *
2907150 ATTTGTAGCATAGCTCAAGGAGATAAGGGCTATCTGTCAA-TAATACCCTCGAGTTCGATTCCAT
1 ATTTACAGCATAACTCAAGGTGAGAAGGGCTATCTGTCAACCAAAACCTTCGAGTTCGATTACAC
* * * * ** **
2907214 TCAGCTCAAGGGCATGTCATATTTACAGCAT-AGTTTAAGTAGAGAAAAGTTATCTGTCAACAAA
66 TCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAAGT-GAGAAGGGTTATCTGTCAACAAA
2907278 A
130 A
2907279 ATTGTTGAGT
Statistics
Matches: 560, Mismatches: 77, Indels: 10
0.87 0.12 0.02
Matches are distributed among these distances:
254 37 0.07
255 75 0.13
256 275 0.49
257 126 0.22
258 47 0.08
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (256 bp):
ATTTACAGCATAACTCAAGGTGAGAAGGGCTATCTGTCAACCAAAACCTTCGAGTTCGATTACAC
TCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAAGTGAGAAGGGTTATCTGTCAACAAAA
GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAATCAAATTTACAGCATAACTCAAGGCGAG
AAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCA
Found at i:2910333 original size:2 final size:2
Alignment explanation
Indices: 2910326--2910358 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2910316 CATAACTTAA
2910326 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2910359 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2911534 original size:29 final size:30
Alignment explanation
Indices: 2911502--2911579 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
2911492 AAGACAATTT
* * *
2911502 TTTTCATAAATCACAATAAAGAA-CAGAAC
1 TTTTCATAAATTACAATAAAAAAGCAAAAC
* *
2911531 TTTTCATAAATTACTATAAAAAAGTAAAAC
1 TTTTCATAAATTACAATAAAAAAGCAAAAC
*
2911561 TTTTTATAAATTACAATAA
1 TTTTCATAAATTACAATAA
2911580 TAACATATAC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 20 0.49
30 21 0.51
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (30 bp):
TTTTCATAAATTACAATAAAAAAGCAAAAC
Found at i:2911564 original size:30 final size:29
Alignment explanation
Indices: 2911412--2911610 Score: 105
Period size: 29 Copynumber: 6.8 Consensus size: 29
2911402 TTAGGACGCC
* * ** *
2911412 ACTTTTCATAAATTATAATAGAGGATAAA
1 ACTTTTCATAAATTACAATAAAAAACAAA
* * ****
2911441 ACTTTTCACAAATTACAAATACAAGTTTAA
1 ACTTTTCATAAATTAC-AATAAAAAACAAA
* * * * *
2911471 ACTTTTTACAAATTAAAATAAAAGACAAT
1 ACTTTTCATAAATTACAATAAAAAACAAA
** * * *
2911500 TTTTTTCATAAATCACAATAAAGAACAGA
1 ACTTTTCATAAATTACAATAAAAAACAAA
* *
2911529 ACTTTTCATAAATTACTATAAAAAAGTAAA
1 ACTTTTCATAAATTACAATAAAAAA-CAAA
* * *
2911559 ACTTTTTATAAATTACAAT-AATAACATAT
1 ACTTTTCATAAATTACAATAAAAAACA-AA
*
2911588 ACTTTT-TTCAAATTACAATAAAA
1 ACTTTTCAT-AAATTACAATAAAA
2911611 GTTCATATTT
Statistics
Matches: 128, Mismatches: 37, Indels: 9
0.74 0.21 0.05
Matches are distributed among these distances:
28 2 0.02
29 82 0.64
30 44 0.34
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (29 bp):
ACTTTTCATAAATTACAATAAAAAACAAA
Found at i:2911592 original size:59 final size:57
Alignment explanation
Indices: 2911501--2911643 Score: 130
Period size: 59 Copynumber: 2.4 Consensus size: 57
2911491 AAAGACAATT
*
2911501 TTTTTCATAAATCACAATAAAGAACAGAACTTTTCAT-AAATTACTATAAAAAAG-TAAAA
1 TTTTT-ATAAATTACAATAAAGAACAGAACTTTT-ATCAAATTAC-A-AAAAAAGTTAAAA
* * * * * *
2911560 CTTTTTATAAATTACAAT-AATAACATATACTTTTTTCAAATTACAATAAAAGTTCATA
1 -TTTTTATAAATTACAATAAAGAACAGA-ACTTTTATCAAATTACAAAAAAAGTTAAAA
*
2911618 TTTTTATAAATTACAATCAAGGAACA
1 TTTTTATAAATTACAAT-AAAGAACA
2911644 AAATTATACA
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
57 23 0.33
58 12 0.17
59 29 0.42
60 5 0.07
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (57 bp):
TTTTTATAAATTACAATAAAGAACAGAACTTTTATCAAATTACAAAAAAAGTTAAAA
Found at i:2911630 original size:28 final size:29
Alignment explanation
Indices: 2911471--2911634 Score: 99
Period size: 29 Copynumber: 5.7 Consensus size: 29
2911461 ACAAGTTTAA
* * *
2911471 ACTTTTTACAAATTAAAATAAAAGACA-AT
1 ACTTTTTATAAATTACAATAATA-ACATAT
* * * *
2911500 -TTTTTTCATAAATCACAATAAAGAACAGA-
1 ACTTTTT-ATAAATTACAAT-AATAACATAT
* * * *
2911529 ACTTTTCATAAATTACTATAA-AAAAGTAAA
1 ACTTTTTATAAATTACAATAATAACA-T-AT
2911559 ACTTTTTATAAATTACAATAATAACATAT
1 ACTTTTTATAAATTACAATAATAACATAT
**
2911588 ACTTTTT-TCAAATTACAATAA-AAGTTCAT
1 ACTTTTTAT-AAATTACAATAATAACAT-AT
2911617 A-TTTTTATAAATTACAAT
1 ACTTTTTATAAATTACAAT
2911635 CAAGGAACAA
Statistics
Matches: 107, Mismatches: 17, Indels: 23
0.73 0.12 0.16
Matches are distributed among these distances:
27 3 0.03
28 26 0.24
29 47 0.44
30 28 0.26
31 3 0.03
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (29 bp):
ACTTTTTATAAATTACAATAATAACATAT
Found at i:2911916 original size:36 final size:36
Alignment explanation
Indices: 2911876--2911947 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
2911866 GAATGACTTA
2911876 GCCAAGATTCAATGGGTTTTAACACTAAGGAATAGT
1 GCCAAGATTCAATGGGTTTTAACACTAAGGAATAGT
2911912 GCCAAGATTCAATGGGTTTTAACACTAAGGAATAGT
1 GCCAAGATTCAATGGGTTTTAACACTAAGGAATAGT
2911948 TCTCTTGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (36 bp):
GCCAAGATTCAATGGGTTTTAACACTAAGGAATAGT
Found at i:2912880 original size:20 final size:22
Alignment explanation
Indices: 2912829--2912880 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
2912819 TTGTTCAAAT
2912829 ATAATCTGATCTAAAAAATAATCG
1 ATAATC-GATCTAAAAAAT-ATCG
*
2912853 AAAATCGATCTAAAAAAT-T-G
1 ATAATCGATCTAAAAAATATCG
2912873 ATAATCGA
1 ATAATCGA
2912881 AAAAAATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
21 1 0.04
23 12 0.46
24 5 0.19
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (22 bp):
ATAATCGATCTAAAAAATATCG
Found at i:2913716 original size:17 final size:16
Alignment explanation
Indices: 2913694--2913752 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 16
2913684 ATGGAATTAG
2913694 AATCCAATAACCGCACA
1 AATCCAA-AACCGCACA
* *
2913711 AATCC-AAACCGAATTA
1 AATCCAAAACCGCA-CA
2913727 GAATCCAAAAACCGCACA
1 -AATCC-AAAACCGCACA
2913745 AATCCAAA
1 AATCCAAA
2913753 CCGAATCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
15 6 0.18
16 5 0.15
17 15 0.44
18 1 0.03
19 7 0.21
ACGTcount: A:0.51, C:0.31, G:0.07, T:0.12
Consensus pattern (16 bp):
AATCCAAAACCGCACA
Found at i:2913725 original size:34 final size:34
Alignment explanation
Indices: 2913687--2913758 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
2913677 TGCATTTATG
*
2913687 GAATTAGAATCCAATAACCGCACAAATCCAAACC
1 GAATTAGAATCCAAAAACCGCACAAATCCAAACC
2913721 GAATTAGAATCCAAAAACCGCACAAATCCAAACC
1 GAATTAGAATCCAAAAACCGCACAAATCCAAACC
2913755 GAAT
1 GAAT
2913759 CAAACCGCAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.49, C:0.28, G:0.10, T:0.14
Consensus pattern (34 bp):
GAATTAGAATCCAAAAACCGCACAAATCCAAACC
Found at i:2916305 original size:17 final size:17
Alignment explanation
Indices: 2916283--2916316 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2916273 CATTTCTTAC
2916283 TCAAATCAAAATGAAAA
1 TCAAATCAAAATGAAAA
* *
2916300 TCAAATCCAATTGAAAA
1 TCAAATCAAAATGAAAA
2916317 ACTGTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.21
Consensus pattern (17 bp):
TCAAATCAAAATGAAAA
Found at i:2922541 original size:21 final size:21
Alignment explanation
Indices: 2922515--2922573 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
2922505 ATATATGTAA
*
2922515 TCCTTTGGAACATATATTCGG
1 TCCTTTGAAACATATATTCGG
* * *
2922536 TTCTTTAAAACATATATTTGG
1 TCCTTTGAAACATATATTCGG
* *
2922557 TCCTTTGTAATATATAT
1 TCCTTTGAAACATATAT
2922574 ATATATATAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.46
Consensus pattern (21 bp):
TCCTTTGAAACATATATTCGG
Found at i:2922648 original size:22 final size:22
Alignment explanation
Indices: 2922623--2922678 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
2922613 TTATTCGAGA
2922623 CATTTTATATGGCAC-TCTGGTG
1 CATTTTATATGGCACTTC-GGTG
**
2922645 CATTTCTACGTGGCACTTCGGTG
1 CATTT-TATATGGCACTTCGGTG
*
2922668 TATTTTATATG
1 CATTTTATATG
2922679 AGCTGTGGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.33
23 16 0.59
24 2 0.07
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (22 bp):
CATTTTATATGGCACTTCGGTG
Found at i:2930353 original size:21 final size:21
Alignment explanation
Indices: 2930322--2930369 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2930312 AAAATTTATT
*
2930322 AAAACAATATTTAATA-TTCC
1 AAAATAATATTTAATACTTCC
2930342 ATAAATAATATTTAATACTTCC
1 A-AAATAATATTTAATACTTCC
2930364 AAAATA
1 AAAATA
2930370 TTTCCCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 19 0.76
22 5 0.20
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATAATATTTAATACTTCC
Found at i:2935027 original size:33 final size:32
Alignment explanation
Indices: 2934928--2935019 Score: 139
Period size: 33 Copynumber: 2.8 Consensus size: 32
2934918 TTAAATGAAA
2934928 GACAATGATTTAACTCAATTAGATCCCATGATG
1 GACAATGA-TTAACTCAATTAGATCCCATGATG
*
2934961 GACAATGATATAACTCAATTAGGTCCCATGATG
1 GACAATGAT-TAACTCAATTAGATCCCATGATG
*
2934994 GACAATGATTCAACTCACTTAGATCC
1 GACAATGATT-AACTCAATTAGATCC
2935020 AACGATGGCG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
32 2 0.04
33 52 0.96
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (32 bp):
GACAATGATTAACTCAATTAGATCCCATGATG
Found at i:2936510 original size:13 final size:13
Alignment explanation
Indices: 2936492--2936531 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
2936482 AAGATAGTGT
2936492 TCATGTTTAAAAA
1 TCATGTTTAAAAA
2936505 TCATGTTTTATAAAA
1 TCATG-TTTA-AAAA
2936520 T-ATGTTTAAAAA
1 TCATGTTTAAAAA
2936532 GCACACTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.16
13 9 0.36
14 7 0.28
15 5 0.20
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (13 bp):
TCATGTTTAAAAA
Found at i:2937726 original size:31 final size:31
Alignment explanation
Indices: 2937690--2937752 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
2937680 GGACCTATGT
2937690 AACTGTCCATATGTTCCGAAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
*
2937721 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
2937752 A
1 A
2937753 CCCTCGACTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:2946134 original size:18 final size:18
Alignment explanation
Indices: 2946111--2946174 Score: 101
Period size: 18 Copynumber: 3.6 Consensus size: 18
2946101 GAGGGATTAT
* *
2946111 TAGTGGTCATTCGGGATA
1 TAGTGGTCCTTCGGGACA
2946129 TAGTGGTCCTTCGGGACA
1 TAGTGGTCCTTCGGGACA
*
2946147 TAGTGGTCCTTCGGGGCA
1 TAGTGGTCCTTCGGGACA
2946165 TAGTGGTCCT
1 TAGTGGTCCT
2946175 ATGGGACAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.31
Consensus pattern (18 bp):
TAGTGGTCCTTCGGGACA
Found at i:2946160 original size:36 final size:36
Alignment explanation
Indices: 2946111--2946182 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
2946101 GAGGGATTAT
*
2946111 TAGTGGTCATTCGGGATATAGTGGTCCT-TCGGGACA
1 TAGTGGTCATTCGGGACATAGTGGTCCTAT-GGGACA
* *
2946147 TAGTGGTCCTTCGGGGCATAGTGGTCCTATGGGACA
1 TAGTGGTCATTCGGGACATAGTGGTCCTATGGGACA
2946183 AATTTCTACG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (36 bp):
TAGTGGTCATTCGGGACATAGTGGTCCTATGGGACA
Found at i:2950288 original size:18 final size:18
Alignment explanation
Indices: 2950265--2950334 Score: 86
Period size: 18 Copynumber: 3.9 Consensus size: 18
2950255 GGGATTATCT
2950265 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* * *
2950283 GTGGTCATTCAGGATATA
1 GTGGTCCTTCGGGACATA
* *
2950301 GTGGTTCTTCGGGACACA
1 GTGGTCCTTCGGGACATA
*
2950319 GTGGTCCTACGGGACA
1 GTGGTCCTTCGGGACA
2950335 AATTTATACG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:2954086 original size:36 final size:36
Alignment explanation
Indices: 2954039--2954107 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
2954029 GGATTATCAA
2954039 TGGTCATTCGGGACATAATGGTCCT-TCGGGACATAG
1 TGGTCATTCGGGACATAATGGTCCTAT-GGGACATAG
* *
2954075 TGGTCCTTCGGGACATAGTGGTCCTATGGGACA
1 TGGTCATTCGGGACATAATGGTCCTATGGGACA
2954108 AATTTCTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 29 0.97
37 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (36 bp):
TGGTCATTCGGGACATAATGGTCCTATGGGACATAG
Found at i:2954107 original size:18 final size:18
Alignment explanation
Indices: 2954039--2954099 Score: 104
Period size: 18 Copynumber: 3.4 Consensus size: 18
2954029 GGATTATCAA
* *
2954039 TGGTCATTCGGGACATAA
1 TGGTCCTTCGGGACATAG
2954057 TGGTCCTTCGGGACATAG
1 TGGTCCTTCGGGACATAG
2954075 TGGTCCTTCGGGACATAG
1 TGGTCCTTCGGGACATAG
2954093 TGGTCCT
1 TGGTCCT
2954100 ATGGGACAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (18 bp):
TGGTCCTTCGGGACATAG
Found at i:2954791 original size:65 final size:64
Alignment explanation
Indices: 2954687--2954846 Score: 176
Period size: 65 Copynumber: 2.5 Consensus size: 64
2954677 AATTAAATTG
* * * * *
2954687 AACATCAAATGCATTTCATGCATCGATGCACATACCATGCACCAATGCACTGAGGATGTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACAGACCATGCACCAATGCACTCAGGATATTATG-A
* ** * * * * * *
2954752 AACATCGAATGCATTTGATGCATCGATGCACCGGTCATGCATCGATGCATTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACAGACCATGCACCAATGCACTCAGGATATTATGA
*
2954816 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
2954847 TCTTAATGCA
Statistics
Matches: 80, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
64 31 0.39
65 49 0.61
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGACCATGCACCAATGCACTCAGGATATTATGA
Found at i:2954846 original size:17 final size:17
Alignment explanation
Indices: 2954818--2954866 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
2954808 TATTTTGAAA
*
2954818 CATCGAATGCACTTGATG
1 CATCG-ATGCACTTAATG
2954836 CATCGATGCACTCTTAATG
1 CATCGATGCA--CTTAATG
*
2954855 CACCGATGCACT
1 CATCGATGCACT
2954867 AAGGTCCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.26
18 5 0.19
19 15 0.56
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (17 bp):
CATCGATGCACTTAATG
Found at i:2963400 original size:65 final size:63
Alignment explanation
Indices: 2963331--2963510 Score: 218
Period size: 65 Copynumber: 2.8 Consensus size: 63
2963321 AATTAAATTG
* *
2963331 AACATCGAATGCATTTCATGCATCGATGCACA-TACCATGCACCGATGCACTGAGGATATTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACAGT--CATGCACCGATGCACTCAGGATATTATG-
2963395 A
63 A
* * * *
2963396 AACATCGAATGCATTTGATGCATCGATGCACCAGTCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAGTCATGCACCGATGCACTCAGGATATTATGA
* ** *
2963460 AACATCGAATGCACTTGATGCATCGATGCACTCTTAATGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCAC-AGTCATGCACCGATGCACT
2963511 AAGGGTCCAA
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
63 1 0.01
64 45 0.45
65 52 0.51
66 2 0.02
67 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGTCATGCACCGATGCACTCAGGATATTATGA
Found at i:2963490 original size:17 final size:17
Alignment explanation
Indices: 2963462--2963510 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
2963452 TATTTTGAAA
*
2963462 CATCGAATGCACTTGATG
1 CATCG-ATGCACTTAATG
2963480 CATCGATGCACTCTTAATG
1 CATCGATGCA--CTTAATG
*
2963499 CACCGATGCACT
1 CATCGATGCACT
2963511 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.26
18 5 0.19
19 15 0.56
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (17 bp):
CATCGATGCACTTAATG
Found at i:2965399 original size:76 final size:71
Alignment explanation
Indices: 2965275--2965481 Score: 243
Period size: 76 Copynumber: 2.8 Consensus size: 71
2965265 TAAAATCAAG
* * * * *
2965275 TTTAGGATAATATTTTAAACATTATATTTTATCTTTGTGTTTTAGTTTAAATAGGTTTTAGTATT
1 TTTAGAATATTATTTTAAATATTAT-TTTT-T-TTGGTATTTTAGTTTAAATA-GTTTTAGTATT
*
2965340 TTAATTAAGT
62 TTAATTAAGA
* * *
2965350 TTTAGGATATTATTTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATATGTTTTAGTAT
1 TTTAGAATATTA-TTTTAAATATTAT-TTT-TTTT-GGTATTTTAGTTTAAATA-GTTTTAGTAT
*
2965415 TTTAATTAGGA
61 TTTAATTAAGA
2965426 TTTAGAATATTATTTTAAATATTATTTTTTTTGGTATTTTAGTTTAAATAGTTTTA
1 TTTAGAATATTATTTTAAATATTATTTTTTTTGGTATTTTAGTTTAAATAGTTTTA
2965482 ATTAGAATTT
Statistics
Matches: 116, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
71 6 0.05
72 18 0.16
73 4 0.03
74 3 0.03
75 24 0.21
76 60 0.52
77 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.58
Consensus pattern (71 bp):
TTTAGAATATTATTTTAAATATTATTTTTTTTGGTATTTTAGTTTAAATAGTTTTAGTATTTTAA
TTAAGA
Found at i:2969063 original size:5 final size:5
Alignment explanation
Indices: 2969055--2969123 Score: 77
Period size: 5 Copynumber: 13.6 Consensus size: 5
2969045 TTTAGACAAA
* ***
2969055 TTTAT TTTAT TTTAT TCTA- TTTAT TTTAT TTTAT TTTAT CAGAT GCTTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT --TTTAT
2969106 TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTT
2969124 TCTCTGAACA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
4 3 0.06
5 48 0.91
7 2 0.04
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:2969079 original size:14 final size:14
Alignment explanation
Indices: 2969060--2969090 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2969050 ACAAATTTAT
2969060 TTTATTTTATTCTA
1 TTTATTTTATTCTA
*
2969074 TTTATTTTATTTTA
1 TTTATTTTATTCTA
2969088 TTT
1 TTT
2969091 TATCAGATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTCTA
Found at i:2970778 original size:75 final size:75
Alignment explanation
Indices: 2970689--2970914 Score: 225
Period size: 76 Copynumber: 3.1 Consensus size: 75
2970679 TAAACTCAAG
* * *
2970689 TTTAGGATAATATTTTAAACATTATATTTTATCTTT-GTATTTTAATTTAAATCGGTTTTAGTAT
1 TTTAGGATATTATTTTAAATATTATATTTTAT-TTTAGTATTTTAATTTAAATAGGTTTTAGTAT
*
2970753 TTTAATTAAGT
65 TTTAATTAAGA
* * * *
2970764 TTTAGGATATTATTTT-TATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTA
1 TTTAGGATATTATTTTAAATATTATAT-TTTATTTTA-GTATTTTAATTTAAATAGGTTTTAGTA
*
2970828 TTTTAATTAGGA
64 TTTTAATTAAGA
* * *
2970840 TTTAGAATATTATTTTAAATA-T-TA--TT-TTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTT
1 TTTAGGATATTATTTTAAATATTATATTTTATTTTA-GTATTTTAATTTAAATAGGTTTT-AGTA
* *
2970899 TTTTAAATAGGA
64 TTTTAATTAAGA
2970911 TTTA
1 TTTA
2970915 AGATGTTTTA
Statistics
Matches: 133, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
70 5 0.04
71 41 0.31
72 2 0.02
74 10 0.08
75 21 0.16
76 51 0.38
77 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (75 bp):
TTTAGGATATTATTTTAAATATTATATTTTATTTTAGTATTTTAATTTAAATAGGTTTTAGTATT
TTAATTAAGA
Found at i:2971027 original size:12 final size:12
Alignment explanation
Indices: 2971010--2971039 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2971000 ATAAAATTTT
*
2971010 TTTTTCTCTCTA
1 TTTTTCTCTATA
2971022 TTTTTCTCTATA
1 TTTTTCTCTATA
2971034 TTTTTC
1 TTTTTC
2971040 ACATACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTCTCTATA
Found at i:2971516 original size:17 final size:17
Alignment explanation
Indices: 2971491--2971524 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2971481 ATTTATCCCA
*
2971491 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
2971508 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
2971525 TTATCTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:2971607 original size:8 final size:8
Alignment explanation
Indices: 2971592--2971630 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
2971582 TTTTAAATTC
2971592 ATTA-TTT
1 ATTATTTT
2971599 ATTATTTT
1 ATTATTTT
2971607 ATTATTTT
1 ATTATTTT
2971615 ATTATTTT
1 ATTATTTT
2971623 ATTATTTT
1 ATTATTTT
2971631 TCCTTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 4 0.13
8 27 0.87
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTATTTT
Found at i:2973560 original size:20 final size:20
Alignment explanation
Indices: 2973499--2973560 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
2973489 CAAAATTAAT
* *
2973499 AATATATATATATATATTAAA
1 AATATGTATATA-ATATCAAA
* * * *
2973520 AAAATGTAAATAACATGAAA
1 AATATGTATATAATATCAAA
2973540 AATATGTATATAATATCAAA
1 AATATGTATATAATATCAAA
2973560 A
1 A
2973561 TAAGATGGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
20 23 0.72
21 9 0.28
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (20 bp):
AATATGTATATAATATCAAA
Found at i:2973699 original size:44 final size:44
Alignment explanation
Indices: 2973640--2973724 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
2973630 TTTGAAAACA
2973640 TTTTCCTTGTTCTTCTATTTCTCTCTTTCAATAAAGTTTTATTT
1 TTTTCCTTGTTCTTCTATTTCTCTCTTTCAATAAAGTTTTATTT
2973684 TTTTCCTTGTTCTTCTATTTCTCTCTTTCAATAAAGTTTTA
1 TTTTCCTTGTTCTTCTATTTCTCTCTTTCAATAAAGTTTTA
2973725 CTTTGAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.16, C:0.19, G:0.05, T:0.60
Consensus pattern (44 bp):
TTTTCCTTGTTCTTCTATTTCTCTCTTTCAATAAAGTTTTATTT
Found at i:2986593 original size:52 final size:54
Alignment explanation
Indices: 2986513--2986613 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 54
2986503 ATTTAAAAAA
* *
2986513 TTTAAAAGTTCGATTAACAAAAAAAGAAACTCGAGTTTGATTAACTAAATATGT
1 TTTAAAAGTTCGATTAACAAAAAAAGAAAATCGAGTTCGATTAACTAAATATGT
* * *
2986567 TTTACAAGTTCGATT-A-AAAAAGAGAAAATGGAGTTCGATTAACTAAA
1 TTTAAAAGTTCGATTAACAAAAAAAGAAAATCGAGTTCGATTAACTAAA
2986614 AAAATTACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 27 0.64
53 1 0.02
54 14 0.33
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.30
Consensus pattern (54 bp):
TTTAAAAGTTCGATTAACAAAAAAAGAAAATCGAGTTCGATTAACTAAATATGT
Found at i:2989387 original size:37 final size:36
Alignment explanation
Indices: 2989312--2989387 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
2989302 TTTTTATATT
*
2989312 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
2989348 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
2989385 TTT
1 TTT
2989388 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:2989682 original size:14 final size:14
Alignment explanation
Indices: 2989663--2989689 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2989653 GGTTGTGGAA
2989663 TCAAATTTTAAATT
1 TCAAATTTTAAATT
2989677 TCAAATTTTAAAT
1 TCAAATTTTAAAT
2989690 ATTTTGAGAA
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:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
TCAAATTTTAAATT
Found at i:2990401 original size:19 final size:20
Alignment explanation
Indices: 2990368--2990417 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
2990358 TTAAAATTTA
*
2990368 AAATTTAAATAAAAA-TTAT
1 AAATTTAAAAAAAAAGTTAT
2990387 AAATTTAAAAAAAAAGTTAT
1 AAATTTAAAAAAAAAGTTAT
*
2990407 ATAAATTAAAA
1 A-AATTTAAAA
2990418 TTTAGGTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 14 0.52
20 5 0.19
21 8 0.30
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATTTAAAAAAAAAGTTAT
Found at i:2990401 original size:20 final size:20
Alignment explanation
Indices: 2990368--2990417 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2990358 TTAAAATTTA
*
2990368 AAATTT-AAATAAAAATTAT
1 AAATTTAAAAAAAAAATTAT
*
2990387 AAATTTAAAAAAAAAGTTAT
1 AAATTTAAAAAAAAAATTAT
*
2990407 ATAAATTAAAA
1 A-AATTTAAAA
2990418 TTTAGGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 6 0.23
20 12 0.46
21 8 0.31
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATTTAAAAAAAAAATTAT
Found at i:2993885 original size:16 final size:16
Alignment explanation
Indices: 2993856--2993892 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
2993846 TGCTGTGTTC
2993856 TCTTTCTCTGTTTTTT
1 TCTTTCTCTGTTTTTT
2993872 TCTTT-TCTGTTTTTT
1 TCTTTCTCTGTTTTTT
2993887 T-TTTCT
1 TCTTTCT
2993893 TGTCGTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 12 0.60
16 5 0.25
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.78
Consensus pattern (16 bp):
TCTTTCTCTGTTTTTT
Found at i:2994167 original size:27 final size:27
Alignment explanation
Indices: 2994131--2994221 Score: 173
Period size: 27 Copynumber: 3.4 Consensus size: 27
2994121 GCAGTGAGGC
*
2994131 GGCGGCTGGGATTCTTGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
2994158 GGCGGCTGGGATTCTGGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
2994185 GGCGGCTGGGATTCTGGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
2994212 GGCGGCTGGG
1 GGCGGCTGGG
2994222 GGTGGCTAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.20, C:0.19, G:0.43, T:0.19
Consensus pattern (27 bp):
GGCGGCTGGGATTCTGGAAGCATCAGA
Found at i:2994347 original size:3 final size:3
Alignment explanation
Indices: 2994339--2994456 Score: 155
Period size: 3 Copynumber: 38.7 Consensus size: 3
2994329 TTATTTATTA
* * *
2994339 AAT AAT AAT AAT ATAT AAT ATT GAT AAT AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* *
2994386 AAT AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
2994434 AAT TTT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
2994457 ATTTAAATGA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
3 93 0.94
4 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:2995459 original size:118 final size:113
Alignment explanation
Indices: 2995100--2996321 Score: 1609
Period size: 118 Copynumber: 10.7 Consensus size: 113
2995090 AGAATTATGC
*
2995100 AAAAA-GTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * *
2995164 TTATGAACT-T-CTCTGGAAAAGCTGCTCCATCAAGTGATGGATT-TGA
66 TTATGAACTCTACTCTGGAAAA-ATAATCCATCAAGTGATGAATTCAGA
* * *
2995210 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 -AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
**
2995275 ATTATGAAC-CTTTTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA
65 ATTATGAACTCTACTCTGG-AAAAATAATCCATCAAGTGATGAATTCAGA
*
2995324 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
2995389 TCATTATGAACTCTACCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA
63 TCATTATGAACTCTA-CTCTGG-AAAAATAATCCATCAAGTGATGAATTCAGA
*
2995442 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCA
1 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
2995507 TTATGGACT-T-CTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA
66 TTATGAACTCTACTCTGG-AAAAATAATCCATCAAGTGATGAATTCAGA
*
2995554 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
2995619 TCATTATGAACTCTACCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA
63 TCATTATGAACTCTA-CTCTGG-AAAAATAATCCATCAAGTGATGAATTCAGA
2995672 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
2995737 TTATGAACT-T-CTCTGGAAAAGTTGATTCATCAAGTGATGGATT-TGA
66 TTATGAACTCTACTCTGGAAAA-ATAATCCATCAAGTGATGAATTCAGA
* *
2995783 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 -AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* *
2995848 CTCATTATGAACTCTACCTCTGGCAACAATAATCCATCAAGTGATGAATTCAAA
62 CTCATTATGAACTCTA-CTCTGG-AAAAATAATCCATCAAGTGATGAATTCAGA
*
2995902 CAAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 -AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** * * * *
2995967 ATTATGAACTCTAC-CTGGAAAGGCTGATCCAGCAAATGATGGATTCA-A
65 ATTATGAACTCTACTCTGGAAA-AATAATCCATCAAGTGATGAATTCAGA
*
2996015 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 -AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* *
2996080 CTCATTATGAACTCTACCTCTGGAAATACTGAAT-CATCGAA-TGATGAATTCAAGC
62 CTCATTATGAACTCTA-CTCTGGAAA-AAT-AATCCATC-AAGTGATGAATTC-AGA
* *
2996135 GAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
2996199 TTATGAACTCGA-ACTGGAAATACTGAAT-CATCGAA-TGATGAATTCAAGC
66 TTATGAACTCTACTCTGGAAA-AAT-AATCCATC-AAGTGATGAATTC-AGA
* *
2996248 GAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
2996312 TTATGAACTC
66 TTATGAACTC
2996322 GAACTGAAAA
Statistics
Matches: 1018, Mismatches: 57, Indels: 70
0.89 0.05 0.06
Matches are distributed among these distances:
111 10 0.01
112 231 0.23
113 239 0.23
114 31 0.03
115 104 0.10
116 69 0.07
117 3 0.00
118 268 0.26
119 63 0.06
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (113 bp):
AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCTACTCTGGAAAAATAATCCATCAAGTGATGAATTCAGA
Found at i:2995587 original size:230 final size:230
Alignment explanation
Indices: 2995098--2996321 Score: 1769
Period size: 230 Copynumber: 5.3 Consensus size: 230
2995088 ATAGAATTAT
* *
2995098 GCAAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
* ** * * *
2995160 CTCATTATGAACT-T--CTCTGG-AAAAGCTGCTCCATCAAGTGATGGATT-TGAGCAAAAGGTT
66 CTCATTATGAACTCTACCTCTGGCAAAA-ATAATCCATCAAGTGATGAATTCAGA-AAAAAGGTT
* *
2995220 GAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACC
129 GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-C
*
2995285 TTTTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA
193 TTCTCTGG-AAAAATAATCCATCAAGTGATGAATTCAGA
2995324 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
2995388 CTCATTATGAACTCTACCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGAAAAAAGGTTGA
66 CTCATTATGAACTCTACCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGAAAAAAGGTTGA
* *
2995453 ACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGGACTTC
131 ACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC
2995518 TCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA
196 TCTGG-AAAAATAATCCATCAAGTGATGAATTCAGA
2995554 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
2995618 CTCATTATGAACTCTACCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGAAAAAAGGTTGA
66 CTCATTATGAACTCTACCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGAAAAAAGGTTGA
2995683 ACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC
131 ACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC
* * * * *
2995748 TCTGGAAAAGTTGATTCATCAAGTGATGGATT-TGA
196 TCTGGAAAA-ATAATCCATCAAGTGATGAATTCAGA
*
2995783 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
* *
2995848 CTCATTATGAACTCTACCTCTGGCAACAATAATCCATCAAGTGATGAATTCAAACAAAAAGGTTG
66 CTCATTATGAACTCTACCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA-AAAAAGGTTG
*
2995913 AACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-T
130 AACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
** * * * *
2995977 CTACCTGGAAAGGCTGATCCAGCAAATGATGGATTCA-A
195 CT--CTGGAAA-AATAATCCATCAAGTGATGAATTCAGA
*
2996015 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
* **
2996080 CTCATTATGAACTCTACCTCTGG-AAATACTGAAT-CATCGAA-TGATGAATTCAAGCGAAAA-G
66 CTCATTATGAACTCTACCTCTGGCAAA-AAT-AATCCATC-AAGTGATGAATTC-AGAAAAAAGG
*
2996141 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
127 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
2996206 C-TCGAACTGGAAATACTGAAT-CATCGAA-TGATGAATTCA-A
192 CTTC--TCTGGAAA-AAT-AATCCATC-AAGTGATGAATTCAGA
*
2996246 GCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCT
1 GC-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCT
2996307 TCTCATTATGAACTC
65 TCTCATTATGAACTC
2996322 GAACTGAAAA
Statistics
Matches: 927, Mismatches: 47, Indels: 46
0.91 0.05 0.05
Matches are distributed among these distances:
225 51 0.06
228 43 0.05
229 7 0.01
230 372 0.40
231 302 0.33
232 146 0.16
233 6 0.01
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (230 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
CTCATTATGAACTCTACCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGAAAAAAGGTTGA
ACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC
TCTGGAAAAATAATCCATCAAGTGATGAATTCAGA
Found at i:2996816 original size:22 final size:22
Alignment explanation
Indices: 2996791--2996845 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2996781 CATAAAGTTT
*
2996791 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
2996813 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
2996835 TCATCTTTGAA
1 TCATCTTTGAA
2996846 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:2997341 original size:54 final size:54
Alignment explanation
Indices: 2997217--2997417 Score: 252
Period size: 54 Copynumber: 3.8 Consensus size: 54
2997207 CACTGGTTCA
* * *
2997217 TAAAACATTTGACAATACATTCAT-CTTTTCCTGTGGTTTCTG-TC-GA-G-ATG
1 TAAAACATTTGACAACACATTCATCCTTTT-CTGTGGCTTCTGCTCAGATGTTTG
*
2997267 TAAAACACTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
* * **
2997321 TAAAACATTTGACAACACATTCATCC-TTTCTTGTGGTTTTTGCTCAGATGTTCA
1 TAAAACATTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGCTCAGATGTTTG
* *
2997375 TAAAGCGTTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
2997418 CAAGATTTCT
Statistics
Matches: 131, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
50 33 0.25
51 7 0.05
52 2 0.02
53 5 0.04
54 80 0.61
55 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
Found at i:2999718 original size:84 final size:84
Alignment explanation
Indices: 2999577--2999967 Score: 705
Period size: 84 Copynumber: 4.7 Consensus size: 84
2999567 ATTCCTACCG
* * *
2999577 AACCAGATCAGATAACTCAAAGAACATTTCCAAAAGATGCTATTGAACACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
*
2999642 TCAATGATTAG-TCTTGTTC
66 TCAATGATTAGTTC-TGTCC
2999661 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
2999726 TCAATGATTAGTTCTGTCC
66 TCAATGATTAGTTCTGTCC
2999745 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
2999810 TCAATGATTAGTTCTGTCC
66 TCAATGATTAGTTCTGTCC
2999829 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
*
2999894 TCAATGATT-GGTCTTGTCC
66 TCAATGATTAGTTC-TGTCC
2999913 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTAT
2999968 ATTTGTTCCA
Statistics
Matches: 300, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
83 3 0.01
84 295 0.98
85 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (84 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
TCAATGATTAGTTCTGTCC
Found at i:3008737 original size:16 final size:16
Alignment explanation
Indices: 3008708--3008744 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
3008698 TGCTGTGTTC
3008708 TCTTTCTCTGTTTTTT
1 TCTTTCTCTGTTTTTT
3008724 TCTTT-TCTGTTTTTT
1 TCTTTCTCTGTTTTTT
3008739 T-TTTCT
1 TCTTTCT
3008745 TGTCGTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 12 0.60
16 5 0.25
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.78
Consensus pattern (16 bp):
TCTTTCTCTGTTTTTT
Found at i:3009019 original size:27 final size:27
Alignment explanation
Indices: 3008983--3009073 Score: 173
Period size: 27 Copynumber: 3.4 Consensus size: 27
3008973 GCAGTGAGGC
*
3008983 GGCGGCTGGGATTCTTGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
3009010 GGCGGCTGGGATTCTGGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
3009037 GGCGGCTGGGATTCTGGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
3009064 GGCGGCTGGG
1 GGCGGCTGGG
3009074 GGTGGCTAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.20, C:0.19, G:0.43, T:0.19
Consensus pattern (27 bp):
GGCGGCTGGGATTCTGGAAGCATCAGA
Found at i:3009199 original size:3 final size:3
Alignment explanation
Indices: 3009191--3009308 Score: 155
Period size: 3 Copynumber: 38.7 Consensus size: 3
3009181 TTATTTATTA
* * *
3009191 AAT AAT AAT AAT ATAT AAT ATT GAT AAT AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* *
3009238 AAT AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
3009286 AAT TTT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
3009309 ATTTAAATGA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
3 93 0.94
4 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:3010650 original size:144 final size:144
Alignment explanation
Indices: 3010385--3010663 Score: 387
Period size: 144 Copynumber: 1.9 Consensus size: 144
3010375 ATAACACTTA
* * * * **
3010385 TTTGTTATCGTGCTGATATTTCCTGCTTTGGACTCTCAAATTAGATTTGGATACACGATTTGTGT
1 TTTGTTATCATGCTGATATTTCCTGCTTTGAACACTCAAATTAGATTTGGATACACAATTTGCAT
* * * *
3010450 TCATGGATAGTTTTTACGTCACTCAATTCTGATTTACGATTTACCGATGATTTTTCAATAATTTG
66 TCATAGATAGATTTTACGTCACTCAATTCTGATTTACGATTTACCGATGATCTTTCAATAATTTC
3010515 ATCTCCGTTTGTGG
131 ATCTCCGTTTGTGG
* * *
3010529 TTTGTTATCATGTTGATCTTTCCTGTTTTGAACACTCAAATTAGATTTGGATACACAATTTGCAT
1 TTTGTTATCATGCTGATATTTCCTGCTTTGAACACTCAAATTAGATTTGGATACACAATTTGCAT
* * * * * *
3010594 TCGTAGATAGATTTTACGTCGCTCGATTCTGATTTACGGTTTACCGGTGGTCTTTCAATAATTTC
66 TCATAGATAGATTTTACGTCACTCAATTCTGATTTACGATTTACCGATGATCTTTCAATAATTTC
3010659 ATCTC
131 ATCTC
3010664 ATTTTCTGGT
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
144 116 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (144 bp):
TTTGTTATCATGCTGATATTTCCTGCTTTGAACACTCAAATTAGATTTGGATACACAATTTGCAT
TCATAGATAGATTTTACGTCACTCAATTCTGATTTACGATTTACCGATGATCTTTCAATAATTTC
ATCTCCGTTTGTGG
Found at i:3011715 original size:21 final size:23
Alignment explanation
Indices: 3011689--3011735 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
3011679 TGGGAGTCGT
*
3011689 ATTTGGCAA-AGCTT-GACTTTG
1 ATTTGGCAAGAACTTCGACTTTG
*
3011710 ATTTGGTAAGAACTTCGACTTTG
1 ATTTGGCAAGAACTTCGACTTTG
3011733 ATT
1 ATT
3011736 CAACTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 4 0.18
23 10 0.45
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (23 bp):
ATTTGGCAAGAACTTCGACTTTG
Found at i:3019319 original size:63 final size:63
Alignment explanation
Indices: 3019242--3019360 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 63
3019232 ATACACTATT
* *
3019242 AAATGAAAAACATCGAATGCAATAAGTGTATCGATACACAGG-AGGTGTATCGATACCCCCTTG
1 AAATGAAAAACATCGAATGCAATAAGTGTACCGATACACAGGCA-GTGTACCGATACCCCCTTG
* ** *
3019305 AAATGAAAAACATCGAATGTAATTTGTGTACCGATACATAGGCAGTGTACCGATAC
1 AAATGAAAAACATCGAATGCAATAAGTGTACCGATACACAGGCAGTGTACCGATAC
3019361 ACTAGTTAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
63 48 0.98
64 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (63 bp):
AAATGAAAAACATCGAATGCAATAAGTGTACCGATACACAGGCAGTGTACCGATACCCCCTTG
Found at i:3019399 original size:20 final size:20
Alignment explanation
Indices: 3019330--3019404 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 20
3019320 AATGTAATTT
3019330 GTGTACCGATACA-TA-GGCA
1 GTGTACCGATACACTATGG-A
3019349 GTGTACCGATACACTAGTTAAGGA
1 GTGTACCGATACACTA--T--GGA
*
3019373 ATGTACCGATACACTATGGA
1 GTGTACCGATACACTATGGA
3019393 GTGTACCGATAC
1 GTGTACCGATAC
3019405 CTACCTTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
19 13 0.27
20 16 0.33
22 1 0.02
24 16 0.33
25 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (20 bp):
GTGTACCGATACACTATGGA
Found at i:3020078 original size:31 final size:31
Alignment explanation
Indices: 3019909--3020093 Score: 237
Period size: 31 Copynumber: 6.0 Consensus size: 31
3019899 GAGTCGAGGG
* * *
3019909 TTACCTATGTTC-TCTAGGACATATGAATTGA
1 TTACCTATGTTCTTC-GGGACATATGGACTGA
* *
3019940 TTAACTATGTTCTTCGGGACATATGAACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* *
3019971 TTACCTATGTTCTTTGGGACATATGGGCTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* *
3020002 TTACCTATGTTCTTCGGGACATATAGACTAA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* *
3020033 TTACATATGTTCTTCGGGATATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* *
3020064 TTACCTATGTTCTTCGGAACACATGGACTG
1 TTACCTATGTTCTTCGGGACATATGGACTG
3020094 GCCCTCCAGG
Statistics
Matches: 134, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
31 132 0.99
32 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:3026640 original size:29 final size:28
Alignment explanation
Indices: 3026575--3026640 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
3026565 TTAAATTTAA
*
3026575 AAAAATTGAAAGTTTAGGTACTAAAACG
1 AAAAATTGAAAGTTTAGATACTAAAACG
* *
3026603 AATCAAATTGATAGTTTATATACTAAACACG
1 AA--AAATTGAAAGTTTAGATACTAAA-ACG
*
3026634 GAAAATT
1 AAAAATT
3026641 TTATTGACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
28 2 0.06
29 5 0.16
30 20 0.65
31 4 0.13
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (28 bp):
AAAAATTGAAAGTTTAGATACTAAAACG
Found at i:3034072 original size:2 final size:2
Alignment explanation
Indices: 3034060--3034100 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
3034050 TTAAGGAAAA
*
3034060 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3034101 ATTTTGTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3034620 original size:18 final size:18
Alignment explanation
Indices: 3034571--3034625 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
3034561 CATTTCTTTG
3034571 ATATTAAAAATAA-ATAA
1 ATATTAAAAATAATATAA
* *
3034588 ATATTAAGAAGAATAT-A
1 ATATTAAAAATAATATAA
*
3034605 ATAATTAAAAATAATAAAA
1 AT-ATTAAAAATAATATAA
3034624 AT
1 AT
3034626 GAAGTAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 14 0.47
18 13 0.43
19 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
ATATTAAAAATAATATAA
Found at i:3034639 original size:35 final size:35
Alignment explanation
Indices: 3034573--3034637 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
3034563 TTTCTTTGAT
* *
3034573 ATTAAAAATAAATAAATATTAAGAAGAATATAATA
1 ATTAAAAATAAATAAAAATGAAGAAGAATATAATA
*
3034608 ATTAAAAAT-AATAAAAATGAAGTA-AATATA
1 ATTAAAAATAAATAAAAATGAAGAAGAATATA
3034638 TATATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 6 0.22
34 12 0.44
35 9 0.33
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (35 bp):
ATTAAAAATAAATAAAAATGAAGAAGAATATAATA
Done.