Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 34 of 130
Found at i:8666706 original size:16 final size:14
Alignment explanation
Indices: 8666677--8666710 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
8666667 CTATATATAT
8666677 TTTTCTTTATTTTA
1 TTTTCTTTATTTTA
8666691 TTTTCATTTCATTTTA
1 TTTTC-TTT-ATTTTA
8666707 TTTT
1 TTTT
8666711 ATTATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 3 0.17
16 10 0.56
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTTATTTTA
Found at i:8666717 original size:3 final size:3
Alignment explanation
Indices: 8666704--8666734 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8666694 TCATTTCATT
8666704 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8666735 GTTTTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:8666762 original size:5 final size:5
Alignment explanation
Indices: 8666682--8666731 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 5
8666672 TATATTTTTC
*
8666682 TTTAT TTTAT TTTCAT TTCAT TTTAT TTTAT TATTAT TATTAT TATTAT
1 TTTAT TTTAT TTT-AT TTTAT TTTAT TTTAT T-TTAT T-TTAT T-TTAT
8666731 T
1 T
8666732 ATTGTTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
5 20 0.49
6 21 0.51
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:8666888 original size:21 final size:22
Alignment explanation
Indices: 8666859--8666912 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
8666849 TATTATTTAA
*
8666859 TTTTAATTTATCTG-TTAATTT
1 TTTTGATTTATCTGATTAATTT
*
8666880 TTTTGATTTATCTGATTTATTT
1 TTTTGATTTATCTGATTAATTT
8666902 TCATTTGATTT
1 T--TTTGATTT
8666913 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 13 0.46
22 7 0.25
24 8 0.29
ACGTcount: A:0.20, C:0.06, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTGATTTATCTGATTAATTT
Found at i:8667217 original size:26 final size:26
Alignment explanation
Indices: 8667188--8667238 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
8667178 CTATAGGAAT
*
8667188 CGAAAAATTTTTTTGGAGATTTTTGG
1 CGAAAAATTTTTTTGGAAATTTTTGG
*
8667214 CGAAAATTTTTTTTGGAAATTTTTG
1 CGAAAAATTTTTTTGGAAATTTTTG
8667239 AAAAATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (26 bp):
CGAAAAATTTTTTTGGAAATTTTTGG
Found at i:8667840 original size:5 final size:5
Alignment explanation
Indices: 8667809--8667899 Score: 62
Period size: 5 Copynumber: 17.6 Consensus size: 5
8667799 TTAGATTAGG
* * * *
8667809 TTTAT TTAAT GTTCT TTTAT CTTTAT TTTATT TTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T
*
8667858 TTT-T TTTAT TTTCACT TTTAT TTTGT TTTA- -TTAT TTTAT TTT
1 TTTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
8667900 CTTTAAATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 36 0.53
6 21 0.31
7 4 0.06
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:8667866 original size:32 final size:30
Alignment explanation
Indices: 8667825--8667900 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 30
8667815 TAATGTTCTT
*
8667825 TTATCTTTATTTT-ATTTTTATTTTTGTTTTA
1 TTAT-TTTATTTTCACTTTTA-TTTTGTTTTA
*
8667856 CTTTTTTTTATTTTCACTTTTATTTTGTTTTA
1 --TTATTTTATTTTCACTTTTATTTTGTTTTA
8667888 TTATTTTATTTTC
1 TTATTTTATTTTC
8667901 TTTAAATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 12 0.31
32 18 0.46
33 9 0.23
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (30 bp):
TTATTTTATTTTCACTTTTATTTTGTTTTA
Found at i:8667876 original size:27 final size:28
Alignment explanation
Indices: 8667823--8667900 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
8667813 TTTAATGTTC
* * *
8667823 TTTTATCTTTATTTTATTTTTATTTTTG
1 TTTTATCTTTATTTTATTTTCACTTTTA
*
8667851 TTTTA-CTTTTTTTTATTTTCACTTTTA
1 TTTTATCTTTATTTTATTTTCACTTTTA
* *
8667878 TTTTGTTTTATTATTTTATTTTC
1 TTTT-ATCT-TTATTTTATTTTC
8667901 TTTAAATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.55
28 5 0.12
29 1 0.03
30 12 0.30
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (28 bp):
TTTTATCTTTATTTTATTTTCACTTTTA
Found at i:8667976 original size:58 final size:58
Alignment explanation
Indices: 8667914--8668259 Score: 392
Period size: 58 Copynumber: 5.7 Consensus size: 58
8667904 AAATAAAATC
*
8667914 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
*
8667972 CAAAAAAAGAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 C-AAAAAA-A--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
* * *
8668034 CAAAAAAGTTTTTTTGAAGAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTT
* ** * *
8668092 CAAAAAAA-AGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTC
1 CAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTT
* * *
8668151 CAAAAAAATAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTT
1 C------A-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
**
8668216 C-AAAAAATGAATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTC
1 CAAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
8668260 CTGCACAAAA
Statistics
Matches: 246, Mismatches: 24, Indels: 35
0.81 0.08 0.11
Matches are distributed among these distances:
57 12 0.05
58 84 0.34
59 45 0.18
60 1 0.00
61 6 0.02
62 49 0.20
65 5 0.02
66 43 0.17
67 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (58 bp):
CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
Found at i:8668214 original size:65 final size:65
Alignment explanation
Indices: 8668095--8668222 Score: 177
Period size: 66 Copynumber: 2.0 Consensus size: 65
8668085 AAATTTTCAA
* * *
8668095 AAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAAAT
1 AAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCCAAAAAAAT
* * * *
8668160 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAGTTTTCAAAAAA
1 AAAAAAGA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCCAAAAAA
8668223 TGAATTTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 20 0.36
66 35 0.64
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (65 bp):
AAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCCAAAAAAAT
Found at i:8676963 original size:9 final size:9
Alignment explanation
Indices: 8676949--8677000 Score: 72
Period size: 8 Copynumber: 5.8 Consensus size: 9
8676939 ACTATGCTTA
8676949 AAAAAAATG
1 AAAAAAATG
8676958 -AAAAAATG
1 AAAAAAATG
8676966 AAAAAAATG
1 AAAAAAATG
8676975 AAAAAAAAAT-
1 --AAAAAAATG
8676985 AAAAAAATG
1 AAAAAAATG
8676994 AAAAAAA
1 AAAAAAA
8677001 AAAGTGAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 16 0.41
9 15 0.38
11 8 0.21
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:8676972 original size:19 final size:20
Alignment explanation
Indices: 8676947--8677002 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
8676937 ATACTATGCT
8676947 TAAAAAAAATG---AAAAAA
1 TAAAAAAAATGAAAAAAAAA
*
8676964 TGAAAAAAATGAAAAAAAAA
1 TAAAAAAAATGAAAAAAAAA
8676984 T-AAAAAAATGAAAAAAAAA
1 TAAAAAAAATGAAAAAAAAA
8677003 AGTGAATGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
17 10 0.29
19 18 0.51
20 7 0.20
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (20 bp):
TAAAAAAAATGAAAAAAAAA
Found at i:8678167 original size:43 final size:42
Alignment explanation
Indices: 8678016--8678185 Score: 173
Period size: 41 Copynumber: 4.1 Consensus size: 42
8678006 ATTGCCAATG
* * * * * *
8678016 AGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTATTTAAAGG
1 AGCAATTTATTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGA
* * * * * *
8678057 AGCAATTTACTTTC-CAAAGTCGTGGTGCCTCAGTTTAAAGG
1 AGCAATTTATTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGA
* * *
8678098 AGCAATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGA
1 AGCAATTTATTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGA
*
8678140 AGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGA
1 AGCAATTTAT-TTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGA
8678183 AGC
1 AGC
8678186 TTTGATTGAA
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 50 0.45
42 29 0.26
43 32 0.29
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (42 bp):
AGCAATTTATTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGA
Found at i:8678384 original size:5 final size:5
Alignment explanation
Indices: 8678374--8678492 Score: 91
Period size: 5 Copynumber: 22.6 Consensus size: 5
8678364 CTTTTTTTTC
8678374 TTTAT TTTAT TTTCATT TTTATT TTTAT TTTAT TTTAT TTTAT TTT-T
1 TTTAT TTTAT TTT-A-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT
* * *
8678421 TAT-T TTTATT TTTAT TCTAT TTCTA- TTTAT TATTAT TATTAT TATTGT
1 TTTAT TTTA-T TTTAT TTTAT TT-TAT TTTAT T-TTAT T-TTAT T-TTAT
* *
8678469 TTTAT ATTTTT TTTCT TTTAT TTT
1 TTTAT -TTTAT TTTAT TTTAT TTT
8678493 TATCTTAGGT
Statistics
Matches: 97, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
4 8 0.08
5 50 0.52
6 35 0.36
7 4 0.04
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:8678397 original size:6 final size:6
Alignment explanation
Indices: 8678374--8678495 Score: 96
Period size: 6 Copynumber: 20.8 Consensus size: 6
8678364 CTTTTTTTTC
*
8678374 TTTA-T TTTATT TTCATT TTTATT TTTA-T TTTA-T TTTA-T TTTATTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT
* * * *
8678419 TTTATT TTTATT TTTA-T TCTATT TCTATT TATTATT ATTATT ATTATTGT
1 TTTATT TTTATT TTTATT TTTATT TTTATT T-TTATT TTTATT TTTA-T-T
* *
8678469 TTTATA TTT-TT TTT-CT TTTATT TTTAT
1 TTTATT TTTATT TTTATT TTTATT TTTAT
8678496 CTTAGGTATT
Statistics
Matches: 99, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.31
6 53 0.54
7 11 0.11
8 4 0.04
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:8678411 original size:33 final size:32
Alignment explanation
Indices: 8678374--8678495 Score: 129
Period size: 33 Copynumber: 3.7 Consensus size: 32
8678364 CTTTTTTTTC
8678374 TTTATTTTATTTTCATTTTTATTTTTATTTTAT
1 TTTATTTTATTTT-ATTTTTATTTTTATTTTAT
*
8678407 TTTATTTTATTTTTTATTTTTATTTTTATTCTAT
1 TTTATTTTA--TTTTATTTTTATTTTTATTTTAT
* * *
8678441 TTCTA-TTTATTATTATTATTATTATTGTTTTAT
1 TT-TATTTTATT-TTATTTTTATTTTTATTTTAT
* *
8678474 ATTTTTTTTCTTTTATTTTTAT
1 -TTTATTTTATTTTATTTTTAT
8678496 CTTAGGTATT
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
32 2 0.03
33 36 0.48
34 31 0.41
35 6 0.08
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (32 bp):
TTTATTTTATTTTATTTTTATTTTTATTTTAT
Found at i:8678432 original size:40 final size:42
Alignment explanation
Indices: 8678375--8678492 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 42
8678365 TTTTTTTTCT
*
8678375 TTATTTTATTTTCATTTTTATTTTTATTTTATTTTATT-TTA
1 TTATTTTATTTTTATTTTTATTTTTATTTTATTTTATTATTA
*
8678416 TT-TTTTATTTTTATTTTTA-TTCTATTTCTA-TTTATTATTA
1 TTATTTTATTTTTATTTTTATTTTTATTT-TATTTTATTATTA
* *
8678456 TTATTATTATTGTTTTATATTT-TTTTTCTTTTATTTT
1 TTATT-TTA-T-TTTTATTTTTATTTTTATTTTATTTT
8678493 TATCTTAGGT
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
39 13 0.20
40 23 0.36
41 4 0.06
42 3 0.05
43 3 0.05
44 18 0.28
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (42 bp):
TTATTTTATTTTTATTTTTATTTTTATTTTATTTTATTATTA
Found at i:8678629 original size:21 final size:22
Alignment explanation
Indices: 8678600--8678643 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
8678590 TATTATTTAA
8678600 TTTTAATTTATCTG-TTAATTT
1 TTTTAATTTATCTGATTAATTT
* *
8678621 TTTTTATTTATCTGATTTATTT
1 TTTTAATTTATCTGATTAATTT
8678643 T
1 T
8678644 CATCTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTAATTTATCTGATTAATTT
Found at i:8679531 original size:21 final size:23
Alignment explanation
Indices: 8679501--8679548 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 23
8679491 CCAAGTTTTT
8679501 TTTTTAATTAATTA-ATTA-TTTA
1 TTTTTAATT-ATTAGATTAGTTTA
8679523 TTTTT-ATTATTAGATTAGGTTTA
1 TTTTTAATTATTAGATTA-GTTTA
8679546 TTT
1 TTT
8679549 AATGTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.17
21 7 0.30
22 5 0.22
23 7 0.30
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (23 bp):
TTTTTAATTATTAGATTAGTTTA
Found at i:8679731 original size:59 final size:59
Alignment explanation
Indices: 8679652--8680098 Score: 479
Period size: 58 Copynumber: 7.7 Consensus size: 59
8679642 AAATAAAATC
* *
8679652 CAAAAAAA-AATTTTT-GGGAAAAGTTTAAA-TATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* ** * *
8679708 CAAAAAAAGGTTTTTTTTAGG-AAAGTTAAAAGTATCAATATTT-CTTAAAAATAAATTGT
1 CAAAAAAA-GTATTTTTGGGGAAAAGTTGAAAGTATCAAT-TTTCCTTAAAAATAAATTTT
* * * * * *
8679767 C-GAAAAAGTTTTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCAAAAATCAAAGTTT
1 CAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTT
* *
8679826 CCAAAAAA-TATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * *
8679884 CAAAAAAAAG-A--TTTGGGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAGTTTT
1 C-AAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * * ** * *
8679941 CAAAAAATGAATTTTTGAGGAAAAGTCGAAAGTATCAATTTTCCTCGAAATTAAAGTTT
1 CAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * *
8680000 CAAAAGAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAAAGTTT
1 CAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTT
*
8680058 CAAAAGAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 CAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
8680099 TCTTGCATAA
Statistics
Matches: 336, Mismatches: 40, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
56 15 0.04
57 60 0.18
58 134 0.40
59 119 0.35
60 8 0.02
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.35
Consensus pattern (59 bp):
CAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:8680013 original size:31 final size:30
Alignment explanation
Indices: 8679978--8680071 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 30
8679968 GAAAGTATCA
8679978 ATTTTCCTCGAAATTAAAGTTTCAAAAGAAT
1 ATTTT-CTCGAAATTAAAGTTTCAAAAGAAT
* ** * *
8680009 ATTTT-TGGGGA--AAAG-TT-GAAAGTAT
1 ATTTTCTCGAAATTAAAGTTTCAAAAGAAT
8680034 CAATTTTCTTCGAAATTAAAGTTTCAAAAGAAT
1 --ATTTTC-TCGAAATTAAAGTTTCAAAAGAAT
8680067 ATTTT
1 ATTTT
8680072 TGGGGAAAAG
Statistics
Matches: 45, Mismatches: 10, Indels: 16
0.63 0.14 0.23
Matches are distributed among these distances:
25 6 0.13
26 2 0.04
27 9 0.20
29 6 0.13
31 14 0.31
32 2 0.04
33 6 0.13
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (30 bp):
ATTTTCTCGAAATTAAAGTTTCAAAAGAAT
Found at i:8680023 original size:27 final size:27
Alignment explanation
Indices: 8679993--8680083 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
8679983 CCTCGAAATT
8679993 AAAGTTTCAAAAGAATATTTTTGGGGA
1 AAAGTTTCAAAAGAATATTTTTGGGGA
* * * **
8680020 AAAG-TT-GAAAGTATCAATTTTCTTCGAAA
1 AAAGTTTCAAAAGAAT--A-TTT-TTGGGGA
8680049 TTAAAGTTTCAAAAGAATATTTTTGGGGA
1 --AAAGTTTCAAAAGAATATTTTTGGGGA
8680078 AAAGTT
1 AAAGTT
8680084 GAAAGTATCA
Statistics
Matches: 46, Mismatches: 10, Indels: 16
0.64 0.14 0.22
Matches are distributed among these distances:
25 6 0.13
26 2 0.04
27 11 0.24
28 3 0.07
29 8 0.17
30 3 0.07
31 5 0.11
32 2 0.04
33 6 0.13
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (27 bp):
AAAGTTTCAAAAGAATATTTTTGGGGA
Found at i:8680097 original size:27 final size:27
Alignment explanation
Indices: 8680009--8680099 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
8679999 TCAAAAGAAT
8680009 ATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTTGGGGAAAAGTTGAAAGTATCA
* ** * *
8680036 ATTTTCTTCGAAATTAAAGTTTCAAAAGAAT--
1 A-TTT-TTGGGGA--AAAG-TT-GAAAGTATCA
8680067 ATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTTGGGGAAAAGTTGAAAGTATCA
8680094 ATTTTT
1 ATTTTT
8680100 CTTGCATAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 16
0.64 0.14 0.22
Matches are distributed among these distances:
25 6 0.13
26 2 0.04
27 11 0.24
28 3 0.07
29 8 0.17
30 3 0.07
31 5 0.11
32 2 0.04
33 6 0.13
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTTGGGGAAAAGTTGAAAGTATCA
Found at i:8680782 original size:32 final size:31
Alignment explanation
Indices: 8680746--8680811 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
8680736 GAAAATAGTG
8680746 AAAAATAATTTTCTATAA-AATTTAAATTTTTA
1 AAAAATAATTTTCTA-AATAATTT-AATTTTTA
* * *
8680778 AAAAATAGTTTTTTAAATAATTTATTTTTTA
1 AAAAATAATTTTCTAAATAATTTAATTTTTA
8680809 AAA
1 AAA
8680812 TGATTGATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
AAAAATAATTTTCTAAATAATTTAATTTTTA
Found at i:8680812 original size:17 final size:17
Alignment explanation
Indices: 8680772--8680826 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
8680762 AAAATTTAAA
*
8680772 TTTTTAAAA-AATAG-T
1 TTTTTAAAATAATTGAT
*
8680787 TTTTT-AAATAATTTAT
1 TTTTTAAAATAATTGAT
*
8680803 TTTTTAAAATGATTGAT
1 TTTTTAAAATAATTGAT
8680820 TATTTTA
1 T-TTTTA
8680827 TTAAAAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 3 0.09
15 8 0.25
16 6 0.19
17 10 0.31
18 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTTTAAAATAATTGAT
Found at i:8681706 original size:5 final size:5
Alignment explanation
Indices: 8681696--8681725 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
8681686 AAAAAAATAA
*
8681696 GAAAT GAAAT GAAAT GAAAT GAAAT AAAAT
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT
8681726 CTGAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (5 bp):
GAAAT
Found at i:8682587 original size:3 final size:3
Alignment explanation
Indices: 8682581--8682696 Score: 132
Period size: 3 Copynumber: 38.7 Consensus size: 3
8682571 AGAAAAACAA
8682581 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
8682628 AAT AAT AAT AAT AAT AAT -AT AAT CAT AAT -AT ACCAT AAT ATT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT A-AT
* *
8682674 TAT AAT ATAT ACT -AT AAT AAT AA
1 AAT AAT A-AT AAT AAT AAT AAT AA
8682697 CAAAAATAAG
Statistics
Matches: 97, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
2 7 0.07
3 83 0.86
4 4 0.04
5 3 0.03
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:8683062 original size:54 final size:54
Alignment explanation
Indices: 8682952--8683088 Score: 150
Period size: 54 Copynumber: 2.6 Consensus size: 54
8682942 ACCTGAGATG
* * *** * *
8682952 AGATCGAATAACTGAGATGATGCTGCGAGGTTAAAAATGATCTGACTTATGCCA
1 AGATCAAATAACTGAGACGATGCCATGAGTTTAAAAATGATCTGACCTATGCCA
* * *
8683006 AGATCAAATAACTGAGACGATGCCATGAGTTTAAGAATGATCTGACCTGTGTCA
1 AGATCAAATAACTGAGACGATGCCATGAGTTTAAAAATGATCTGACCTATGCCA
* * *
8683060 AGAACAAATGACTG-GGCGATGCCATGAGT
1 AGATCAAATAACTGAGACGATGCCATGAGT
8683089 CTGAAAGTAC
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
53 14 0.20
54 56 0.80
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (54 bp):
AGATCAAATAACTGAGACGATGCCATGAGTTTAAAAATGATCTGACCTATGCCA
Found at i:8683163 original size:60 final size:59
Alignment explanation
Indices: 8683100--8683381 Score: 223
Period size: 60 Copynumber: 4.7 Consensus size: 59
8683090 TGAAAGTACC
* *
8683100 CAAGATTGAGTCAAGGTTAAAGATGAATGACTGGGATGATGTCGCGAGTCTGAGAATGAC
1 CAAGATCGAGTCAAGGTTAAA-ATGAATGACTGGGATGATGTCGCGAGTCTGAGAATGAT
* * * * * *
8683160 CAAGACCAAGTCGAGG-TATAAATGAATGATTAGGATGATG-CTGCGAGTCTGAGAGTGAT
1 CAAGATCGAGTCAAGGTTA-AAATGAATGACTGGGATGATGTC-GCGAGTCTGAGAATGAT
* * * * * * *
8683219 CAAGATCGAGTTGAA-ATCATAAATGAATGACTGAGACGATGTCACGAGTCTGAGAGTGAT
1 CAAGATCGAG-TCAAGGTTA-AAATGAATGACTGGGATGATGTCGCGAGTCTGAGAATGAT
* * * * * * *
8683279 TAAGATTTGAGTCGAA-GTTGTAAATAAATGATTGGCATGATGTCGTGAGTCTGAGAATGAT
1 CAAGA-TCGAGTC-AAGGTT-AAAATGAATGACTGGGATGATGTCGCGAGTCTGAGAATGAT
* *
8683340 CAAGACCGAGTCAAGGTCGT-AAATGAATTACTGGGATGATGT
1 CAAGATCGAGTCAAGGT--TAAAATGAATGACTGGGATGATGT
8683382 TATGCGTCTA
Statistics
Matches: 171, Mismatches: 40, Indels: 22
0.73 0.17 0.09
Matches are distributed among these distances:
58 1 0.01
59 44 0.26
60 81 0.47
61 44 0.26
62 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (59 bp):
CAAGATCGAGTCAAGGTTAAAATGAATGACTGGGATGATGTCGCGAGTCTGAGAATGAT
Found at i:8683329 original size:61 final size:59
Alignment explanation
Indices: 8683122--8683351 Score: 212
Period size: 61 Copynumber: 3.8 Consensus size: 59
8683112 AAGGTTAAAG
* * * * * **
8683122 ATGAATGACTGGGATGATGTCGCGAGTCTGAGAATGACCAAGACCAAGTCGAGGT-ATAA
1 ATGAATGA-TTGGATGATGTCGCGAGTCTGAGAGTGATCAAGATCGAGTCGAAATCATAA
*
8683181 ATGAATGATTAGGATGATG-CTGCGAGTCTGAGAGTGATCAAGATCGAGTTGAAATCATAA
1 ATGAATGATT-GGATGATGTC-GCGAGTCTGAGAGTGATCAAGATCGAGTCGAAATCATAA
* * * * * * **
8683241 ATGAATGACTGAGACGATGTCACGAGTCTGAGAGTGATTAAGATTTGAGTCGAAGTTGTAA
1 ATGAATGATTG-GATGATGTCGCGAGTCTGAGAGTGATCAAGA-TCGAGTCGAAATCATAA
* * * *
8683302 ATAAATGATTGGCATGATGTCGTGAGTCTGAGAATGATCAAGACCGAGTC
1 ATGAATGATTGG-ATGATGTCGCGAGTCTGAGAGTGATCAAGATCGAGTC
8683352 AAGGTCGTAA
Statistics
Matches: 138, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
58 2 0.01
59 44 0.32
60 45 0.33
61 47 0.34
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (59 bp):
ATGAATGATTGGATGATGTCGCGAGTCTGAGAGTGATCAAGATCGAGTCGAAATCATAA
Found at i:8684249 original size:45 final size:44
Alignment explanation
Indices: 8684156--8684280 Score: 124
Period size: 45 Copynumber: 2.8 Consensus size: 44
8684146 GTCCTGTTAG
* * * **
8684156 GTTTTCAACTTGAACTTTTTTTTTGGTTCAAGCCACCCTTTCGG
1 GTTTTCAACTTGAACTTTTTTTTTAGTTCAAGCAACCATTTCAA
* * **
8684200 GTTTTCAACTTGAACTTTTTTCTTTAGTTCATGTAATTATTTCAA
1 GTTTTCAACTTGAACTTTTTT-TTTAGTTCAAGCAACCATTTCAA
* **
8684245 GTTTTCAACTCGAACTTTTTGTTGGAGTTCAAGCAA
1 GTTTTCAACTTGAACTTTTT-TTTTAGTTCAAGCAA
8684281 AGTACTTCTT
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
44 21 0.32
45 43 0.66
46 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (44 bp):
GTTTTCAACTTGAACTTTTTTTTTAGTTCAAGCAACCATTTCAA
Found at i:8694732 original size:16 final size:17
Alignment explanation
Indices: 8694711--8694749 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
8694701 AATTCATGAA
8694711 TTTATTTTG-AAAGATT
1 TTTATTTTGAAAAGATT
8694727 TTTA-TTTGAAAAGATT
1 TTTATTTTGAAAAGATT
8694743 TATTATT
1 T-TTATT
8694750 ATTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 12 0.60
17 3 0.15
18 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (17 bp):
TTTATTTTGAAAAGATT
Found at i:8695762 original size:13 final size:13
Alignment explanation
Indices: 8695744--8695790 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
8695734 ACAAAAAATA
*
8695744 ATAATAATATACC
1 ATAATAATATACT
* *
8695757 ATAATATTATATT
1 ATAATAATATACT
8695770 ATAAT-ATATACT
1 ATAATAATATACT
8695782 ATAATAATA
1 ATAATAATA
8695791 ACAAAATTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATAATATACT
Found at i:8696124 original size:16 final size:18
Alignment explanation
Indices: 8696103--8696141 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
8696093 ACTTTTGAGC
*
8696103 ATAATTTTA-CTT-ATAA
1 ATAATTTTATATTAATAA
8696119 ATAATTTTATATTAATAA
1 ATAATTTTATATTAATAA
8696137 ATAAT
1 ATAAT
8696142 ACTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 2 0.10
18 9 0.45
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTTTATATTAATAA
Found at i:8696245 original size:23 final size:22
Alignment explanation
Indices: 8696199--8696270 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
8696189 ATATATTAAC
*
8696199 AATATTAT-TAATTTAATTATTA
1 AATATTATATAATTT-ATTAATA
8696221 AATATTATAATAATTTATTAATA
1 AATATTAT-ATAATTTATTAATA
* * *
8696244 AAAAATATTATAATATATTAATA
1 AATATTA-TATAATTTATTAATA
8696267 AATA
1 AATA
8696271 ATACAAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.19
23 27 0.64
24 7 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATATTATATAATTTATTAATA
Found at i:8696369 original size:15 final size:15
Alignment explanation
Indices: 8696320--8696380 Score: 63
Period size: 14 Copynumber: 4.1 Consensus size: 15
8696310 TATATTAACA
*
8696320 AAATATT-TTATATT
1 AAATATTATTATTTT
*
8696334 AAATATTATTA-TTA
1 AAATATTATTATTTT
8696348 AAATATTATTATTTT
1 AAATATTATTATTTT
* *
8696363 TAATATTAATAATTTT
1 AAATATT-ATTATTTT
8696379 AA
1 AA
8696381 TAATAAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
14 19 0.50
15 11 0.29
16 8 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AAATATTATTATTTT
Found at i:8696381 original size:15 final size:15
Alignment explanation
Indices: 8696349--8696399 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
8696339 TTATTATTAA
* *
8696349 AATATTATTATTTTT
1 AATATTAATAATTTT
8696364 AATATTAATAATTTT
1 AATATTAATAATTTT
* *
8696379 AATAATAAATAATTTC
1 AAT-ATTAATAATTTT
8696395 AATAT
1 AATAT
8696400 ATTTTAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
AATATTAATAATTTT
Found at i:8696389 original size:16 final size:16
Alignment explanation
Indices: 8696360--8696398 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
8696350 ATATTATTAT
*
8696360 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
8696375 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
*
8696391 TTTCAATA
1 TTTTAATA
8696399 TATTTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:8696407 original size:26 final size:26
Alignment explanation
Indices: 8696370--8696432 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
8696360 TTTTAATATT
8696370 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
* * *
8696395 AATATATTTTAATAATCAATATTTTT
1 AATATATTTTAATAATAAATAATTTC
*
8696421 TA-ATATTTTAAT
1 AATATATTTTAAT
8696433 TGTTATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 14 0.42
26 19 0.58
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:8696415 original size:17 final size:17
Alignment explanation
Indices: 8696393--8696425 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8696383 ATAAATAATT
8696393 TCAATATATTTTAATAA
1 TCAATATATTTTAATAA
*
8696410 TCAATATTTTTTAATA
1 TCAATATATTTTAATA
8696426 TTTTAATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TCAATATATTTTAATAA
Found at i:8697042 original size:29 final size:29
Alignment explanation
Indices: 8696979--8697062 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 29
8696969 ATTGTACCTT
*
8696979 ATTAAGACCTTAAAGTAATATTTTTGTCGA
1 ATTAAG-CCTTAAAGTACTATTTTTGTCGA
* **
8697009 ATTAAATCCTTAAAGTACTATTTTT-TTTA
1 ATT-AAGCCTTAAAGTACTATTTTTGTCGA
*
8697038 ATTAAGCCTTTAAAATACTATTTTT
1 ATTAAGCC-TTAAAGTACTATTTTT
8697063 AATTAAACTC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
28 4 0.09
29 20 0.43
30 20 0.43
31 2 0.04
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (29 bp):
ATTAAGCCTTAAAGTACTATTTTTGTCGA
Found at i:8699515 original size:20 final size:18
Alignment explanation
Indices: 8699492--8699531 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
8699482 CCCAAATCTA
8699492 TTATTTTTTTCATTTCTTTT
1 TTATTTTTTTC-TTT-TTTT
8699512 TTATTTTTTTCTTTTTTT
1 TTATTTTTTTCTTTTTTT
8699530 TT
1 TT
8699532 CATCTGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (18 bp):
TTATTTTTTTCTTTTTTT
Found at i:8703562 original size:4 final size:4
Alignment explanation
Indices: 8703553--8703602 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
8703543 TTTATGTGTG
* * * *
8703553 TATT TATT TATT TATT TCTT TGTT TGTTT TATT TATT TATT TACT TATT
1 TATT TATT TATT TATT TATT TATT T-ATT TATT TATT TATT TATT TATT
8703602 T
1 T
8703603 TACTATTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
4 36 0.92
5 3 0.08
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:8703603 original size:21 final size:21
Alignment explanation
Indices: 8703559--8703604 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8703549 TGTGTATTTA
* ** *
8703559 TTTATTTATTTCTTTGTTTGT
1 TTTATTTATTTATTTACTTAT
8703580 TTTATTTATTTATTTACTTAT
1 TTTATTTATTTATTTACTTAT
8703601 TTTA
1 TTTA
8703605 CTATTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTATTTATTTATTTACTTAT
Found at i:8713156 original size:41 final size:41
Alignment explanation
Indices: 8713099--8713176 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
8713089 TGTTAGTGTT
8713099 TTTTAACAAGCGCATTTAAACATGGTTTAGGCTGAAAACCA
1 TTTTAACAAGCGCATTTAAACATGGTTTAGGCTGAAAACCA
*
8713140 TTTTAACAAGCGCATTTAATCATGGTTTAGGCTGAAA
1 TTTTAACAAGCGCATTTAAACATGGTTTAGGCTGAAA
8713177 TCCACTCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (41 bp):
TTTTAACAAGCGCATTTAAACATGGTTTAGGCTGAAAACCA
Found at i:8717270 original size:2 final size:2
Alignment explanation
Indices: 8717263--8717288 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8717253 TAGGAAAATG
8717263 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8717289 CAGTTACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8718414 original size:13 final size:14
Alignment explanation
Indices: 8718377--8718415 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8718367 AGGATAGCAA
*
8718377 AAGATAAAGATAGG
1 AAGATAAAGAGAGG
8718391 AAGATAAAGAGAGG
1 AAGATAAAGAGAGG
*
8718405 -AGATAGAGAGA
1 AAGATAAAGAGA
8718416 AAACAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.56, C:0.00, G:0.33, T:0.10
Consensus pattern (14 bp):
AAGATAAAGAGAGG
Found at i:8721285 original size:62 final size:60
Alignment explanation
Indices: 8721162--8721306 Score: 174
Period size: 62 Copynumber: 2.4 Consensus size: 60
8721152 TAAAAGAGAC
*
8721162 ATTATAATAA-TTT-TTCAATGATAATAAGAGAGTATTTCGTAATTATGATTAGAAGGAT
1 ATTATAATAATTTTATTCAATTATAATAAGAGAGTATTTCGTAATTATGATTAGAAGGAT
* * *
8721220 ATTATAATAATTTTATTCAATTATGATAGGAG-GTATATTTCAGTAATTATGATATA-AAGGGT
1 ATTATAATAATTTTATTCAATTATAATAAGAGAG--TATTTC-GTAATTATGAT-TAGAAGGAT
8721282 ATTATAATAATTTTAATT-AATTATA
1 ATTATAATAATTTT-ATTCAATTATA
8721307 GAAAGAAGGG
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
58 10 0.13
59 4 0.05
60 14 0.19
61 6 0.08
62 36 0.48
63 5 0.07
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (60 bp):
ATTATAATAATTTTATTCAATTATAATAAGAGAGTATTTCGTAATTATGATTAGAAGGAT
Found at i:8721529 original size:36 final size:34
Alignment explanation
Indices: 8721434--8721535 Score: 91
Period size: 36 Copynumber: 2.9 Consensus size: 34
8721424 AAATATTTTT
* * *
8721434 ATAATTATGACAAAAG-AATTATAGTAATTTTGA
1 ATAATTATAACAAGAGTGATTATAGTAATTTTGA
8721467 ATAATTATAACAAGAGTGATAATATAGTAATTTTGA
1 ATAATTATAACAAGAGTGAT--TATAGTAATTTTGA
* * *
8721503 TTATTTATAGCATAAGAG-GCATTATAGTAATTT
1 ATAATTATA--ACAAGAGTG-ATTATAGTAATTT
8721536 ACATGATGTA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
33 14 0.25
34 2 0.04
36 32 0.56
37 1 0.02
38 8 0.14
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.38
Consensus pattern (34 bp):
ATAATTATAACAAGAGTGATTATAGTAATTTTGA
Found at i:8721801 original size:2 final size:2
Alignment explanation
Indices: 8721794--8721825 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8721784 AATTGGTCTT
8721794 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8721826 ATTTAATCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8722009 original size:21 final size:22
Alignment explanation
Indices: 8721946--8722016 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 22
8721936 TTGAGTTTAA
*
8721946 AATAT-TAATTTATTAAATAA-
1 AATATATAATTTAATAAATAAT
* * *
8721966 AATAAATAATTTTATTAAT-AT
1 AATATATAATTTAATAAATAAT
8721987 AATATATAA-TTAATAAATAAT
1 AATATATAATTTAATAAATAAT
*
8722008 AAAATATAA
1 AATATATAA
8722017 ATTTTTATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
20 12 0.30
21 28 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATATAATTTAATAAATAAT
Found at i:8722426 original size:22 final size:21
Alignment explanation
Indices: 8722399--8722439 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
8722389 TTATCTTAAA
8722399 AAATAAA-ATTTATAAAAATATT
1 AAATAAATA-TTA-AAAAATATT
8722421 AAATAAATATTAAAAAATA
1 AAATAAATATTAAAAAATA
8722440 GAGGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 10 0.56
23 1 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATAAATATTAAAAAATATT
Found at i:8722436 original size:21 final size:22
Alignment explanation
Indices: 8722399--8722439 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
8722389 TTATCTTAAA
8722399 AAATAAAATTTATAAAAATATT
1 AAATAAAATTTATAAAAATATT
8722421 AAAT-AAATATTA-AAAAATA
1 AAATAAAAT-TTATAAAAATA
8722440 GAGGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATAAAATTTATAAAAATATT
Found at i:8730065 original size:4 final size:4
Alignment explanation
Indices: 8730058--8730082 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8730048 ATCAATCTAT
8730058 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
8730083 CTTAGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:8731799 original size:3 final size:3
Alignment explanation
Indices: 8731791--8731831 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8731781 TTTATAACAT
8731791 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8731832 CTTACTTAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8732438 original size:16 final size:16
Alignment explanation
Indices: 8732419--8732452 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8732409 AAATTTAATT
* *
8732419 TAAATATTTTATTTTA
1 TAAATATCTTATATTA
8732435 TAAATATCTTATATTA
1 TAAATATCTTATATTA
8732451 TA
1 TA
8732453 GCAAGTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TAAATATCTTATATTA
Found at i:8733199 original size:19 final size:17
Alignment explanation
Indices: 8733166--8733211 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
8733156 TTAGAGGCTA
*
8733166 TGGTTTTTTGTTTTTGTG
1 TGGTTTTTT-TTTTTTTG
*
8733184 TGTGTTTTTTTTTTTTTT
1 TG-GTTTTTTTTTTTTTG
8733202 TGGTTTTTTT
1 TGGTTTTTTT
8733212 AGTTGGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (17 bp):
TGGTTTTTTTTTTTTTG
Found at i:8734138 original size:114 final size:111
Alignment explanation
Indices: 8733958--8734165 Score: 290
Period size: 114 Copynumber: 1.8 Consensus size: 111
8733948 CTTCACAATT
* * * *
8733958 TTTGAAGATTTAAAATATTTTACCTAAAGGACTTACAAATCTTAATAATGAATGCTCCTTTAAGC
1 TTTGAAGATTTAAAATATTCTACATAAAGGACTTACAAATCTTAATAATGAATACTCCTCTAAGC
* *
8734023 AGATGCTTAACAACTTTAAAAAGTTCATCTAAGTAAAGGTTTTGTAAC
66 AGATGCTCAACAA-TTT-AAAAGCTCATCTAAGTAAAGGTTTTGTAAC
* * * *
8734071 TTTGAAAGATTTAAAATATTCTGCATAGAGGACTTACAAATCTTGATAATGAATACTTCTCTAAG
1 TTTG-AAGATTTAAAATATTCTACATAAAGGACTTACAAATCTTAATAATGAATACTCCTCTAAG
*
8734136 CAGATGCTCAATAATTTAAAAGCTCATCTA
65 CAGATGCTCAACAATTTAAAAGCTCATCTA
8734166 TATAGAGGCT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
112 12 0.14
113 7 0.08
114 64 0.77
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (111 bp):
TTTGAAGATTTAAAATATTCTACATAAAGGACTTACAAATCTTAATAATGAATACTCCTCTAAGC
AGATGCTCAACAATTTAAAAGCTCATCTAAGTAAAGGTTTTGTAAC
Found at i:8745136 original size:77 final size:77
Alignment explanation
Indices: 8745048--8745204 Score: 287
Period size: 77 Copynumber: 2.0 Consensus size: 77
8745038 ATAAGATAAT
8745048 TTGAAAGATTAAATAAAAACAAAAATAATAACAAATTAGACCATCAAATAAGCCTTAAGGCAACA
1 TTGAAAGATTAAATAAAAACAAAAATAATAACAAATTAGACCATCAAATAAGCCTTAAGGCAACA
8745113 CAAAGTTACTTA
66 CAAAGTTACTTA
* * *
8745125 TTGAAAGATTAAATAAAAACAAAAATAATAACAAATTAGTCCATGAAATAAGTCTTAAGGCAACA
1 TTGAAAGATTAAATAAAAACAAAAATAATAACAAATTAGACCATCAAATAAGCCTTAAGGCAACA
8745190 CAAAGTTACTTA
66 CAAAGTTACTTA
8745202 TTG
1 TTG
8745205 GCTCGACTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.24
Consensus pattern (77 bp):
TTGAAAGATTAAATAAAAACAAAAATAATAACAAATTAGACCATCAAATAAGCCTTAAGGCAACA
CAAAGTTACTTA
Found at i:8745748 original size:21 final size:21
Alignment explanation
Indices: 8745696--8745749 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
8745686 GTCGAATAAA
*
8745696 TAAAAATTTTATAATTTTATT
1 TAAAATTTTTATAATTTTATT
*
8745717 TAAAAACTTTTTAATTATTTTA-T
1 T-AAAA-TTTTT-ATAATTTTATT
8745740 TAAAATTTTT
1 TAAAATTTTT
8745750 TTATTCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 6 0.21
24 8 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAAATTTTTATAATTTTATT
Found at i:8746039 original size:3 final size:3
Alignment explanation
Indices: 8746031--8746059 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8746021 TTTATAACAT
8746031 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8746060 TCTTACTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8747824 original size:25 final size:25
Alignment explanation
Indices: 8747783--8747830 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8747773 CAAAAAAGAG
*
8747783 AAAAAAAAACTATAATTAAATTTTT
1 AAAAAAAAACTAAAATTAAATTTTT
*
8747808 AAAAAAGAAAC-AAAATTACATTT
1 AAAAAA-AAACTAAAATTAAATTT
8747831 AGGTTAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAAAAAACTAAAATTAAATTTTT
Found at i:8752415 original size:20 final size:21
Alignment explanation
Indices: 8752379--8752430 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
8752369 ACCTGAATTA
8752379 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
8752401 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
8752422 AT-AAATATT
1 ATAAAATATT
8752431 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:8752421 original size:21 final size:22
Alignment explanation
Indices: 8752379--8752430 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
8752369 ACCTGAATTA
8752379 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
8752401 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
8752422 AT-AAATATT
1 ATAAAATATT
8752431 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:8752438 original size:30 final size:30
Alignment explanation
Indices: 8752403--8752463 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8752393 TTTAAAATAT
* * * *
8752403 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATAATTA
*
8752433 AAAATATCATTATATAAATATATATAATTA
1 AAAATATCATTATATAAATATAAATAATTA
8752463 A
1 A
8752464 TTAATTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATAATTA
Found at i:8757206 original size:2 final size:2
Alignment explanation
Indices: 8757199--8757238 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
8757189 AAGAGGCAAC
* * *
8757199 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8757239 CTATTTAAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8759122 original size:14 final size:14
Alignment explanation
Indices: 8759103--8759131 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8759093 TTATTAAAAT
8759103 AAAATTTTATTTTA
1 AAAATTTTATTTTA
8759117 AAAATTTTATTTTA
1 AAAATTTTATTTTA
8759131 A
1 A
8759132 TACAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AAAATTTTATTTTA
Found at i:8759157 original size:30 final size:30
Alignment explanation
Indices: 8759114--8759243 Score: 106
Period size: 29 Copynumber: 4.2 Consensus size: 30
8759104 AAATTTTATT
* * *
8759114 TTAAAAATTTTATTTTAATACAATTTAAAAG
1 TTAAAAATCTTATTTAAATACAA-TTAAAAA
*
8759145 TTAAAAA-CTTATTTAAATATAATTAAAAA
1 TTAAAAATCTTATTTAAATACAATTAAAAA
* *
8759174 TT-AAAATTTTATTTAAATATAA-TAAAAA
1 TTAAAAATCTTATTTAAATACAATTAAAAA
*
8759202 TATAAAAAAAAT-TTATTTAAATAAAATTATAAAA
1 T-T---AAAAATCTTATTTAAATACAATTA-AAAA
8759236 TTCAAAAA
1 TT-AAAAA
8759244 CTTTTTTTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 16
0.79 0.07 0.15
Matches are distributed among these distances:
28 11 0.13
29 23 0.27
30 12 0.14
31 12 0.14
32 13 0.15
33 8 0.10
34 5 0.06
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (30 bp):
TTAAAAATCTTATTTAAATACAATTAAAAA
Found at i:8766566 original size:7 final size:7
Alignment explanation
Indices: 8766556--8766582 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8766546 TTTTTTATGT
8766556 ATTATTA
1 ATTATTA
8766563 ATTATTA
1 ATTATTA
8766570 ATTATTA
1 ATTATTA
8766577 ATTATT
1 ATTATT
8766583 TACTGTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTATTA
Found at i:8774469 original size:3 final size:3
Alignment explanation
Indices: 8774461--8774488 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8774451 TATGATTGTA
8774461 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8774489 TATGTACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8776179 original size:21 final size:20
Alignment explanation
Indices: 8776150--8776198 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
8776140 TTGCCATGGT
*
8776150 GGCTAGTGTAGGGTAAAGGCG
1 GGCTGGTGTAGGGTAAAGG-G
*
8776171 GGCTGGTGTAGGTTAAAGGG
1 GGCTGGTGTAGGGTAAAGGG
*
8776191 GGTTGGTG
1 GGCTGGTG
8776199 CCATGCATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.24
Consensus pattern (20 bp):
GGCTGGTGTAGGGTAAAGGG
Found at i:8777142 original size:16 final size:18
Alignment explanation
Indices: 8777121--8777162 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
8777111 AATCTTTTAA
*
8777121 TCATTTCAAAATT-TC-T
1 TCATTTCAAAATTCACTT
8777137 TCATTT-AAAATTCACTT
1 TCATTTCAAAATTCACTT
8777154 TCATTTCAA
1 TCATTTCAA
8777163 TATCAATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.27
16 7 0.32
17 7 0.32
18 2 0.09
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (18 bp):
TCATTTCAAAATTCACTT
Found at i:8778788 original size:1 final size:1
Alignment explanation
Indices: 8778782--8778807 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8778772 AGGTTTAAGG
8778782 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
8778808 AAAGATAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8778930 original size:38 final size:36
Alignment explanation
Indices: 8778888--8778958 Score: 88
Period size: 38 Copynumber: 1.9 Consensus size: 36
8778878 TTTATTTTCT
8778888 TTTTTTACCATTTCATCATTTCATTTCATTTTTTTTTA
1 TTTTTTACCATTTCATC-TTT-ATTTCATTTTTTTTTA
*** *
8778926 TTTTTTATTTTTTCATCTTTATTTCCTTTTTTT
1 TTTTTTACCATTTCATCTTTATTTCATTTTTTT
8778959 CTTTTCTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 12 0.41
37 3 0.10
38 14 0.48
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (36 bp):
TTTTTTACCATTTCATCTTTATTTCATTTTTTTTTA
Found at i:8781043 original size:3 final size:3
Alignment explanation
Indices: 8781032--8781180 Score: 184
Period size: 3 Copynumber: 51.7 Consensus size: 3
8781022 TTATTATGGT
* * * *
8781032 TTA TCA TTA TTA TTA TTA TCA CTA TTA TTA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
8781080 -TA TTA -TA TTA TTA -TA TTA -TA ATA TTA -TA TTA -TA ATA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
8781122 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8781170 TTA TTA TTA TT
1 TTA TTA TTA TT
8781181 TCTATTATCA
Statistics
Matches: 126, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
2 12 0.10
3 114 0.90
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:8781197 original size:15 final size:15
Alignment explanation
Indices: 8781115--8781197 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 15
8781105 ATATTATAAT
* *
8781115 ATTATTTTTATTATT
1 ATTATTTCTATTATC
* *
8781130 ACTATTAT-TATTATT
1 ATTATT-TCTATTATC
*
8781145 ATTATTAT-TATTATT
1 ATTATT-TCTATTATC
*
8781160 ATTATTAT-TATTATT
1 ATTATT-TCTATTATC
8781175 ATTATTTCTATTATC
1 ATTATTTCTATTATC
*
8781190 ATTTTTTC
1 ATTATTTC
8781198 CTTTCTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
14 1 0.02
15 60 0.97
16 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTATTTCTATTATC
Found at i:8782067 original size:17 final size:17
Alignment explanation
Indices: 8782047--8782083 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8782037 TTTCATTTTA
8782047 TTTTAACTTTTTTCATT
1 TTTTAACTTTTTTCATT
* *
8782064 TTTTAAGTTTTTTTATT
1 TTTTAACTTTTTTCATT
8782081 TTT
1 TTT
8782084 ATTTTACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTAACTTTTTTCATT
Found at i:8794183 original size:18 final size:18
Alignment explanation
Indices: 8794147--8794189 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
8794137 TTATTATCAC
8794147 TATTATTATTGTTCTTAT
1 TATTATTATTGTTCTTAT
* *
8794165 TCTTATTATTTTTGC-TAT
1 TATTATTATTGTT-CTTAT
8794183 TATTATT
1 TATTATT
8794190 TTATTATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (18 bp):
TATTATTATTGTTCTTAT
Found at i:8794203 original size:3 final size:3
Alignment explanation
Indices: 8794197--8794232 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
8794187 ATTTTATTAT
*
8794197 ATA ATA ATA ATA ATA ATG ATAA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT
8794233 TCTTATTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 28 0.93
4 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8794223 original size:13 final size:13
Alignment explanation
Indices: 8794197--8794231 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
8794187 ATTTTATTAT
8794197 ATAATAAT-AATA
1 ATAATAATAAATA
*
8794209 ATAATGATAAATA
1 ATAATAATAAATA
8794222 ATAATAATAA
1 ATAATAATAA
8794232 TTCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
ATAATAATAAATA
Found at i:8794240 original size:6 final size:6
Alignment explanation
Indices: 8794235--8794296 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
8794225 ATAATAATTC
* * * * * *
8794235 TTATTC TTATTC TTATTA TTATTG TTATTA TTATTT TTGTTA TTATTT
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
*
8794283 TTATTT TTATTA TT
1 TTATTA TTATTA TT
8794297 TCCATCATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (6 bp):
TTATTA
Found at i:8794248 original size:12 final size:12
Alignment explanation
Indices: 8794231--8794293 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
8794221 AATAATAATA
*
8794231 ATTCTTATTCTT
1 ATTCTTATTATT
8794243 ATTCTTATTATT
1 ATTCTTATTATT
*
8794255 ATTGTTATTATT
1 ATTCTTATTATT
* *
8794267 ATTTTTGTTATT
1 ATTCTTATTATT
* *
8794279 ATTTTTATTTTT
1 ATTCTTATTATT
8794291 ATT
1 ATT
8794294 ATTTCCATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (12 bp):
ATTCTTATTATT
Found at i:8794265 original size:15 final size:15
Alignment explanation
Indices: 8794247--8794296 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
8794237 ATTCTTATTC
8794247 TTATTATTATTGTTA
1 TTATTATTATTGTTA
*
8794262 TTATTATTTTTGTTA
1 TTATTATTATTGTTA
* *
8794277 TTATTTTTATTTTTA
1 TTATTATTATTGTTA
8794292 TTATT
1 TTATT
8794297 TCCATCATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (15 bp):
TTATTATTATTGTTA
Found at i:8794432 original size:21 final size:21
Alignment explanation
Indices: 8794402--8794448 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
8794392 GCAAGTTTTC
*
8794402 TTTT-TTTTTTTGCATTTTAT
1 TTTTATTTTTTTGCATATTAT
*
8794422 TTTTATTTTTTTTCATATTAT
1 TTTTATTTTTTTGCATATTAT
8794443 TTTTAT
1 TTTTAT
8794449 CGTTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTATTTTTTTGCATATTAT
Found at i:8794434 original size:15 final size:15
Alignment explanation
Indices: 8794421--8794498 Score: 52
Period size: 15 Copynumber: 5.1 Consensus size: 15
8794411 TTGCATTTTA
8794421 TTTTTATTTTT-TTT
1 TTTTTATTTTTATTT
* * **
8794435 CATATTATTTTTATCG
1 -TTTTTATTTTTATTT
*
8794451 TTTTTATTTTTACCGTT
1 TTTTTATTTTTA--TTT
*
8794468 TTTTTATTTTTA-GT
1 TTTTTATTTTTATTT
8794482 TTTTTATGTTTTATTT
1 TTTTTAT-TTTTATTT
8794498 T
1 T
8794499 ACTTGACTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
14 8 0.17
15 24 0.51
16 3 0.06
17 12 0.26
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:8794454 original size:22 final size:22
Alignment explanation
Indices: 8794407--8794455 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
8794397 TTTTCTTTTT
*
8794407 TTTTTTGCATTTTATTTTTAT-
1 TTTTTTGCATATTATTTTTATG
*
8794428 TTTTTTTCATATTATTTTTATCG
1 TTTTTTGCATATTATTTTTAT-G
8794451 TTTTT
1 TTTTT
8794456 ATTTTTACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.79
23 5 0.21
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTTGCATATTATTTTTATG
Found at i:8794479 original size:17 final size:15
Alignment explanation
Indices: 8794439--8794470 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8794429 TTTTTTCATA
*
8794439 TTATTTTTATCGTTT
1 TTATTTTTACCGTTT
8794454 TTATTTTTACCGTTT
1 TTATTTTTACCGTTT
8794469 TT
1 TT
8794471 TTATTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.72
Consensus pattern (15 bp):
TTATTTTTACCGTTT
Found at i:8794486 original size:17 final size:17
Alignment explanation
Indices: 8794439--8794479 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8794429 TTTTTTCATA
*
8794439 TTATTTTTATCG--TTT
1 TTATTTTTACCGTTTTT
8794454 TTATTTTTACCGTTTTT
1 TTATTTTTACCGTTTTT
8794471 TTATTTTTA
1 TTATTTTTA
8794480 GTTTTTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
17 12 0.52
ACGTcount: A:0.15, C:0.07, G:0.05, T:0.73
Consensus pattern (17 bp):
TTATTTTTACCGTTTTT
Found at i:8800761 original size:28 final size:31
Alignment explanation
Indices: 8800695--8800766 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 31
8800685 TTAATTTAAA
8800695 AAAAAATTATAAAAGATTCAAACAAAGTTTT
1 AAAAAATTATAAAAGATTCAAACAAAGTTTT
* *
8800726 AAAAAATTA-AAAA-ATTCTAA-AAATTTTT
1 AAAAAATTATAAAAGATTCAAACAAAGTTTT
* *
8800754 AAAGAATTCTAAA
1 AAAAAATTATAAA
8800767 CATTTTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.39
29 9 0.25
30 4 0.11
31 9 0.25
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (31 bp):
AAAAAATTATAAAAGATTCAAACAAAGTTTT
Found at i:8800801 original size:69 final size:67
Alignment explanation
Indices: 8800704--8800848 Score: 188
Period size: 69 Copynumber: 2.1 Consensus size: 67
8800694 AAAAAAATTA
* * *
8800704 TAAAAGATTCAAACAAAGTTTTAAAAAATT-AAAAAATTCTAAAAATTTTTAAAGAATTC-TAAA
1 TAAAA-ATTCAAACAAAGTTTTAAAAAATTCAAAAAATTC-AAAAA-GTATAAAAAATTCATAAA
8800767 CATTTTT
63 CA--TTT
8800774 TAAAAATTCTAAA-AAAGTTTTAAAAAATTCAAAAAATTCAAAAAGTATAAAAAATTCATAAACA
1 TAAAAATTC-AAACAAAGTTTTAAAAAATTCAAAAAATTCAAAAAGTATAAAAAATTCATAAACA
8800838 TTT
65 TTT
8800841 TAAAAATT
1 TAAAAATT
8800849 TTTAAATATT
Statistics
Matches: 69, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
67 11 0.16
68 10 0.14
69 31 0.45
70 17 0.25
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (67 bp):
TAAAAATTCAAACAAAGTTTTAAAAAATTCAAAAAATTCAAAAAGTATAAAAAATTCATAAACAT
TT
Found at i:8800834 original size:11 final size:10
Alignment explanation
Indices: 8800695--8800888 Score: 91
Period size: 10 Copynumber: 19.7 Consensus size: 10
8800685 TTAATTTAAA
*
8800695 AAAAAATTAT
1 AAAAAATTCT
*
8800705 AAAAGATTC-
1 AAAAAATTCT
*
8800714 AAACAAAGTTTT
1 AAA-AAA-TTCT
8800726 AAAAAA-T-T
1 AAAAAATTCT
8800734 AAAAAATTCT
1 AAAAAATTCT
* *
8800744 AAAAATTTTT
1 AAAAAATTCT
*
8800754 AAAGAATTCT
1 AAAAAATTCT
* * *
8800764 AAACATTTTT
1 AAAAAATTCT
*
8800774 TAAAAATTCT
1 AAAAAATTCT
*
8800784 AAAAAAGTTTT
1 AAAAAA-TTCT
8800795 AAAAAATTC-
1 AAAAAATTCT
8800804 AAAAAATTC-
1 AAAAAATTCT
* *
8800813 -AAAAAGTAT
1 AAAAAATTCT
8800822 AAAAAATTC-
1 AAAAAATTCT
*
8800831 ATAAACATT-T
1 A-AAAAATTCT
* *
8800841 TAAAAATTTT
1 AAAAAATTCT
* *
8800851 TAAATATTCT
1 AAAAAATTCT
*
8800861 AAAAAA-ACTT
1 AAAAAATTC-T
*
8800871 AAAAAATCTTT
1 AAAAAAT-TCT
8800882 AAAAAAT
1 AAAAAAT
8800889 CTCAAAATCT
Statistics
Matches: 137, Mismatches: 33, Indels: 27
0.70 0.17 0.14
Matches are distributed among these distances:
8 13 0.09
9 22 0.16
10 77 0.56
11 22 0.16
12 3 0.02
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:8800865 original size:20 final size:20
Alignment explanation
Indices: 8800735--8800866 Score: 112
Period size: 20 Copynumber: 6.8 Consensus size: 20
8800725 TAAAAAATTA
8800735 AAAAATTCT-AAAAATTTTT
1 AAAAATTCTAAAAAATTTTT
* *
8800754 AAAGAATTCTAAACATTTTTT
1 AAA-AATTCTAAAAAATTTTT
*
8800775 AAAAATTCTAAAAAAGTTTTA
1 AAAAATTCTAAAAAA-TTTTT
*
8800796 AAAAATTC-AAAAAA--TTC
1 AAAAATTCTAAAAAATTTTT
* * **
8800813 AAAAAGTATAAAAAATTCAT
1 AAAAATTCTAAAAAATTTTT
* *
8800833 AAACATT-TTAAAAATTTTT
1 AAAAATTCTAAAAAATTTTT
*
8800852 AAATATTCTAAAAAA
1 AAAAATTCTAAAAAA
8800867 ACTTAAAAAA
Statistics
Matches: 88, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
17 8 0.09
18 6 0.07
19 18 0.20
20 33 0.38
21 23 0.26
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATTCTAAAAAATTTTT
Found at i:8801041 original size:20 final size:20
Alignment explanation
Indices: 8801009--8801047 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8800999 ATATTTACAA
*
8801009 TGAAAATT-TTAAATTTTTT
1 TGAAAATTCTAAAATTTTTT
8801028 TGAAACATTCTAAAATTTTT
1 TGAAA-ATTCTAAAATTTTT
8801048 AAAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (20 bp):
TGAAAATTCTAAAATTTTTT
Found at i:8801196 original size:20 final size:19
Alignment explanation
Indices: 8801160--8801268 Score: 75
Period size: 19 Copynumber: 5.7 Consensus size: 19
8801150 TAAGTTTTTG
*
8801160 ATTTTTT-A-TTTTCAAAA
1 ATTTTTTAATTTTTTAAAA
*
8801177 TTTTTTTAATTTTTTAAAA
1 ATTTTTTAATTTTTTAAAA
* *
8801196 ATGTTTTAGATATTTT-AAA
1 ATTTTTTA-ATTTTTTAAAA
*
8801215 ATTATTTAATTTTTTTGAAAA
1 ATTTTTTAA-TTTTTT-AAAA
* *
8801236 ATTTTTGAAATTTTTT--GA
1 ATTTTT-TAATTTTTTAAAA
8801254 ATTTTTTAAGTTTTT
1 ATTTTTTAA-TTTTT
8801269 GCGATTTTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
17 8 0.11
18 14 0.19
19 28 0.39
20 6 0.08
21 14 0.19
22 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (19 bp):
ATTTTTTAATTTTTTAAAA
Found at i:8801238 original size:21 final size:21
Alignment explanation
Indices: 8801173--8801254 Score: 66
Period size: 21 Copynumber: 4.0 Consensus size: 21
8801163 TTTTATTTTC
**
8801173 AAAATTTTTTTAATTTTTT-A
1 AAAATTTTTGAAATTTTTTGA
* *
8801193 AAAATGTTTT-AGATATTTT--
1 AAAAT-TTTTGAAATTTTTTGA
*
8801212 AAAATTATTT-AATTTTTTTGA
1 AAAATT-TTTGAAATTTTTTGA
8801233 AAAATTTTTGAAATTTTTTGA
1 AAAATTTTTGAAATTTTTTGA
8801254 A
1 A
8801255 TTTTTTAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
18 1 0.02
19 14 0.28
20 14 0.28
21 21 0.42
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
AAAATTTTTGAAATTTTTTGA
Found at i:8801249 original size:38 final size:40
Alignment explanation
Indices: 8801167--8801249 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 40
8801157 TTGATTTTTT
* *
8801167 ATTTTCAAAATTTTTTTAATTTTTTAAAAATGTTTTAGAT
1 ATTTTCAAAATTTATTTAATTTTTTAAAAATGTTTTAGAA
8801207 ATTTT-AAAA-TTATTTAATTTTTTTGAAAAAT-TTTT-GAA
1 ATTTTCAAAATTTATTTAA-TTTTTT-AAAAATGTTTTAGAA
8801245 ATTTT
1 ATTTT
8801250 TTGAATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
38 14 0.36
39 14 0.36
40 11 0.28
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (40 bp):
ATTTTCAAAATTTATTTAATTTTTTAAAAATGTTTTAGAA
Found at i:8804352 original size:6 final size:6
Alignment explanation
Indices: 8804341--8804371 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8804331 ATTTTTCCGC
*
8804341 CATGTG CATGTG CATGTG CATTTG CATGTG C
1 CATGTG CATGTG CATGTG CATGTG CATGTG C
8804372 TTGAGGTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.35
Consensus pattern (6 bp):
CATGTG
Found at i:8811302 original size:27 final size:27
Alignment explanation
Indices: 8811263--8811319 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
8811253 TACAATCCAC
*
8811263 TAAGACCATTACATGCATTACAACAGA
1 TAAGACCACTACATGCATTACAACAGA
* *
8811290 TAAGGCCACTACATGCATTATAACAGA
1 TAAGACCACTACATGCATTACAACAGA
8811317 TAA
1 TAA
8811320 ACAACTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (27 bp):
TAAGACCACTACATGCATTACAACAGA
Found at i:8814439 original size:62 final size:59
Alignment explanation
Indices: 8814253--8814518 Score: 160
Period size: 62 Copynumber: 4.3 Consensus size: 59
8814243 TAAAAATACC
* ** * * * * **
8814253 TTTATAGGGAATTATTGAATGTGTTTTCTGGCCAAAAACACCTTTAATAGTCTCGAATACTTT
1 TTTATAGGG-ATTATTGAAGGAATTTTCT-GCCAAAAACACCTTCAATAATC-C-CATCCAAT
* * ** * * **
8814316 TTTATAAGGGATTATTGAAGGCA-TTTCAGGTAAAAAATACCTTTAATAATCTCC-TTAAAT
1 TTTAT-AGGGATTATTGAAGGAATTTTC-TGCCAAAAACACCTTCAATAATC-CCATCCAAT
* *
8814376 TTTGATGAGGAGATTATTGAAGGCATTTT-TGACCAAAAACACTTTCAATAATCCCATCCAATTT
1 TTT-AT-AGG-GATTATTGAAGGAATTTTCTG-CCAAAAACACCTTCAATAATCCCATCCAA--T
* * * * *
8814440 TTTACATGGGATTATTGAAGGAATTTTCTGCTAAAAACGCCTTCAATAATCCCTTCCATT
1 TTTATA-GGGATTATTGAAGGAATTTTCTGCCAAAAACACCTTCAATAATCCCATCCAAT
8814500 TTTATAGGGGATTATTGAA
1 TTTATA-GGGATTATTGAA
8814519 CGTGTTTCAG
Statistics
Matches: 161, Mismatches: 31, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
60 23 0.14
61 8 0.05
62 99 0.61
63 23 0.14
64 8 0.05
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (59 bp):
TTTATAGGGATTATTGAAGGAATTTTCTGCCAAAAACACCTTCAATAATCCCATCCAAT
Found at i:8814580 original size:64 final size:61
Alignment explanation
Indices: 8814472--8814600 Score: 152
Period size: 64 Copynumber: 2.1 Consensus size: 61
8814462 ATTTTCTGCT
* * ** * *
8814472 AAAAACGCCTTCAATAATCCCTTCCATTTTTATAGGGGATTATTGAACGTGTTTCAGGCAA
1 AAAAACACCTTCAATAATCCCTTCAATTTTTATAGAAGATTATTGAACGCGTTTCAAGCAA
*
8814533 AAAAACACCTTCAATAAATCCCCTTCAAATTTTTAT-GAAAGATTATTGAAGGCGTTTCAAGCAA
1 AAAAACACCTTCAAT-AAT-CCCTTC-AATTTTTATAG-AAGATTATTGAACGCGTTTCAAGCAA
8814597 AAAA
1 AAAA
8814601 GGCATTGAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
61 14 0.25
62 3 0.05
63 7 0.12
64 33 0.58
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (61 bp):
AAAAACACCTTCAATAATCCCTTCAATTTTTATAGAAGATTATTGAACGCGTTTCAAGCAA
Found at i:8831533 original size:21 final size:21
Alignment explanation
Indices: 8831494--8831534 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8831484 ACCATTAAAT
*
8831494 TAGATTATCAAATTTATTTAA
1 TAGATTATCAAATTAATTTAA
* *
8831515 TAGATTATTAAGTTAATTTA
1 TAGATTATCAAATTAATTTA
8831535 TTAAACCATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (21 bp):
TAGATTATCAAATTAATTTAA
Found at i:8834162 original size:28 final size:29
Alignment explanation
Indices: 8834096--8834162 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 29
8834086 GATGAGAAAA
* * *
8834096 AAAAATAGAAGAATAAGGGTGATGTAAGAG
1 AAAAATA-AAAAAGAAGGGTGATGGAAGAG
* *
8834126 AGAAA-AAAAAAGAAGGGTGA-GGACGAG
1 AAAAATAAAAAAGAAGGGTGATGGAAGAG
8834153 AAAAATAAAA
1 AAAAATAAAA
8834163 GAAAAAAGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
27 9 0.30
28 16 0.53
29 1 0.03
30 4 0.13
ACGTcount: A:0.60, C:0.01, G:0.28, T:0.10
Consensus pattern (29 bp):
AAAAATAAAAAAGAAGGGTGATGGAAGAG
Found at i:8843714 original size:30 final size:31
Alignment explanation
Indices: 8843682--8843791 Score: 95
Period size: 31 Copynumber: 3.6 Consensus size: 31
8843672 AATTTATATT
*
8843682 AAAGATTTATTTAG-GTATAAATTAAATGTTA
1 AAAG-TTTATTTAGAATATAAATTAAATGTTA
* *
8843713 AAAGCTTATTT-GAATATAAATTAATTGTTAA
1 AAAGTTTATTTAGAATATAAATTAAATGTT-A
** *
8843744 AAAGTTTATTTAG-ATGCAAATTAAA-GTTC
1 AAAGTTTATTTAGAATATAAATTAAATGTTA
* *
8843773 AAAGCTTATTT-GGATATAA
1 AAAGTTTATTTAGAATATAA
8843792 TAAAAGTATA
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
28 1 0.02
29 15 0.23
30 23 0.36
31 24 0.38
32 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.40
Consensus pattern (31 bp):
AAAGTTTATTTAGAATATAAATTAAATGTTA
Found at i:8843753 original size:31 final size:30
Alignment explanation
Indices: 8843697--8843791 Score: 104
Period size: 31 Copynumber: 3.2 Consensus size: 30
8843687 TTTATTTAGG
8843697 TATAAATTAAATGTTAAAAGCTTATTTGAA
1 TATAAATTAAATGTTAAAAGCTTATTTGAA
* *
8843727 TATAAATTAATTGTTAAAAAGTTTATTT-AGA
1 TATAAATTAAATGTT-AAAAGCTTATTTGA-A
** * *
8843758 TGCAAATTAAA-GTTCAAAGCTTATTTGGA
1 TATAAATTAAATGTTAAAAGCTTATTTGAA
8843787 TATAA
1 TATAA
8843792 TAAAAGTATA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
29 14 0.27
30 18 0.35
31 20 0.38
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (30 bp):
TATAAATTAAATGTTAAAAGCTTATTTGAA
Found at i:8847618 original size:15 final size:15
Alignment explanation
Indices: 8847600--8847645 Score: 83
Period size: 15 Copynumber: 3.0 Consensus size: 15
8847590 AAAAATTCGA
8847600 CTTTATTTTCTTTTT
1 CTTTATTTTCTTTTT
8847615 CTTTATTTTCTTTTT
1 CTTTATTTTCTTTTT
8847630 CTTTATTTTTCTTTTT
1 CTTTA-TTTTCTTTTT
8847646 TTATTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 20 0.67
16 10 0.33
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (15 bp):
CTTTATTTTCTTTTT
Found at i:8849869 original size:8 final size:7
Alignment explanation
Indices: 8849828--8849907 Score: 53
Period size: 7 Copynumber: 11.4 Consensus size: 7
8849818 ATATATATAT
8849828 TAATAAA
1 TAATAAA
*
8849835 TAGT-AA
1 TAATAAA
8849841 TAATAAA
1 TAATAAA
8849848 TAAGTAAA
1 TAA-TAAA
8849856 TAATAAA
1 TAATAAA
8849863 TACATAAA
1 TA-ATAAA
*
8849871 AAATTAAA
1 TAA-TAAA
*
8849879 -AATATA
1 TAATAAA
8849885 T-ATATAA
1 TAATA-AA
8849892 T-ATAAAA
1 TAAT-AAA
8849899 TAA-AAA
1 TAATAAA
8849905 TAA
1 TAA
8849908 AATATAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
6 17 0.28
7 24 0.40
8 19 0.32
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:8849870 original size:15 final size:15
Alignment explanation
Indices: 8849828--8849864 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
8849818 ATATATATAT
8849828 TAATAAAT-AGT-AA
1 TAATAAATAAGTAAA
8849841 TAATAAATAAGTAAA
1 TAATAAATAAGTAAA
8849856 TAATAAATA
1 TAATAAATA
8849865 CATAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 8 0.36
14 3 0.14
15 11 0.50
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
TAATAAATAAGTAAA
Found at i:8849874 original size:18 final size:19
Alignment explanation
Indices: 8849853--8849930 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 19
8849843 ATAAATAAGT
*
8849853 AAATAAT-AAATACATAAA
1 AAATAATAAAATACAAAAA
* * * *
8849871 AAATTA-AAAATATATATA
1 AAATAATAAAATACAAAAA
*
8849889 TAAT-ATAAAATA-AAAATA
1 AAATAATAAAATACAAAA-A
8849907 AAAT-ATAAAATACAAAAA
1 AAATAATAAAATACAAAAA
8849925 AAATAA
1 AAATAA
8849931 AATGAACCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
17 3 0.06
18 40 0.83
19 5 0.10
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAATAAAATACAAAAA
Found at i:8851138 original size:24 final size:26
Alignment explanation
Indices: 8851087--8851138 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
8851077 CTGTAATCTT
** *
8851087 GCTCTATCTGTTTTGACTTCCATCTA
1 GCTCTATCTGTTTTGACAACCATATA
8851113 GCTCT-TCTGTTTTGA-AACCATATA
1 GCTCTATCTGTTTTGACAACCATATA
8851137 GC
1 GC
8851139 AACTTGGCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.35
25 10 0.43
26 5 0.22
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.42
Consensus pattern (26 bp):
GCTCTATCTGTTTTGACAACCATATA
Found at i:8852953 original size:2 final size:2
Alignment explanation
Indices: 8852946--8852988 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
8852936 TTTCGTTTTG
* *
8852946 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TT TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8852987 TA
1 TA
8852989 AACTTGAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:8853921 original size:2 final size:2
Alignment explanation
Indices: 8853914--8853941 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8853904 AACTTCTTCA
8853914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8853942 GGTAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8856275 original size:22 final size:23
Alignment explanation
Indices: 8856233--8856277 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
8856223 ATGGGGGACA
*
8856233 TTTTTCTCTTCAACCATCTCAAG
1 TTTTTCTCTTCAACCAACTCAAG
8856256 TTTTT-TCTTC-ACCTAACTCAAG
1 TTTTTCTCTTCAACC-AACTCAAG
8856278 GCCAAAGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 3 0.15
22 12 0.60
23 5 0.25
ACGTcount: A:0.22, C:0.29, G:0.04, T:0.44
Consensus pattern (23 bp):
TTTTTCTCTTCAACCAACTCAAG
Found at i:8860368 original size:17 final size:17
Alignment explanation
Indices: 8860346--8860389 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
8860336 ACTCAAATGG
*
8860346 AGAAAAATTTAGAAATA
1 AGAAAAATTTAAAAATA
* *
8860363 AGAAAAAATAAAAAATA
1 AGAAAAATTTAAAAATA
*
8860380 AAAAAAATTT
1 AGAAAAATTT
8860390 CTAGATAGGC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (17 bp):
AGAAAAATTTAAAAATA
Found at i:8862944 original size:21 final size:21
Alignment explanation
Indices: 8862920--8862977 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 21
8862910 TACCTATTTT
8862920 TAATATGTTTGTATATTATAC
1 TAATATGTTTGTATATTATAC
*
8862941 T-A-A--TTTGTATATTATAT
1 TAATATGTTTGTATATTATAC
* *
8862958 TAATATGGTTGTGTATTATA
1 TAATATGTTTGTATATTATA
8862978 ATTCATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 2 0.07
20 1 0.03
21 12 0.40
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (21 bp):
TAATATGTTTGTATATTATAC
Found at i:8864199 original size:15 final size:16
Alignment explanation
Indices: 8864179--8864209 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8864169 ATCATAACTT
8864179 GTAAAAA-CTAAGAAA
1 GTAAAAACCTAAGAAA
8864194 GTAAAAACCTAAGAAA
1 GTAAAAACCTAAGAAA
8864210 TTAACATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.65, C:0.10, G:0.13, T:0.13
Consensus pattern (16 bp):
GTAAAAACCTAAGAAA
Found at i:8874005 original size:119 final size:119
Alignment explanation
Indices: 8873861--8874077 Score: 380
Period size: 119 Copynumber: 1.8 Consensus size: 119
8873851 ATAGATATCG
* * *
8873861 TATCAACATTTTTTATTGTTGTATAAAATATTTAAAAAGTCAATTAGGTAACGATAATAAAAAAT
1 TATCAACATTTTTTATCGTTATATAAAATATTTAAAAAGTCAATTAGGTAACAATAATAAAAAAT
8873926 TATTAAAAATATAATAGAATTTCATAATGATTTTTTTATTGTTTTTAATTTTAT
66 TATTAAAAATATAATAGAATTTCATAATGATTTTTTTATTGTTTTTAATTTTAT
*
8873980 TATCAACTTTTTTTATCGTTATATAAAATATTTAAAAAGTCAATTAGGTAACAATAATAAAAAAT
1 TATCAACATTTTTTATCGTTATATAAAATATTTAAAAAGTCAATTAGGTAACAATAATAAAAAAT
**
8874045 TATTGCAAATATAATAGAATTTCATAATGATTT
66 TATTAAAAATATAATAGAATTTCATAATGATTT
8874078 CTGTTTTAAT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 92 1.00
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (119 bp):
TATCAACATTTTTTATCGTTATATAAAATATTTAAAAAGTCAATTAGGTAACAATAATAAAAAAT
TATTAAAAATATAATAGAATTTCATAATGATTTTTTTATTGTTTTTAATTTTAT
Found at i:8880438 original size:23 final size:23
Alignment explanation
Indices: 8880412--8880456 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8880402 AAATTGTTTG
* *
8880412 TTTTGAATAGACTTATCTATCTA
1 TTTTGAACAGACTTAACTATCTA
*
8880435 TTTTGTACAGACTTAACTATCT
1 TTTTGAACAGACTTAACTATCT
8880457 GTTCTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (23 bp):
TTTTGAACAGACTTAACTATCTA
Found at i:8886937 original size:2 final size:2
Alignment explanation
Indices: 8886930--8886957 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8886920 GATCCCAAGC
8886930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8886958 GTCTTACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8888344 original size:25 final size:25
Alignment explanation
Indices: 8888251--8888344 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
8888241 ATTGATTCAA
*
8888251 CATGATTAACATTATTATGTGATAG
1 CATGATTAACATCATTATGTGATAG
** * * *
8888276 CATGATTTTCTTACATTATGTGTTTACCAA
1 CATGATTAACAT-CATTATGTG---A-TAG
*
8888306 CATAATTAACATCATTATGTGATAG
1 CATGATTAACATCATTATGTGATAG
8888331 CATGATTAACATCA
1 CATGATTAACATCA
8888345 AGAAACACAA
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
25 23 0.45
26 9 0.18
29 10 0.20
30 9 0.18
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (25 bp):
CATGATTAACATCATTATGTGATAG
Found at i:8889729 original size:23 final size:22
Alignment explanation
Indices: 8889692--8889746 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 22
8889682 TCATCAACTC
*
8889692 AAAAAAAA-AA-A-AAACCCCA
1 AAAAAAAAGAACATAAACACCA
**
8889711 AAAAATAAAGAACATAAACATGA
1 AAAAA-AAAGAACATAAACACCA
8889734 AAAAAAAAGAACA
1 AAAAAAAAGAACA
8889747 ATAAGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.17
20 3 0.10
21 2 0.07
22 9 0.31
23 10 0.34
ACGTcount: A:0.76, C:0.13, G:0.05, T:0.05
Consensus pattern (22 bp):
AAAAAAAAGAACATAAACACCA
Done.