Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 56 of 105
Found at i:10616582 original size:16 final size:15
Alignment explanation
Indices: 10616559--10616619 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 15
10616549 TCATTAAAAC
10616559 AAATAAAA-AAAATTG
1 AAATAAAATAAAA-TG
10616574 AAGATAAAATAAAATG
1 AA-ATAAAATAAAATG
*
10616590 AAATAAATTGAAAATG
1 AAATAAAAT-AAAATG
10616606 TAAA-ATAAATAAAA
1 -AAATA-AAATAAAA
10616620 ATGAGAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 8 0.21
16 21 0.54
17 10 0.26
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.21
Consensus pattern (15 bp):
AAATAAAATAAAATG
Found at i:10616632 original size:23 final size:22
Alignment explanation
Indices: 10616579--10616632 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
10616569 AATTGAAGAT
*
10616579 AAAATAAAATGAAATAAATTGA
1 AAAATAAAATGAAATAAAATGA
*
10616601 AAATGTAAAAT-AAATAAAAATGA
1 AAA-ATAAAATGAAAT-AAAATGA
10616624 GAAAATAAA
1 -AAAATAAA
10616633 GAGAAAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 7 0.27
23 16 0.62
24 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAATAAAATGAAATAAAATGA
Found at i:10616641 original size:19 final size:17
Alignment explanation
Indices: 10616559--10616646 Score: 60
Period size: 18 Copynumber: 5.2 Consensus size: 17
10616549 TCATTAAAAC
*
10616559 AAATAAA-AAAAATTGA
1 AAATAAAGAAAAATGGA
*
10616575 AGATAAA-ATAAAAT-G-
1 AAATAAAGA-AAAATGGA
*
10616590 AAATAAATTG-AAAATGTA
1 AAATAAA--GAAAAATGGA
*
10616608 AAATAAATAAAAATGAGA
1 AAATAAAGAAAAATG-GA
10616626 AAATAAAGAGAAAATGGA
1 AAATAAAGA-AAAATGGA
10616644 AAA
1 AAA
10616647 AGAAAACCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
15 6 0.11
16 13 0.23
17 11 0.19
18 21 0.37
19 6 0.11
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.18
Consensus pattern (17 bp):
AAATAAAGAAAAATGGA
Found at i:10616943 original size:51 final size:51
Alignment explanation
Indices: 10616855--10616954 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
10616845 GAACAATGCA
* * *
10616855 GGAAAATTCAACTGAAAACTAGAAAATCCATTAGTTTCTAGG-AAACTCATT
1 GGAAAATTCAACTAAAAACTAGAAAACCCATCAGTTTCT-GGAAAACTCATT
* *
10616906 GGAAAATTCAACTAAAAA-TTGAAAAACCCATCGGTTTCTGGAAAACTCA
1 GGAAAATTCAACTAAAAACTAG-AAAACCCATCAGTTTCTGGAAAACTCA
10616955 CCAGAATCCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 4 0.10
51 38 0.90
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (51 bp):
GGAAAATTCAACTAAAAACTAGAAAACCCATCAGTTTCTGGAAAACTCATT
Found at i:10617534 original size:3 final size:3
Alignment explanation
Indices: 10617511--10617575 Score: 61
Period size: 3 Copynumber: 23.3 Consensus size: 3
10617501 GGAAAAAAGA
10617511 AAT AA- AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT AA- ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* *
10617553 AGT AAT GA- AAT -AT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
10617576 CTAGTAGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
2 10 0.20
3 40 0.78
4 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:10620065 original size:31 final size:32
Alignment explanation
Indices: 10620030--10620121 Score: 125
Period size: 31 Copynumber: 2.9 Consensus size: 32
10620020 CAAATTGTCC
*
10620030 TTATACTCATACAAAATTTGAAATTTAGT-TT
1 TTATACTCGTACAAAATTTGAAATTTAGTCTT
* *
10620061 TTATACTTGTACGAAATTTGAAATTTAGTCTT
1 TTATACTCGTACAAAATTTGAAATTTAGTCTT
* *
10620093 TGA-ACTCGCACAAAATTTGAAATTTAGTC
1 TTATACTCGTACAAAATTTGAAATTTAGTC
10620122 CCTTTAATAC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
31 49 0.92
32 4 0.08
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (32 bp):
TTATACTCGTACAAAATTTGAAATTTAGTCTT
Found at i:10620215 original size:13 final size:13
Alignment explanation
Indices: 10620195--10620238 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
10620185 AAAAATTGAT
*
10620195 ACAATATTCTTTC
1 ACAATATTCTATC
*
10620208 ATAATATTCTATC
1 ACAATATTCTATC
10620221 ACAATATT-TAGTC
1 ACAATATTCTA-TC
10620234 ACAAT
1 ACAAT
10620239 TTTTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 2 0.07
13 25 0.93
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (13 bp):
ACAATATTCTATC
Found at i:10620887 original size:16 final size:14
Alignment explanation
Indices: 10620854--10620940 Score: 56
Period size: 14 Copynumber: 6.2 Consensus size: 14
10620844 TTTAAATTAA
10620854 TATTAAT-TTAAAT
1 TATTAATATTAAAT
10620867 TATTAATATTATAAT
1 TATTAATATTA-AAT
10620882 TGATTAATA-TAAAT
1 T-ATTAATATTAAAT
* * *
10620896 GA-TAACAATAATAT
1 TATTAATATTAA-AT
* *
10620910 TATTAATATGATAT
1 TATTAATATTAAAT
*
10620924 CATTAATAATT-AAT
1 TATTAAT-ATTAAAT
10620938 TAT
1 TAT
10620941 ATAAAGTAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
12 4 0.07
13 11 0.20
14 21 0.38
15 13 0.23
16 7 0.12
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.46
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:10621067 original size:31 final size:31
Alignment explanation
Indices: 10621032--10621113 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
10621022 ATATTAGAGG
* * * **
10621032 GATTAAATTTGAAATTTTGTGCGAGTATAGC
1 GATTAAATTTCAAATTTTGTGCAAGTACAAA
* *
10621063 GATTAAATTTTAAATTTTTTGCAAGTACAAA
1 GATTAAATTTCAAATTTTGTGCAAGTACAAA
*
10621094 GACTAAATTTCAAATTTTGT
1 GATTAAATTTCAAATTTTGT
10621114 ATGAGTTTAG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (31 bp):
GATTAAATTTCAAATTTTGTGCAAGTACAAA
Found at i:10622506 original size:21 final size:21
Alignment explanation
Indices: 10622480--10622521 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10622470 CCTTTCTCTG
10622480 TTTTCATATTTCTCAAACCAA
1 TTTTCATATTTCTCAAACCAA
10622501 TTTTCATATTTCTCAAACCAA
1 TTTTCATATTTCTCAAACCAA
10622522 ATCTATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTCATATTTCTCAAACCAA
Found at i:10628027 original size:38 final size:38
Alignment explanation
Indices: 10627976--10628052 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
10627966 TTAAGTTGTG
*
10627976 TTGGATTAGGATGCATAAATTGAGGGGGAGTTTTGCCA
1 TTGGATTAGGATGCACAAATTGAGGGGGAGTTTTGCCA
10628014 TTGGATTAGGATGCACAAATTGAGGGGGAGTTTTGCCA
1 TTGGATTAGGATGCACAAATTGAGGGGGAGTTTTGCCA
10628052 T
1 T
10628053 ACATTGTCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.09, G:0.34, T:0.31
Consensus pattern (38 bp):
TTGGATTAGGATGCACAAATTGAGGGGGAGTTTTGCCA
Found at i:10630061 original size:18 final size:18
Alignment explanation
Indices: 10630004--10630086 Score: 66
Period size: 19 Copynumber: 4.6 Consensus size: 18
10629994 TAAAATTGTA
*
10630004 ATTTTATTTTAATTATTT
1 ATTTTATTTTTATTATTT
*
10630022 GTTTTA-TTTTA-T-TTT
1 ATTTTATTTTTATTATTT
10630037 AGTTTTTATTTTTATT-TTT
1 A--TTTTATTTTTATTATTT
*
10630056 CATTTTAGTTTTTCTTATTT
1 -ATTTTA-TTTTTATTATTT
10630076 ATTATTATTTT
1 ATT-TTATTTT
10630087 CAGTTTTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
15 3 0.06
16 1 0.02
17 9 0.17
18 15 0.28
19 18 0.34
20 7 0.13
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (18 bp):
ATTTTATTTTTATTATTT
Found at i:10630065 original size:25 final size:24
Alignment explanation
Indices: 10630005--10630094 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 24
10629995 AAAATTGTAA
* *
10630005 TTTTATTTTAATTATTT-GTTTTA-
1 TTTTATTTTAGTT-TTTATTTTTAT
10630028 TTTTATTTTAGTTTTTATTTTTAT
1 TTTTATTTTAGTTTTTATTTTTAT
*
10630052 TTTTCATTTTAGTTTTTCTTATTTAT
1 TTTT-ATTTTAGTTTTTATT-TTTAT
*
10630078 TATTATTTTCAGTTTTT
1 TTTTATTTT-AGTTTTT
10630095 GTACAAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
22 3 0.05
23 17 0.29
24 4 0.07
25 19 0.33
26 15 0.26
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTATTTTAGTTTTTATTTTTAT
Found at i:10630068 original size:7 final size:6
Alignment explanation
Indices: 10630005--10630086 Score: 55
Period size: 6 Copynumber: 13.5 Consensus size: 6
10629995 AAAATTGTAA
* *
10630005 TTTTAT TTTAAT TATTT-G TTTTA- TTTTA- TTTTAGT TTTTAT TTTTAT
1 TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT
* *
10630052 TTTTCA- TTTTAGT TTTTCT TATTTAT TATTAT TTT
1 TTTT-AT TTTTA-T TTTTAT T-TTTAT TTTTAT TTT
10630087 CAGTTTTTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
5 14 0.23
6 30 0.49
7 17 0.28
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:10630069 original size:13 final size:12
Alignment explanation
Indices: 10630005--10630068 Score: 62
Period size: 13 Copynumber: 5.3 Consensus size: 12
10629995 AAAATTGTAA
*
10630005 TTTTATTTTAAT
1 TTTTATTTTAGT
*
10630017 TATTTGTTTTA--
1 T-TTTATTTTAGT
10630028 TTTTATTTTAGT
1 TTTTATTTTAGT
10630040 TTTTATTTTTA-T
1 TTTTA-TTTTAGT
10630052 TTTTCATTTTAGT
1 TTTT-ATTTTAGT
10630065 TTTT
1 TTTT
10630069 CTTATTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
10 8 0.18
11 1 0.02
12 16 0.36
13 19 0.43
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTTATTTTAGT
Found at i:10631013 original size:13 final size:11
Alignment explanation
Indices: 10630993--10631082 Score: 62
Period size: 10 Copynumber: 8.0 Consensus size: 11
10630983 GATCGTAGGT
10630993 TTTTATTTTTCA
1 TTTTATTTTT-A
10631005 TTTTCATTTTTGA
1 TTTT-ATTTTT-A
10631018 TTTTGATTTTGTTA
1 TTTT-A-TTT-TTA
10631032 TTTTA-TTTTA
1 TTTTATTTTTA
10631042 TTTTATTTTTA
1 TTTTATTTTTA
** *
10631053 GGTT-TTTCTA
1 TTTTATTTTTA
*
10631063 TTTT-TTATT-
1 TTTTATTTTTA
10631072 TTTTATTTTTA
1 TTTTATTTTTA
10631083 ATTATGATTG
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
9 4 0.06
10 22 0.35
11 9 0.15
12 4 0.06
13 13 0.21
14 8 0.13
15 2 0.03
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.76
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:10631066 original size:7 final size:7
Alignment explanation
Indices: 10630992--10631081 Score: 62
Period size: 7 Copynumber: 12.6 Consensus size: 7
10630982 TGATCGTAGG
10630992 TTTTTAT
1 TTTTTAT
*
10630999 TTTTCA-
1 TTTTTAT
*
10631005 TTTTCAT
1 TTTTTAT
*
10631012 TTTTGA-
1 TTTTTAT
*
10631018 TTTTGAT
1 TTTTTAT
10631025 TTTGTTAT
1 TTT-TTAT
10631033 TTTATT-T
1 TTT-TTAT
10631040 TATTTTA-
1 T-TTTTAT
10631047 TTTTTAGGT
1 TTTTTA--T
10631056 TTTTCTAT
1 TTTT-TAT
10631064 TTTTTAT
1 TTTTTAT
10631071 TTTTTAT
1 TTTTTAT
10631078 TTTT
1 TTTT
10631082 AATTATGATT
Statistics
Matches: 70, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
6 17 0.24
7 32 0.46
8 15 0.21
9 4 0.06
10 2 0.03
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:10631080 original size:6 final size:6
Alignment explanation
Indices: 10630992--10631082 Score: 53
Period size: 6 Copynumber: 14.0 Consensus size: 6
10630982 TGATCGTAGG
* *
10630992 TTTTTA TTTTTCA TTTTCA TTTTTGA TTTTGA TTTTGT- TATTTTA -TTTTA
1 TTTTTA TTTTT-A TTTTTA TTTTT-A TTTTTA TTTT-TA T-TTTTA TTTTTA
10631042 -TTTTA TTTTTA GGTTTTTCTA TTTTTTA TTTTTTA TTTTTA
1 TTTTTA TTTTTA ---TTTT-TA -TTTTTA -TTTTTA TTTTTA
10631083 ATTATGATTG
Statistics
Matches: 71, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
5 10 0.14
6 28 0.39
7 22 0.31
8 5 0.07
9 4 0.06
10 2 0.03
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:10631285 original size:36 final size:34
Alignment explanation
Indices: 10631198--10631305 Score: 105
Period size: 36 Copynumber: 3.1 Consensus size: 34
10631188 TTTATTTATT
* * *
10631198 ATGATATTTTGCATGAATTTTATTTATATATTTGT
1 ATGATA-TTTGCATGGATTTAATTTATATATTTGC
**
10631233 ATGATACTTTTTATGGATTATAATTTATATATTTGC
1 ATGATA-TTTGCATGGATT-TAATTTATATATTTGC
*
10631269 ATGATATGTTGCATGGATTT--TTT-TTTATTTGC
1 ATGATAT-TTGCATGGATTTAATTTATATATTTGC
10631301 ATGAT
1 ATGAT
10631306 GGTATTGTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
32 13 0.21
33 3 0.05
35 17 0.27
36 29 0.47
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.55
Consensus pattern (34 bp):
ATGATATTTGCATGGATTTAATTTATATATTTGC
Found at i:10640174 original size:27 final size:26
Alignment explanation
Indices: 10640123--10640174 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
10640113 TTCATGTTGC
* *
10640123 TAATTTTTGTTTTCATTTGTATATTT
1 TAATTTTAGTTTTCATTTGCATATTT
*
10640149 TAATGTTTAGTTTTCATTTGCCTATT
1 TAAT-TTTAGTTTTCATTTGCATATT
10640175 CTATTGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.19, C:0.08, G:0.10, T:0.63
Consensus pattern (26 bp):
TAATTTTAGTTTTCATTTGCATATTT
Found at i:10641126 original size:15 final size:15
Alignment explanation
Indices: 10641102--10641138 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
10641092 AATCATGGAA
*
10641102 AAAGAAAAGA-AAAG
1 AAAGAAAAAAGAAAG
10641116 -AAGAAAAAAGAAAG
1 AAAGAAAAAAGAAAG
10641130 AAAGAAAAA
1 AAAGAAAAA
10641139 CAATAAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 8 0.40
14 4 0.20
15 8 0.40
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAGAAAG
Found at i:10641129 original size:14 final size:16
Alignment explanation
Indices: 10641106--10641138 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10641096 ATGGAAAAAG
10641106 AAAAGAAAAG-AAGAA
1 AAAAGAAAAGAAAGAA
10641121 AAAAG-AAAGAAAGAA
1 AAAAGAAAAGAAAGAA
10641136 AAA
1 AAA
10641139 CAATAAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAGAA
Found at i:10647019 original size:17 final size:18
Alignment explanation
Indices: 10646982--10647028 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
10646972 ATTAGTTTAA
*
10646982 GGTTTAAGGATTGGTTTTGG
1 GGTTT-AGGGTTGGTTTT-G
10647002 GGTTT-GGGTTGG-TTTG
1 GGTTTAGGGTTGGTTTTG
10647018 GGTTTAGGGTT
1 GGTTTAGGGTT
10647029 TTAAACTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.24
17 8 0.32
18 6 0.24
20 5 0.20
ACGTcount: A:0.09, C:0.00, G:0.45, T:0.47
Consensus pattern (18 bp):
GGTTTAGGGTTGGTTTTG
Found at i:10647093 original size:13 final size:13
Alignment explanation
Indices: 10647044--10647119 Score: 57
Period size: 13 Copynumber: 5.9 Consensus size: 13
10647034 CTTAGGATTT
10647044 GGGTTTT-GTTTA
1 GGGTTTTGGTTTA
*
10647056 GGGTTTAGGTTTA
1 GGGTTTTGGTTTA
** **
10647069 ATG-TTTAATTTA
1 GGGTTTTGGTTTA
10647081 GGGTTTTGGTTTA
1 GGGTTTTGGTTTA
* * *
10647094 AGCTTTTGATTTA
1 GGGTTTTGGTTTA
10647107 GGGTTTGTGGTTT
1 GGGTTT-TGGTTT
10647120 GAAGTTTGAT
Statistics
Matches: 45, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
12 13 0.29
13 27 0.60
14 5 0.11
ACGTcount: A:0.14, C:0.01, G:0.30, T:0.54
Consensus pattern (13 bp):
GGGTTTTGGTTTA
Found at i:10647111 original size:26 final size:25
Alignment explanation
Indices: 10647046--10647144 Score: 114
Period size: 26 Copynumber: 3.9 Consensus size: 25
10647036 TAGGATTTGG
10647046 GTTTTG-TTTAGGGTTTAGGTTTAA
1 GTTTTGATTTAGGGTTTAGGTTTAA
* *
10647070 -TGTTTAATTTAGGGTTTTGGTTTAA
1 GT-TTTGATTTAGGGTTTAGGTTTAA
*
10647095 GCTTTTGATTTAGGGTTTGTGGTTTGAA
1 G-TTTTGATTTAGGGTTT-AGGTTT-AA
10647123 G-TTTGATTTAGGGTTTAGGTTT
1 GTTTTGATTTAGGGTTTAGGTTT
10647145 TAGGACTTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
23 1 0.02
24 3 0.05
25 22 0.34
26 29 0.45
27 7 0.11
28 3 0.05
ACGTcount: A:0.16, C:0.01, G:0.29, T:0.54
Consensus pattern (25 bp):
GTTTTGATTTAGGGTTTAGGTTTAA
Found at i:10647225 original size:16 final size:16
Alignment explanation
Indices: 10647192--10647223 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
10647182 TTCATAGGAA
10647192 TTGGGGATTTCAAATT
1 TTGGGGATTTCAAATT
10647208 TTGGGG-TTTC-AATT
1 TTGGGGATTTCAAATT
10647222 TT
1 TT
10647224 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
TTGGGGATTTCAAATT
Found at i:10650424 original size:23 final size:23
Alignment explanation
Indices: 10650398--10650441 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10650388 GCATGCATTG
10650398 TATTAAGTACATTGCATTCATCA
1 TATTAAGTACATTGCATTCATCA
* * *
10650421 TATTCATTTCATTGCATTCAT
1 TATTAAGTACATTGCATTCAT
10650442 TATGCATGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (23 bp):
TATTAAGTACATTGCATTCATCA
Found at i:10650601 original size:31 final size:32
Alignment explanation
Indices: 10650558--10650625 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 32
10650548 GCATATACTT
10650558 GAAAGATTATATTTGGAAGATTACAAAGAAGA
1 GAAAGATTATATTTGGAAGATTACAAAGAAGA
10650590 GAAA-ATTATATTTGGAAGATTACAAAGAAGA
1 GAAAGATTATATTTGGAAGATTACAAAGAAGA
10650621 GAAAG
1 GAAAG
10650626 TTGAAGATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.22, T:0.24
Consensus pattern (32 bp):
GAAAGATTATATTTGGAAGATTACAAAGAAGA
Found at i:10651059 original size:11 final size:11
Alignment explanation
Indices: 10651043--10651067 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10651033 TATATAGTTA
10651043 TATATTATTAT
1 TATATTATTAT
10651054 TATATTATTAT
1 TATATTATTAT
10651065 TAT
1 TAT
10651068 TATTTTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTATTAT
Found at i:10651064 original size:14 final size:13
Alignment explanation
Indices: 10651040--10651070 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
10651030 ATTTATATAG
10651040 TTATATATTATTA
1 TTATATATTATTA
10651053 TTATATTATTATTA
1 TTATA-TATTATTA
10651067 TTAT
1 TTAT
10651071 TTTGTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:10651114 original size:23 final size:23
Alignment explanation
Indices: 10651088--10651148 Score: 59
Period size: 27 Copynumber: 2.5 Consensus size: 23
10651078 TATTTTGGAT
10651088 TTATCTATTTTAATTTTAATTAA
1 TTATCTATTTTAATTTTAATTAA
* * *
10651111 TTATCTGTTAATTTTATTTTTATTTAT
1 TTATC---T-ATTTTAATTTTAATTAA
10651138 TTATCTATTTT
1 TTATCTATTTT
10651149 TTTTTATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 10 0.32
24 1 0.03
26 1 0.03
27 19 0.61
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (23 bp):
TTATCTATTTTAATTTTAATTAA
Found at i:10651152 original size:27 final size:27
Alignment explanation
Indices: 10651094--10651146 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
10651084 GGATTTATCT
*
10651094 ATTTTAATTTTAATTAATTATCTGTTA
1 ATTTTAATTTTAATTAATTATCTATTA
* * *
10651121 ATTTTATTTTTATTTATTTATCTATT
1 ATTTTAATTTTAATTAATTATCTATT
10651147 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTTTAATTTTAATTAATTATCTATTA
Found at i:10651158 original size:17 final size:18
Alignment explanation
Indices: 10651125--10651160 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10651115 CTGTTAATTT
10651125 TATTTTTATTTATTTATC
1 TATTTTTATTTATTTATC
*
10651143 TATTTTTTTTTA-TTATC
1 TATTTTTATTTATTTATC
10651160 T
1 T
10651161 GATTATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTTTTATTTATTTATC
Found at i:10651920 original size:26 final size:25
Alignment explanation
Indices: 10651903--10651951 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
10651893 TGAATTTTTT
10651903 TTTATTTTCATTTCTTTGTTTATTTG
1 TTTATTTT-ATTTCTTTGTTTATTTG
* *
10651929 TTTATTTTATTTTTTTATTTATT
1 TTTATTTTATTTCTTTGTTTATT
10651952 AGATTAGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (25 bp):
TTTATTTTATTTCTTTGTTTATTTG
Found at i:10651951 original size:17 final size:17
Alignment explanation
Indices: 10651929--10652044 Score: 60
Period size: 17 Copynumber: 6.6 Consensus size: 17
10651919 TGTTTATTTG
10651929 TTTATTTTATTTTTTTA
1 TTTATTTTATTTTTTTA
** **
10651946 TTTATTAGATTAGGTTTA
1 TTTATTTTATT-TTTTTA
* * * *
10651964 TTTAATATTCTTTTTATC
1 TTT-ATTTTATTTTTTTA
10651982 TTTATTTTATTTTTATT-
1 TTTATTTTATTTTT-TTA
*
10651999 TTTGTTTTACTTTTCTTTA
1 TTTATTTTA-TTTT-TTTA
10652018 -TT-TTTTATTTTTATTTA
1 TTTATTTTA-TTTT-TTTA
10652035 TTT-TTTTATT
1 TTTATTTTATT
10652045 ATTCTATTTT
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
17 41 0.55
18 28 0.38
19 5 0.07
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTATTTTATTTTTTTA
Found at i:10652022 original size:28 final size:25
Alignment explanation
Indices: 10651986--10652054 Score: 52
Period size: 26 Copynumber: 2.6 Consensus size: 25
10651976 TTTATCTTTA
*
10651986 TTTTA-TTTTTATTTTTGTTTTACTTT
1 TTTTATTTTTTATTTTT-ATTTA-TTT
*
10652012 TCTT-TATTTTTTATTTTTATTTATTT
1 TTTTAT-TTT-TTATTTTTATTTATTT
*
10652038 TTTTATTATTCTATTTT
1 TTTTATT-TTTTATTTT
10652055 CTTTAAATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
26 16 0.47
27 10 0.29
28 8 0.24
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (25 bp):
TTTTATTTTTTATTTTTATTTATTT
Found at i:10652285 original size:57 final size:58
Alignment explanation
Indices: 10652071--10652411 Score: 483
Period size: 58 Copynumber: 5.9 Consensus size: 58
10652061 ATGAAAATCA
10652071 AAATTTTCAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTTC-AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
**
10652130 AAA-TTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTTCAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
10652188 AAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*** **
10652246 AAATTTTCAAAAAGGGA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAAT
1 AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
10652303 CAAAGTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAAT
1 -AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * *
10652362 AAA-TTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAAATATCAATTTTCC
1 AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTG-AAAGTATCAATTTTCC
10652412 CTACACAAGA
Statistics
Matches: 256, Mismatches: 20, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
57 73 0.29
58 131 0.51
59 52 0.20
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
Found at i:10656375 original size:20 final size:19
Alignment explanation
Indices: 10656332--10656386 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
10656322 AAATAAGAAA
10656332 AAAAAAGAAAAAAGATGAT
1 AAAAAAGAAAAAAGATGAT
*
10656351 AAAAAAGAAAGAAAGAATGAG
1 AAAAAAGAAA-AAAG-ATGAT
**
10656372 AAAATGGAAAAAAGA
1 AAAAAAGAAAAAAGA
10656387 GATCCAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 11 0.35
20 8 0.26
21 12 0.39
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (19 bp):
AAAAAAGAAAAAAGATGAT
Found at i:10657469 original size:22 final size:23
Alignment explanation
Indices: 10657444--10657502 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
10657434 GAATGTTTTG
*
10657444 ATGAGAATTTTTGAGAACTC-AA
1 ATGAGAATCTTTGAGAACTCAAA
**
10657466 ATGAGAATCTTTGA-ATTTCAAA
1 ATGAGAATCTTTGAGAACTCAAA
10657488 ATGAGAATCTTTGAG
1 ATGAGAATCTTTGAG
10657503 GAGTGAAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 29 0.91
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (23 bp):
ATGAGAATCTTTGAGAACTCAAA
Found at i:10657779 original size:44 final size:44
Alignment explanation
Indices: 10657686--10657768 Score: 118
Period size: 43 Copynumber: 1.9 Consensus size: 44
10657676 GCCTTTGAAC
* *
10657686 TCAAATGAAAAAGCTTTGAATTTTTGGATGTGAATTTCCAAAAT
1 TCAAATGAAAAAGCTTTGAACTTTTGGATATGAATTTCCAAAAT
10657730 TCAAATG-AAAAGCTTT-AGACTTTTGGATATGAA-TTCCAA
1 TCAAATGAAAAAGCTTTGA-ACTTTTGGATATGAATTTCCAA
10657769 GTTTGCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
42 7 0.19
43 22 0.61
44 7 0.19
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (44 bp):
TCAAATGAAAAAGCTTTGAACTTTTGGATATGAATTTCCAAAAT
Found at i:10658110 original size:41 final size:41
Alignment explanation
Indices: 10658035--10658247 Score: 309
Period size: 41 Copynumber: 5.1 Consensus size: 41
10658025 TGATTGTCAG
*
10658035 GGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTATTTAGA
1 GGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGA
*
10658077 AGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
* *
10658118 GGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTATTTAGA
1 GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
* *
10658159 AGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
1 GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
* * * *
10658200 GGAGCAATTTATGTTTCTCAAAGTCATTGAGCCTCTGTTTAGA
1 GGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAGA
10658243 GGAGC
1 GGAGC
10658248 TTTGGTAAAA
Statistics
Matches: 156, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
41 110 0.71
42 19 0.12
43 27 0.17
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (41 bp):
GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGA
Found at i:10658260 original size:1 final size:1
Alignment explanation
Indices: 10658254--10658301 Score: 60
Period size: 1 Copynumber: 48.0 Consensus size: 1
10658244 GAGCTTTGGT
* * * *
10658254 AAAAAAAAAAAACAAAAAAAAACAAAAAAATAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10658302 TGACAATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.92, C:0.06, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:10658272 original size:10 final size:10
Alignment explanation
Indices: 10658257--10658301 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
10658247 CTTTGGTAAA
10658257 AAAAAAAAAC
1 AAAAAAAAAC
10658267 AAAAAAAAAC
1 AAAAAAAAAC
*
10658277 --AAAAAAAT
1 AAAAAAAAAC
10658285 AAAAAAAAAC
1 AAAAAAAAAC
10658295 AAAAAAA
1 AAAAAAA
10658302 TGACAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.23
10 24 0.77
ACGTcount: A:0.91, C:0.07, G:0.00, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:10658302 original size:18 final size:18
Alignment explanation
Indices: 10658254--10658302 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
10658244 GAGCTTTGGT
*
10658254 AAAAA-AAAAAAACAAAA
1 AAAAACAAAAAAATAAAA
10658271 AAAAACAAAAAAATAAAA
1 AAAAACAAAAAAATAAAA
10658289 AAAAACAAAAAAAT
1 AAAAACAAAAAAAT
10658303 GACAATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.04
Consensus pattern (18 bp):
AAAAACAAAAAAATAAAA
Found at i:10658632 original size:14 final size:14
Alignment explanation
Indices: 10658602--10658644 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
10658592 ATAGGTATTT
10658602 TATTTATATAGTTATA
1 TATTTAT-TA-TTATA
10658618 TATTTATTATTATA
1 TATTTATTATTATA
10658632 T-TATTATTATTAT
1 TAT-TTATTATTAT
10658645 TTTGTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.04
14 16 0.62
15 2 0.08
16 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TATTTATTATTATA
Found at i:10658636 original size:67 final size:65
Alignment explanation
Indices: 10658489--10658656 Score: 157
Period size: 67 Copynumber: 2.5 Consensus size: 65
10658479 TTTTCTTTTG
* * * * * *
10658489 TATTTTATGTATTTATTTATTATTATTAT-TAATATGTGTA--TATCTTTATTTATCTATTTATT
1 TATTTTAT-TA-TTA-TTATTATTATTTTGTAATATTTATAGGTAT-TTTATTTATATAGTTATA
10658551 TATT
62 TATT
* *
10658555 TATTTTATTTTTATT-TTCATTTTTTTTGTTAATATTTATAGGTATTTTATTTATATAGTTATAT
1 TATTTTATTATTATTATT-A-TTATTTTG-TAATATTTATAGGTATTTTATTTATATAGTTATAT
10658619 ATT
63 ATT
10658622 TATTATTA-TATTATTATTATTATTTTGTAATATTT
1 TATT-TTATTATTATTATTATTATTTTGTAATATTT
10658657 TTGGATTTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
62 2 0.02
63 3 0.04
64 8 0.10
65 9 0.11
66 24 0.29
67 30 0.36
68 8 0.10
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (65 bp):
TATTTTATTATTATTATTATTATTTTGTAATATTTATAGGTATTTTATTTATATAGTTATATATT
Found at i:10659312 original size:16 final size:17
Alignment explanation
Indices: 10659280--10659322 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
10659270 CCTTTTAGAG
*
10659280 AGAAGAGAGAGGAAAAA
1 AGAAGAGAGAAGAAAAA
10659297 AGAAGA-AGAAGAAAAA
1 AGAAGAGAGAAGAAAAA
10659313 AGAA-AGAGAA
1 AGAAGAGAGAA
10659323 AGAGAGAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 17 0.71
17 6 0.25
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (17 bp):
AGAAGAGAGAAGAAAAA
Found at i:10659636 original size:18 final size:18
Alignment explanation
Indices: 10659613--10659730 Score: 66
Period size: 18 Copynumber: 6.6 Consensus size: 18
10659603 TGTTTATTTG
10659613 TTTATTTTATTTTTTTTA
1 TTTATTTTATTTTTTTTA
** ***
10659631 TTTATTAGATTAGGTTTA
1 TTTATTTTATTTTTTTTA
* *
10659649 TTTA--ATATTCTTTTTATC
1 TTTATTTTATT-TTTTT-TA
*
10659667 TTTATTTTATTTTTATT-
1 TTTATTTTATTTTTTTTA
* *
10659684 TTTGTTTTACTTTTCTTTA
1 TTTATTTTA-TTTTTTTTA
*
10659703 -TTGTTTTATTTTTATTTA
1 TTTATTTTATTTTT-TTTA
10659721 TTT-TTTTATT
1 TTTATTTTATT
10659731 ATTCTATTTT
Statistics
Matches: 76, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
16 4 0.05
17 14 0.18
18 48 0.63
19 6 0.08
20 4 0.05
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (18 bp):
TTTATTTTATTTTTTTTA
Found at i:10659680 original size:6 final size:6
Alignment explanation
Indices: 10659659--10659740 Score: 55
Period size: 6 Copynumber: 13.7 Consensus size: 6
10659649 TTTAATATTC
* * * *
10659659 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTATT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA
*
10659705 GTTTTA TTTTTA TTTATT- TTTTTA TTATTCTA TTTT
1 TTTTTA TTTTTA TTT-TTA TTTTTA TT-TT-TA TTTT
10659741 CTTTAAATGA
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
5 12 0.20
6 36 0.60
7 8 0.13
8 4 0.07
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:10659681 original size:17 final size:17
Alignment explanation
Indices: 10659659--10659740 Score: 83
Period size: 18 Copynumber: 4.6 Consensus size: 17
10659649 TTTAATATTC
* *
10659659 TTTTTATCTTTATTTTA
1 TTTTTATTTTTGTTTTA
10659676 TTTTTATTTTTGTTTTA
1 TTTTTATTTTTGTTTTA
* *
10659693 CTTTTCTTTATTGTTTTA
1 TTTTTATTT-TTGTTTTA
*
10659711 TTTTTATTTATTTTTTTA
1 TTTTTATTT-TTGTTTTA
10659729 TTATTCTATTTT
1 TT-TT-TATTTT
10659741 CTTTAAATGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
17 22 0.40
18 25 0.45
19 3 0.05
20 5 0.09
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTGTTTTA
Found at i:10659691 original size:11 final size:10
Alignment explanation
Indices: 10659667--10659733 Score: 57
Period size: 11 Copynumber: 6.6 Consensus size: 10
10659657 TCTTTTTATC
10659667 TTTATTTTATT
1 TTTATTTT-TT
10659678 TTTATTTTTGT
1 TTTATTTTT-T
* *
10659689 TTTACTTTTC
1 TTTATTTTTT
*
10659699 TTTA--TTGT
1 TTTATTTTTT
*
10659707 TTTATTTTTA
1 TTTATTTTTT
10659717 TTTATTTTTT
1 TTTATTTTTT
10659727 TATTATT
1 T-TTATT
10659734 CTATTTTCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
8 6 0.13
10 17 0.38
11 22 0.49
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:10659732 original size:15 final size:17
Alignment explanation
Indices: 10659714--10659745 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10659704 TGTTTTATTT
10659714 TTATT-TATTTT-TTTA
1 TTATTCTATTTTCTTTA
10659729 TTATTCTATTTTCTTTA
1 TTATTCTATTTTCTTTA
10659746 AATGAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 6 0.40
17 4 0.27
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTCTATTTTCTTTA
Found at i:10659732 original size:29 final size:29
Alignment explanation
Indices: 10659677--10659740 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
10659667 TTTATTTTAT
*
10659677 TTTTATTTTTGTTTTACTTTTCTTTATTG
1 TTTTATTTTTGATTTACTTTTCTTTATTG
*
10659706 TTTTATTTTT-ATTTA-TTTT-TTTATTA
1 TTTTATTTTTGATTTACTTTTCTTTATTG
*
10659732 TTCTATTTT
1 TTTTATTTT
10659741 CTTTAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.44
27 4 0.12
28 4 0.12
29 10 0.31
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (29 bp):
TTTTATTTTTGATTTACTTTTCTTTATTG
Found at i:10659823 original size:58 final size:56
Alignment explanation
Indices: 10659761--10660216 Score: 554
Period size: 58 Copynumber: 7.8 Consensus size: 56
10659751 AAATCAAAAT
10659761 TTTCAAAACAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 TTTCAAAA-AAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* * ** *
10659819 TTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAATCAAGG
1 TTTCAAAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AA-A
10659879 TTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 TTTC-AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* *
10659937 TTTTCAAAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAA
1 -TTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAA
** *
10659997 TTTCCGAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
1 TTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
** * **
10660054 TTTTCAAAAAAGGA-TTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGGAAATCAAA
1 -TTTCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA
* *
10660112 GTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAACAAA
1 -TTTC-AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
* *
10660171 TTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCC
1 TTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC
10660217 CTACACAAGA
Statistics
Matches: 352, Mismatches: 31, Indels: 31
0.85 0.07 0.07
Matches are distributed among these distances:
56 1 0.00
57 82 0.23
58 112 0.32
59 67 0.19
60 83 0.24
61 7 0.02
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (56 bp):
TTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
Found at i:10659892 original size:118 final size:118
Alignment explanation
Indices: 10659751--10660216 Score: 676
Period size: 117 Copynumber: 4.0 Consensus size: 118
10659741 CTTTAAATGA
* *
10659751 AAATCAAAATTTTCAAAACAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 AAATC-AAAGTTTCAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
* *
10659815 TAAA-TTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGG
64 TAAATTTTCAAAAAAA-GATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGG
*
10659870 AAATCAAGGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA
1 AAATCAAAGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA
* * *
10659935 AATTTTCAAAAAAATATTTTTGGGGAAAAGTT-AAAAGTATCAATTTTCCTTGA
66 AATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAA-TATCAATTTTCCTTGG
* ** *
10659988 AAATCAAAATTTC-CGAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATCAAAGTTTCAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
10660051 AAATTTTCAAAAAAGGA-TTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGG
65 AAATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGG
* *
10660104 AAATCAAAGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAACA
1 AAATCAAAGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA
* * *
10660169 AA-TTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCC
66 AATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCC
10660217 CTACACAAGA
Statistics
Matches: 312, Mismatches: 27, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
116 52 0.17
117 144 0.46
118 99 0.32
119 17 0.05
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (118 bp):
AAATCAAAGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA
AATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGG
Found at i:10660853 original size:43 final size:44
Alignment explanation
Indices: 10660774--10660857 Score: 127
Period size: 43 Copynumber: 1.9 Consensus size: 44
10660764 AAACTTTCTG
*
10660774 TTGAGTAAGAGCCTTTTAAAATTTCTAAAGTTTCAAAGCCTTTA
1 TTGAGGAAGAGCCTTTTAAAATTTCTAAAGTTTCAAAGCCTTTA
*
10660818 TTGAGGAATAGCCTTTT-AAATTTCCT-AAGTTTCAAAGCCT
1 TTGAGGAAGAGCCTTTTAAAATTT-CTAAAGTTTCAAAGCCT
10660858 CTGTTGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 20 0.54
44 17 0.46
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (44 bp):
TTGAGGAAGAGCCTTTTAAAATTTCTAAAGTTTCAAAGCCTTTA
Found at i:10661190 original size:19 final size:19
Alignment explanation
Indices: 10661168--10661212 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
10661158 CATTTTAACA
10661168 TTTATT-TTTAGTTTTAGTT
1 TTTATTATTTA-TTTTAGTT
*
10661187 TTTATTATTTATTTTTGTT
1 TTTATTATTTATTTTAGTT
10661206 TTT-TTAT
1 TTTATTAT
10661213 CAAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTATTATTTATTTTAGTT
Found at i:10662478 original size:3 final size:3
Alignment explanation
Indices: 10662472--10662496 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10662462 TTAATTAAAA
10662472 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
10662497 TCTTTAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10662684 original size:3 final size:3
Alignment explanation
Indices: 10662676--10662707 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10662666 ATTTATGTAT
10662676 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10662708 TAGAGTTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10664954 original size:19 final size:16
Alignment explanation
Indices: 10664915--10664947 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10664905 AACGATTTGA
10664915 ATGATAATGACGATTT
1 ATGATAATGACGATTT
*
10664931 ATGATAATGATGATTT
1 ATGATAATGACGATTT
10664947 A
1 A
10664948 CGATGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (16 bp):
ATGATAATGACGATTT
Found at i:10669586 original size:16 final size:16
Alignment explanation
Indices: 10669565--10669601 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
10669555 AACGATTTGA
10669565 ATGATAATGACGATTT
1 ATGATAATGACGATTT
*
10669581 ATGATAATGATGATTT
1 ATGATAATGACGATTT
10669597 ATGAT
1 ATGAT
10669602 GATTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.41
Consensus pattern (16 bp):
ATGATAATGACGATTT
Found at i:10671381 original size:8 final size:7
Alignment explanation
Indices: 10671369--10671475 Score: 66
Period size: 7 Copynumber: 15.4 Consensus size: 7
10671359 TTAATTTTTA
10671369 ATTATTT
1 ATTATTT
*
10671376 ATTTATAT
1 A-TTATTT
10671384 ATTTATTT
1 A-TTATTT
*
10671392 ATCATTT
1 ATTATTT
10671399 ATTATTT
1 ATTATTT
10671406 -TTA--T
1 ATTATTT
10671410 ATTATATT
1 ATTAT-TT
*
10671418 ACTATTT
1 ATTATTT
10671425 -TTCATTAT
1 ATT-ATT-T
*
10671433 ATTATAT
1 ATTATTT
*
10671440 ATATACTT
1 AT-TATTT
10671448 ATTA-TT
1 ATTATTT
10671454 ATTA-TT
1 ATTATTT
10671460 ATTA-TT
1 ATTATTT
10671466 ATTATTT
1 ATTATTT
10671473 ATT
1 ATT
10671476 CAATTTTTGT
Statistics
Matches: 81, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
4 1 0.01
5 3 0.04
6 22 0.27
7 27 0.33
8 26 0.32
9 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (7 bp):
ATTATTT
Found at i:10671454 original size:3 final size:3
Alignment explanation
Indices: 10671397--10671471 Score: 66
Period size: 3 Copynumber: 24.7 Consensus size: 3
10671387 TATTTATCAT
* * *
10671397 TTA TTA TTT TTA -TA TTA -TA TTA CTA TTT TTCA TTA -TA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA T-TA
10671441 TATA CTTA TTA TTA TTA TTA TTA TTA TTA TT
1 T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TT
10671472 TATTCAATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 6 0.10
3 43 0.72
4 10 0.17
5 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:10671454 original size:23 final size:22
Alignment explanation
Indices: 10671398--10671471 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 22
10671388 ATTTATCATT
*
10671398 TATTATTTTTATATTATATTAC
1 TATTATTATTATATTATATTAC
*
10671420 TATTTTTCATTATATTATATATA-
1 TATTATT-ATTATATTATAT-TAC
*
10671443 TACTTATTATTATTATTATTATTAT
1 TA-TTATTATTA-TATTA-TATTAC
10671468 TATT
1 TATT
10671472 TATTCAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
22 6 0.14
23 17 0.40
24 15 0.35
25 5 0.12
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATTATTATATTATATTAC
Found at i:10671815 original size:5 final size:5
Alignment explanation
Indices: 10671801--10671872 Score: 51
Period size: 5 Copynumber: 14.8 Consensus size: 5
10671791 AGGAAAAAAA
* * * * *
10671801 TTTT- TTTTG TTTTG TTTT- CTTTG -TTTG GTTTG GTTTG GTTTG TTTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
* *
10671848 TTTTT TTTTCT TTTTG TTTTG TTTT
1 TTTTG TTTT-G TTTTG TTTTG TTTT
10671873 TTTCTCTTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
4 11 0.18
5 44 0.73
6 5 0.08
ACGTcount: A:0.00, C:0.03, G:0.17, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:10671823 original size:14 final size:14
Alignment explanation
Indices: 10671801--10671875 Score: 82
Period size: 14 Copynumber: 5.5 Consensus size: 14
10671791 AGGAAAAAAA
10671801 TTTTTTTTGTTTTG
1 TTTTTTTTGTTTTG
* *
10671815 TTTTCTTTGTTTGG
1 TTTTTTTTGTTTTG
** *
10671829 TTTGGTTTGGTTTG
1 TTTTTTTTGTTTTG
10671843 TTTTTTTT-TTTT-
1 TTTTTTTTGTTTTG
*
10671855 TTCTTTTTGTTTTG
1 TTTTTTTTGTTTTG
10671869 TTTTTTT
1 TTTTTTT
10671876 CTCTTAAGAT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
12 7 0.15
13 7 0.15
14 34 0.71
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:10671865 original size:21 final size:21
Alignment explanation
Indices: 10671839--10671880 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10671829 TTTGGTTTGG
* *
10671839 TTTGTTTTTTTTTTTTTTCTT
1 TTTGTTTTGTTTTTTTCTCTT
10671860 TTTGTTTTGTTTTTTTCTCTT
1 TTTGTTTTGTTTTTTTCTCTT
10671881 AAGATAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (21 bp):
TTTGTTTTGTTTTTTTCTCTT
Found at i:10672301 original size:34 final size:34
Alignment explanation
Indices: 10672105--10672439 Score: 177
Period size: 34 Copynumber: 10.1 Consensus size: 34
10672095 TAAACTAAAT
* * * *
10672105 TTAAA-TTTTCA-TCAGTGCCAAATAATTTAAGC
1 TTAAATTTTTCATTGAGTGCCAGATAAATTAGGC
* * *
10672137 TTAAA-TTTTCATT-AGGTACCAGTTAAACT-GGAC
1 TTAAATTTTTCATTGA-GTGCCAGATAAATTAGG-C
* *
10672170 TTAAATTTTTTCA-TGAGGTGCCAGCTAAATTAGGT
1 TTAAA-TTTTTCATTGA-GTGCCAGATAAATTAGGC
* * * * *
10672205 TTAAA----TCTTTGGGTACC-GACTAAACTAGCC
1 TTAAATTTTTCATTGAGTGCCAGA-TAAATTAGGC
* * * *
10672235 TTAAA--TTTCATTGGGTGCCAGTTAAGTTGGGC
1 TTAAATTTTTCATTGAGTGCCAGATAAATTAGGC
** *
10672267 TTAAATCTTTTCA-TGAGTGTTAGATAAATTGGGC
1 TTAAAT-TTTTCATTGAGTGCCAGATAAATTAGGC
* * *
10672301 TT-AATATTGCATTGGGTGCCAGATAAATTAGGC
1 TTAAATTTTTCATTGAGTGCCAGATAAATTAGGC
* *
10672334 TTAAAATTTTCATTG-GTGCCA-ACTAAACTAGGC
1 TTAAATTTTTCATTGAGTGCCAGA-TAAATTAGGC
* *
10672367 TTAAAATTTTTCATTGA-TGCTAGCTAAATTAGGC
1 TT-AAATTTTTCATTGAGTGCCAGATAAATTAGGC
* * *
10672401 TTAAATATTTTCA-TGACTGCCAGTTAAATTGGGC
1 TTAAAT-TTTTCATTGAGTGCCAGATAAATTAGGC
10672435 TTAAA
1 TTAAA
10672440 ACTTAATTAA
Statistics
Matches: 234, Mismatches: 46, Indels: 44
0.72 0.14 0.14
Matches are distributed among these distances:
29 1 0.00
30 18 0.08
31 2 0.01
32 39 0.17
33 63 0.27
34 80 0.34
35 29 0.12
36 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (34 bp):
TTAAATTTTTCATTGAGTGCCAGATAAATTAGGC
Found at i:10672335 original size:33 final size:32
Alignment explanation
Indices: 10672119--10672406 Score: 135
Period size: 33 Copynumber: 8.8 Consensus size: 32
10672109 ATTTTCATCA
* * * *
10672119 GTGCCAAATAATTTAAGCTTAAATTTTCATTAG
1 GTGCCAGATAAATTAGGCTTAAA-TTTCATTGG
* * *
10672152 GTACCAGTTAAACT-GGACTTAAATTTTTTCA-TGAG
1 GTGCCAGATAAATTAGG-CTTAAA---TTTCATTG-G
* * *
10672187 GTGCCAGCTAAATTAGGTTTAAA--TCTTTGG
1 GTGCCAGATAAATTAGGCTTAAATTTCATTGG
* * *
10672217 GTACC-GACTAAACTAGCCTTAAATTTCATTGG
1 GTGCCAGA-TAAATTAGGCTTAAATTTCATTGG
* * * *
10672249 GTGCCAGTTAAGTTGGGCTTAAATCTTTTCA-TGA
1 GTGCCAGATAAATTAGGCTTAAA---TTTCATTGG
** * *
10672283 GTGTTAGATAAATTGGGCTTAATATTGCATTGG
1 GTGCCAGATAAATTAGGCTTAA-ATTTCATTGG
10672316 GTGCCAGATAAATTAGGCTTAAAATTTTCATT-G
1 GTGCCAGATAAATTAGGCTT-AAA-TTTCATTGG
*
10672349 GTGCCA-ACTAAACTAGGCTTAAAATTTTTCATT-G
1 GTGCCAGA-TAAATTAGGCTT-AAA--TTTCATTGG
* * *
10672383 ATGCTAGCTAAATTAGGCTTAAAT
1 GTGCCAGATAAATTAGGCTTAAAT
10672407 ATTTTCATGA
Statistics
Matches: 195, Mismatches: 40, Indels: 42
0.70 0.14 0.15
Matches are distributed among these distances:
29 1 0.01
30 19 0.10
31 3 0.02
32 27 0.14
33 61 0.31
34 53 0.27
35 29 0.15
36 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
GTGCCAGATAAATTAGGCTTAAATTTCATTGG
Found at i:10673500 original size:9 final size:8
Alignment explanation
Indices: 10673486--10673562 Score: 57
Period size: 9 Copynumber: 8.9 Consensus size: 8
10673476 CACCCATTCA
10673486 TTTCTTTAT
1 TTTCTTT-T
10673495 TTTCTTTT
1 TTTCTTTT
10673503 TTCTCTTTT
1 TT-TCTTTT
**
10673512 TCACTTTT
1 TTTCTTTT
*
10673520 TCTTCTTTC
1 T-TTCTTTT
10673529 TTTCAATTTT
1 TTTC--TTTT
10673539 TTTCTTTT
1 TTTCTTTT
10673547 TCTT-TCTTT
1 T-TTCT-TTT
10673556 TTTCTTT
1 TTTCTTT
10673563 CCTGTTCATT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
8 22 0.40
9 26 0.47
10 7 0.13
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTCTTTT
Found at i:10673532 original size:19 final size:18
Alignment explanation
Indices: 10673499--10673545 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
10673489 CTTTATTTTC
*
10673499 TTTTTTCTCTT-TTTCACT
1 TTTTTTCT-TTCTTTCAAT
10673517 TTTTCTTCTTTCTTTCAAT
1 TTTT-TTCTTTCTTTCAAT
10673536 TTTTTTCTTT
1 TTTTTTCTTT
10673546 TTCTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTCTTTCTTTCAAT
Found at i:10673559 original size:11 final size:11
Alignment explanation
Indices: 10673518--10673563 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
10673508 TTTTTCACTT
*
10673518 TTTCTTCTTTC
1 TTTCTTTTTTC
**
10673529 TTTCAATTTT-
1 TTTCTTTTTTC
10673539 TTTC-TTTTTC
1 TTTCTTTTTTC
10673549 TTTCTTTTTTC
1 TTTCTTTTTTC
10673560 TTTC
1 TTTC
10673564 CTGTTCATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 4 0.14
10 8 0.28
11 17 0.59
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:10674093 original size:16 final size:14
Alignment explanation
Indices: 10674074--10674108 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
10674064 TTCTTTATCC
10674074 TTTTTCTTCTCTTTTT
1 TTTTTCTT-T-TTTTT
10674090 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
10674104 TTTTT
1 TTTTT
10674109 GACATGCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.53
15 1 0.05
16 8 0.42
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTCTTTTTTTT
Found at i:10674107 original size:13 final size:13
Alignment explanation
Indices: 10674074--10674106 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
10674064 TTCTTTATCC
*
10674074 TTTTTCTTCTCTT
1 TTTTTTTTCTCTT
10674087 TTTTTTTTCT-TT
1 TTTTTTTTCTCTT
10674099 TTTTTTTT
1 TTTTTTTT
10674107 TTGACATGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTCTT
Found at i:10679907 original size:7 final size:7
Alignment explanation
Indices: 10679895--10679984 Score: 68
Period size: 6 Copynumber: 13.4 Consensus size: 7
10679885 TTTAAAATCT
*
10679895 TTAATTC
1 TTAATTA
10679902 TTAA-T-
1 TTAATTA
10679907 TTAATTAA
1 TTAATT-A
10679915 TTAATTA
1 TTAATTA
10679922 TTAATTA
1 TTAATTA
10679929 TTAATTTA
1 TTAA-TTA
** *
10679937 TTGTTTT
1 TTAATTA
10679944 TTACATTA
1 TTA-ATTA
10679952 TT-ATTA
1 TTAATTA
10679958 TT-ATTA
1 TTAATTA
10679964 TT-ATTA
1 TTAATTA
10679970 TT-ATTA
1 TTAATTA
10679976 TT-ATTA
1 TTAATTA
10679982 TTA
1 TTA
10679985 TTTAAAGTTG
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
5 4 0.06
6 32 0.45
7 20 0.28
8 15 0.21
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (7 bp):
TTAATTA
Found at i:10679956 original size:3 final size:3
Alignment explanation
Indices: 10679948--10679986 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10679938 TGTTTTTTAC
10679948 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10679987 TAAAGTTGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10680889 original size:16 final size:18
Alignment explanation
Indices: 10680870--10680912 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10680860 TGGTGCGTTG
10680870 TTTTTTCAT-CT-TTTCT
1 TTTTTTCATCCTCTTTCT
*
10680886 TTTTTTCCTCCTCTTTCT
1 TTTTTTCATCCTCTTTCT
10680904 TTTTCTTCA
1 TTTT-TTCA
10680913 CGGCTTTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 9 0.41
19 3 0.14
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTTCATCCTCTTTCT
Found at i:10681680 original size:8 final size:7
Alignment explanation
Indices: 10681630--10681685 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
10681620 GTTCTCTCTC
10681630 TTTTTTA
1 TTTTTTA
10681637 -TTTTTA
1 TTTTTTA
10681643 TTTTTTA
1 TTTTTTA
* *
10681650 GATTTTCA
1 -TTTTTTA
**
10681658 AATTTTA
1 TTTTTTA
10681665 TTTTTTA
1 TTTTTTA
10681672 TTTTATTA
1 TTTT-TTA
10681680 TTTTTT
1 TTTTTT
10681686 TTGCCAAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
6 6 0.15
7 22 0.55
8 12 0.30
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:10681726 original size:20 final size:22
Alignment explanation
Indices: 10681703--10681767 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
10681693 GCTTTTTCTA
10681703 ATTTTTTTTATT-TATT-TATC
1 ATTTTTTTTATTATATTATATC
*
10681723 ATTTATTGTTT-TTATATTATATT
1 ATTT-TT-TTTATTATATTATATC
10681746 ATTATTTTTTATTATATTATAT
1 ATT-TTTTTTATTATATTATAT
10681768 ATATACTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 10 0.26
23 19 0.50
24 1 0.03
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
ATTTTTTTTATTATATTATATC
Found at i:10681758 original size:18 final size:18
Alignment explanation
Indices: 10681710--10681765 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
10681700 CTAATTTTTT
*
10681710 TTATTTATTTATCAT-TTA
1 TTATTT-TTTATTATATTA
*
10681728 TTGTTTTTATATTATATTA
1 TTATTTTT-TATTATATTA
10681747 TTATTTTTTATTATATTA
1 TTATTTTTTATTATATTA
10681765 T
1 T
10681766 ATATATACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 2 0.06
18 21 0.64
19 10 0.30
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATTTTTTATTATATTA
Found at i:10681764 original size:23 final size:24
Alignment explanation
Indices: 10681706--10681767 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 24
10681696 TTTTCTAATT
10681706 TTTTTTATT-TATT-TATCATTTA
1 TTTTTTATTATATTATATCATTTA
* *
10681728 TTGTTT-TTATATTATATTA-TTA
1 TTTTTTATTATATTATATCATTTA
10681750 TTTTTTATTATATTATAT
1 TTTTTTATTATATTATAT
10681768 ATATACTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 2 0.06
22 17 0.50
23 15 0.44
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTTTATTATATTATATCATTTA
Found at i:10681780 original size:23 final size:23
Alignment explanation
Indices: 10681734--10681791 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
10681724 TTTATTGTTT
* *
10681734 TTATATTATATTATTATTTTTTA
1 TTATATTATATTATTACTTATTA
10681757 TTATATTATA-TATATACTTATTA
1 TTATATTATATTAT-TACTTATTA
10681780 TTATTATT-TATT
1 TTA-TATTATATT
10681792 TGATTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 3 0.10
23 22 0.73
24 5 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TTATATTATATTATTACTTATTA
Found at i:10684330 original size:1 final size:1
Alignment explanation
Indices: 10684324--10684348 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10684314 TCCTTTCGTT
10684324 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
10684349 GCCCATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:10685532 original size:16 final size:16
Alignment explanation
Indices: 10685511--10685547 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
10685501 NNNNATTTGA
10685511 ATGATAATGACGATTT
1 ATGATAATGACGATTT
*
10685527 ATGATAATGATGATTT
1 ATGATAATGACGATTT
10685543 ATGAT
1 ATGAT
10685548 GATTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.41
Consensus pattern (16 bp):
ATGATAATGACGATTT
Found at i:10687411 original size:19 final size:20
Alignment explanation
Indices: 10687380--10687417 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
10687370 TTAATTATTT
10687380 ATTTATATATTTAT-TTATC
1 ATTTATATATTTATATTATC
10687399 ATTTAT-TATTTTATATTAT
1 ATTTATATA-TTTATATTAT
10687418 ATTACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 11 0.65
20 4 0.24
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTATATATTTATATTATC
Found at i:10687457 original size:3 final size:3
Alignment explanation
Indices: 10687401--10687474 Score: 66
Period size: 3 Copynumber: 24.7 Consensus size: 3
10687391 TATTTATCAT
* *
10687401 TTA TTA TT- TTA -TA TTA -TA TTA CTA TTT TTCA TTA -TA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA T-TA
10687444 TATA CTTA TTA TTA TTA TTA TTA TTA TTA TT
1 T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TT
10687475 TATTCAATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
2 8 0.13
3 41 0.68
4 10 0.17
5 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:10687457 original size:23 final size:22
Alignment explanation
Indices: 10687402--10687474 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 22
10687392 ATTTATCATT
10687402 TATTATT-TTATATTATATTAC
1 TATTATTATTATATTATATTAC
*
10687423 TATTTTTCATTATATTATATATA-
1 TATTATT-ATTATATTATAT-TAC
*
10687446 TACTTATTATTATTATTATTATTAT
1 TA-TTATTATTA-TATTA-TATTAC
10687471 TATT
1 TATT
10687475 TATTCAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
21 6 0.14
23 17 0.40
24 15 0.35
25 5 0.12
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTATTATTATATTATATTAC
Found at i:10687815 original size:5 final size:5
Alignment explanation
Indices: 10687802--10687874 Score: 51
Period size: 5 Copynumber: 14.8 Consensus size: 5
10687792 AAGGAAAAAA
* * * * * *
10687802 TTTTT TTTTG TTTTG TTTT- CTTTG -TTTG GTTTG GTTTG GTTTG TTTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
* *
10687850 TTTTT TTTTCT TTTTG TTTTG TTTT
1 TTTTG TTTT-G TTTTG TTTTG TTTT
10687875 TTTCTCTTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
4 7 0.12
5 48 0.80
6 5 0.08
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:10687825 original size:14 final size:14
Alignment explanation
Indices: 10687803--10687877 Score: 82
Period size: 14 Copynumber: 5.5 Consensus size: 14
10687793 AGGAAAAAAT
10687803 TTTTTTTTGTTTTG
1 TTTTTTTTGTTTTG
* *
10687817 TTTTCTTTGTTTGG
1 TTTTTTTTGTTTTG
** *
10687831 TTTGGTTTGGTTTG
1 TTTTTTTTGTTTTG
10687845 TTTTTTTT-TTTT-
1 TTTTTTTTGTTTTG
*
10687857 TTCTTTTTGTTTTG
1 TTTTTTTTGTTTTG
10687871 TTTTTTT
1 TTTTTTT
10687878 CTCTTAAGAT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
12 7 0.15
13 7 0.15
14 34 0.71
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:10687867 original size:21 final size:21
Alignment explanation
Indices: 10687841--10687882 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10687831 TTTGGTTTGG
* *
10687841 TTTGTTTTTTTTTTTTTTCTT
1 TTTGTTTTGTTTTTTTCTCTT
10687862 TTTGTTTTGTTTTTTTCTCTT
1 TTTGTTTTGTTTTTTTCTCTT
10687883 AAGATAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (21 bp):
TTTGTTTTGTTTTTTTCTCTT
Found at i:10687879 original size:19 final size:18
Alignment explanation
Indices: 10687802--10687877 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 18
10687792 AAGGAAAAAA
10687802 TTTTTTTTTGTTTTGTTT
1 TTTTTTTTTGTTTTGTTT
* * *
10687820 TCTTTGTTTGGTTTGGTTT
1 T-TTTTTTTTGTTTTGTTT
* *
10687839 GGTTTGTTTT-TTTT-TTT
1 -TTTTTTTTTGTTTTGTTT
*
10687856 TTTCTTTTTGTTTTGTTT
1 TTTTTTTTTGTTTTGTTT
10687874 TTTT
1 TTTT
10687878 CTCTTAAGAT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
16 6 0.14
17 7 0.16
18 10 0.23
19 21 0.48
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTGTTTTGTTT
Found at i:10688386 original size:67 final size:67
Alignment explanation
Indices: 10688123--10688580 Score: 232
Period size: 67 Copynumber: 6.9 Consensus size: 67
10688113 ATTTTCATCA
* * * * *
10688123 GTGCCA-ATAATTTAAGCTT-AAATTTTCATTAGGTACCAGCTAAACT-GGACTTAAATTTTTTC
1 GTGCCAGATAAATTAGGCTTAAAATTTTCATT-GGTGCCAACTAAACTAGG-CTTAAATCTTTT-
10688185 A-TGAG
63 ATTG-G
* * * * * * * *
10688190 GTGCCAGCTAAATTAGG-TTTAAATCTT--TGGGTACCGACTAAACTAGCCTTAAA--TTTCATT
1 GTGCCAGATAAATTAGGCTTAAAATTTTCATTGGTGCCAACTAAACTAGGCTTAAATCTTTTATT
10688250 GG
66 GG
* * * ** * * * *
10688252 GTGCCAGTTAAGTT-GGACTTAAATCTTTTCA-TGAGTGTTAGA-TAAATTGGGCTT-AATATTG
1 GTGCCAGATAAATTAGG-CTTAAA-ATTTTCATTG-GTGCCA-ACTAAACTAGGCTTAAATCTTT
*
10688313 CATTGG
62 TATTGG
*
10688319 GTGCCAGATAAATTAGGCTTAAAATTTTCATTGGTGCCAACTAAACTAGGCTTAAATCTTTTTTT
1 GTGCCAGATAAATTAGGCTTAAAATTTTCATTGGTGCCAACTAAACTAGGCTTAAATCTTTTATT
10688384 GG
66 GG
* * * * * *
10688386 GTGCCA-ACTAAACTAGGCTTAAAATTTTTCATTGATGCTAGCTAAATTAGGCTTAAATATTTTC
1 GTGCCAGA-TAAATTAGGCTTAAAA-TTTTCATTGGTGCCAACTAAACTAGGCTTAAATCTTTT-
*
10688450 A-TGA
63 ATTGG
* * * * * * * * * *
10688454 CTGCCAGTTAAATTGGGCTTAAAA-CTTAATTAAGTACCAACTAAATTGGGCTTAAATCTTTCAT
1 GTGCCAGATAAATTAGGCTTAAAATTTTCATT-GGTGCCAACTAAACTAGGCTTAAATCTTTTAT
*
10688518 GGG
65 TGG
* * * * * *
10688521 GGGCTAGTTAAACTTA-GTTTAAAACTTT-ATTTGGAGCCAACTAAACTAGGCTTAAATCTT
1 GTGCCAGATAAA-TTAGGCTTAAAATTTTCA-TTGGTGCCAACTAAACTAGGCTTAAATCTT
10688581 CATTAATGAT
Statistics
Matches: 296, Mismatches: 69, Indels: 52
0.71 0.17 0.12
Matches are distributed among these distances:
61 2 0.01
62 14 0.05
63 9 0.03
64 3 0.01
65 23 0.08
66 40 0.14
67 130 0.44
68 75 0.25
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (67 bp):
GTGCCAGATAAATTAGGCTTAAAATTTTCATTGGTGCCAACTAAACTAGGCTTAAATCTTTTATT
GG
Found at i:10688394 original size:34 final size:33
Alignment explanation
Indices: 10688138--10688623 Score: 153
Period size: 34 Copynumber: 14.7 Consensus size: 33
10688128 AATAATTTAA
* * *
10688138 GCTTAAATTTTCATTAGGTACCAGCTAAACT-G
1 GCTTAAATTTTCATTGGGTGCCAACTAAACTAG
* *
10688170 GACTTAAATTTTTTCA-TGAGGTGCCAGCTAAATTAG
1 G-CTTAAA--TTTTCATTG-GGTGCCAACTAAACTAG
* * * *
10688206 GTTTAAA---TCTTTGGGTACCGACTAAACTAG
1 GCTTAAATTTTCATTGGGTGCCAACTAAACTAG
* * * * *
10688236 CCTTAAA-TTTCATTGGGTGCC-AGTTAAGTTG
1 GCTTAAATTTTCATTGGGTGCCAACTAAACTAG
* ** * *
10688267 GACTTAAATCTTTTCA-TGAGTGTTAGA-TAAATTGG
1 G-CTTAAA--TTTTCATTGGGTGCCA-ACTAAACTAG
* *
10688302 GCTT-AATATTGCATTGGGTGCCAGA-TAAATTAG
1 GCTTAAAT-TTTCATTGGGTGCCA-ACTAAACTAG
10688335 GCTTAAAATTTTCATT-GGTGCCAACTAAACTAG
1 GCTT-AAATTTTCATTGGGTGCCAACTAAACTAG
**
10688368 GCTTAAATCTTTTTTTGGGTGCCAACTAAACTAG
1 GCTTAAAT-TTTCATTGGGTGCCAACTAAACTAG
* * * *
10688402 GCTTAAAATTTTTCATT-GATGCTAGCTAAATTAG
1 GCTT-AAA-TTTTCATTGGGTGCCAACTAAACTAG
** ** * *
10688436 GCTTAAATATTTTCA-TGACTGCCAGTTAAATTGG
1 GCTT-AA-ATTTTCATTGGGTGCCAACTAAACTAG
** * ** * * *
10688470 GCTTAAAACTTAATTAAGTACCAACTAAATTGG
1 GCTTAAATTTTCATTGGGTGCCAACTAAACTAG
* * * **
10688503 GCTTAAATCTTTCATGGGGGGCTAGTTAAACTTA-
1 GCTTAAAT-TTTCATTGGGTGCCAACTAAAC-TAG
* * * *
10688537 GTTTAAAACTTT-ATTTGGAGCCAACTAAACTAG
1 GCTT-AAATTTTCATTGGGTGCCAACTAAACTAG
* ** ** ** *
10688570 GCTTAAATCTTCATT-AATGATAGTTAAACTGG
1 GCTTAAATTTTCATTGGGTGCCAACTAAACTAG
10688602 GCTTAAATTTTCATT-GGTGCCA
1 GCTTAAATTTTCATTGGGTGCCA
10688624 GATAAATCTG
Statistics
Matches: 334, Mismatches: 89, Indels: 62
0.69 0.18 0.13
Matches are distributed among these distances:
30 20 0.06
31 9 0.03
32 63 0.19
33 92 0.28
34 95 0.28
35 51 0.15
36 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (33 bp):
GCTTAAATTTTCATTGGGTGCCAACTAAACTAG
Found at i:10688443 original size:68 final size:67
Alignment explanation
Indices: 10688315--10688448 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 67
10688305 TAATATTGCA
* * *
10688315 TTGGGTGCCAGATAAATTAGGCTTAAAATTTTCATTGGTGCCAACTAAACTAGGCTTAAATCTTT
1 TTGGGTGCCAGATAAACTAGGCTTAAAATTTTCATTGATGCCAACTAAACTAGGCTTAAATATTT
10688380 TT
66 TT
* * *
10688382 TTGGGTGCCA-ACTAAACTAGGCTTAAAATTTTTCATTGATGCTAGCTAAATTAGGCTTAAATAT
1 TTGGGTGCCAGA-TAAACTAGGCTTAAAA-TTTTCATTGATGCCAACTAAACTAGGCTTAAATAT
10688446 TTT
64 TTT
10688449 CATGACTGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
66 1 0.02
67 25 0.42
68 33 0.56
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (67 bp):
TTGGGTGCCAGATAAACTAGGCTTAAAATTTTCATTGATGCCAACTAAACTAGGCTTAAATATTT
TT
Found at i:10688459 original size:68 final size:67
Alignment explanation
Indices: 10688327--10688477 Score: 176
Period size: 68 Copynumber: 2.2 Consensus size: 67
10688317 GGGTGCCAGA
* * ** **
10688327 TAAATTAGGCTTAAAATTTTCATTGGTGCCAACTAAACTAGGCTTAAATCTTTTTTTGGGTGCCA
1 TAAATTAGGCTTAAAATTTTCATTGATGCCAACTAAACTAGGCTTAAATATTTTCATGACTGCCA
10688392 AC
66 AC
* * * *
10688394 TAAACTAGGCTTAAAATTTTTCATTGATGCTAGCTAAATTAGGCTTAAATATTTTCATGACTGCC
1 TAAATTAGGCTTAAAA-TTTTCATTGATGCCAACTAAACTAGGCTTAAATATTTTCATGACTGCC
**
10688459 AGT
65 AAC
*
10688462 TAAATTGGGCTTAAAA
1 TAAATTAGGCTTAAAA
10688478 CTTAATTAAG
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
67 15 0.22
68 54 0.78
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (67 bp):
TAAATTAGGCTTAAAATTTTCATTGATGCCAACTAAACTAGGCTTAAATATTTTCATGACTGCCA
AC
Found at i:10689534 original size:9 final size:8
Alignment explanation
Indices: 10689520--10689596 Score: 57
Period size: 9 Copynumber: 8.9 Consensus size: 8
10689510 CACCCATTCA
10689520 TTTCTTTAT
1 TTTCTTT-T
10689529 TTTCTTTT
1 TTTCTTTT
10689537 TTCTCTTTT
1 TT-TCTTTT
**
10689546 TCACTTTT
1 TTTCTTTT
*
10689554 TCTTCTTTC
1 T-TTCTTTT
10689563 TTTCAATTTT
1 TTTC--TTTT
10689573 TTTCTTTT
1 TTTCTTTT
10689581 TCTT-TCTTT
1 T-TTCT-TTT
10689590 TTTCTTT
1 TTTCTTT
10689597 CCTGTTCATT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
8 22 0.40
9 26 0.47
10 7 0.13
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTCTTTT
Found at i:10689566 original size:19 final size:18
Alignment explanation
Indices: 10689533--10689579 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
10689523 CTTTATTTTC
*
10689533 TTTTTTCTCTT-TTTCACT
1 TTTTTTCT-TTCTTTCAAT
10689551 TTTTCTTCTTTCTTTCAAT
1 TTTT-TTCTTTCTTTCAAT
10689570 TTTTTTCTTT
1 TTTTTTCTTT
10689580 TTCTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTCTTTCTTTCAAT
Found at i:10689593 original size:11 final size:11
Alignment explanation
Indices: 10689552--10689597 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
10689542 TTTTTCACTT
*
10689552 TTTCTTCTTTC
1 TTTCTTTTTTC
**
10689563 TTTCAATTTT-
1 TTTCTTTTTTC
10689573 TTTC-TTTTTC
1 TTTCTTTTTTC
10689583 TTTCTTTTTTC
1 TTTCTTTTTTC
10689594 TTTC
1 TTTC
10689598 CTGTTCATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 4 0.14
10 8 0.28
11 17 0.59
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:10695953 original size:7 final size:7
Alignment explanation
Indices: 10695941--10696023 Score: 61
Period size: 6 Copynumber: 12.3 Consensus size: 7
10695931 TTTAAAATCT
*
10695941 TTAATTC
1 TTAATTA
10695948 TTAA-T-
1 TTAATTA
10695953 TTAATTAA
1 TTAATT-A
10695961 TTAATTA
1 TTAATTA
10695968 TTAATTA
1 TTAATTA
10695975 TTAATTTA
1 TTAA-TTA
** *
10695983 TTGTTTT
1 TTAATTA
10695990 TTACATTA
1 TTA-ATTA
10695998 TT-ATTA
1 TTAATTA
10696004 TT-ATTA
1 TTAATTA
10696010 TT-ATTA
1 TTAATTA
10696016 TT-ATTA
1 TTAATTA
10696022 TT
1 TT
10696024 TAAAGTTGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
5 4 0.06
6 26 0.40
7 20 0.31
8 15 0.23
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (7 bp):
TTAATTA
Found at i:10696002 original size:3 final size:3
Alignment explanation
Indices: 10695994--10696023 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10695984 TGTTTTTTAC
10695994 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10696024 TAAAGTTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10696880 original size:10 final size:10
Alignment explanation
Indices: 10696865--10696899 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10696855 TGCATCAATG
10696865 TTCTTTCTTT
1 TTCTTTCTTT
*
10696875 TTCTTTGTTT
1 TTCTTTCTTT
10696885 TTCTTTTCTTT
1 TTC-TTTCTTT
10696896 TTCT
1 TTCT
10696900 GGTGCGTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:10696930 original size:18 final size:18
Alignment explanation
Indices: 10696909--10696948 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10696899 TGGTGCGTTG
*
10696909 TTTTTTCAT-CTTTTTCT
1 TTTTTTCATCCTCTTTCT
*
10696926 TTTTTTCCTCCTCTTTCT
1 TTTTTTCATCCTCTTTCT
10696944 TTTTT
1 TTTTT
10696949 CTTCACGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTCATCCTCTTTCT
Found at i:10697691 original size:6 final size:7
Alignment explanation
Indices: 10697674--10697730 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
10697664 TTCTCTCTCT
10697674 TTTTTTA
1 TTTTTTA
10697681 TTTTTTA
1 TTTTTTA
10697688 TTTTTTA
1 TTTTTTA
* *
10697695 GATTTTCA
1 -TTTTTTA
**
10697703 AATTTTA
1 TTTTTTA
10697710 TTTTTTA
1 TTTTTTA
10697717 TTTTATTA
1 TTTT-TTA
10697725 TTTTTT
1 TTTTTT
10697731 TTGCCAAGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
7 30 0.71
8 12 0.29
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:10697771 original size:20 final size:22
Alignment explanation
Indices: 10697748--10697812 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
10697738 GCTTTTTCTA
10697748 ATTTTTTTTATT-TATT-TATC
1 ATTTTTTTTATTATATTATATC
*
10697768 ATTTATTGTTT-TTATATTATATT
1 ATTT-TT-TTTATTATATTATATC
10697791 ATTATTTTTTATTATATTATAT
1 ATT-TTTTTTATTATATTATAT
10697813 ATATACTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 10 0.26
23 19 0.50
24 1 0.03
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
ATTTTTTTTATTATATTATATC
Found at i:10697803 original size:18 final size:18
Alignment explanation
Indices: 10697755--10697810 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
10697745 CTAATTTTTT
*
10697755 TTATTTATTTATCAT-TTA
1 TTATTT-TTTATTATATTA
*
10697773 TTGTTTTTATATTATATTA
1 TTATTTTT-TATTATATTA
10697792 TTATTTTTTATTATATTA
1 TTATTTTTTATTATATTA
10697810 T
1 T
10697811 ATATATACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 2 0.06
18 21 0.64
19 10 0.30
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATTTTTTATTATATTA
Found at i:10697809 original size:23 final size:24
Alignment explanation
Indices: 10697751--10697812 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 24
10697741 TTTTCTAATT
10697751 TTTTTTATT-TATT-TATCATTTA
1 TTTTTTATTATATTATATCATTTA
* *
10697773 TTGTTT-TTATATTATATTA-TTA
1 TTTTTTATTATATTATATCATTTA
10697795 TTTTTTATTATATTATAT
1 TTTTTTATTATATTATAT
10697813 ATATACTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 2 0.06
22 17 0.50
23 15 0.44
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTTTATTATATTATATCATTTA
Found at i:10697825 original size:23 final size:23
Alignment explanation
Indices: 10697779--10697836 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
10697769 TTTATTGTTT
* *
10697779 TTATATTATATTATTATTTTTTA
1 TTATATTATATTATTACTTATTA
10697802 TTATATTATA-TATATACTTATTA
1 TTATATTATATTAT-TACTTATTA
10697825 TTATTATT-TATT
1 TTA-TATTATATT
10697837 TGATTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 3 0.10
23 22 0.73
24 5 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TTATATTATATTATTACTTATTA
Found at i:10699167 original size:33 final size:34
Alignment explanation
Indices: 10699075--10699167 Score: 88
Period size: 33 Copynumber: 2.8 Consensus size: 34
10699065 TTTATTTATT
* *
10699075 ATGATATTTTGCATCA-ATTTTATTTATATATTTGT
1 ATGATATGTTGCAT-AGA-TTTATTTATATATTTGC
*
10699110 ATGATA-G--GCATGGATTATAATTTATATATTTGC
1 ATGATATGTTGCATAGATT-T-ATTTATATATTTGC
10699143 ATGATATGTTGCATAGATTT-TTTAT
1 ATGATATGTTGCATAGATTTATTTAT
10699168 TTGCATGATG
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
31 2 0.04
32 6 0.12
33 24 0.50
34 1 0.02
35 7 0.15
36 8 0.17
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (34 bp):
ATGATATGTTGCATAGATTTATTTATATATTTGC
Found at i:10699193 original size:29 final size:29
Alignment explanation
Indices: 10699136--10699193 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
10699126 ATAATTTATA
*
10699136 TATTTGCATGATATGTTGCATAGATTTTT
1 TATTTGCATGATATGTTGCATAGACTTTT
* *
10699165 TATTTGCATGATGTTTTTGCATA-ACTTTT
1 TATTTGCATGAT-ATGTTGCATAGACTTTT
10699194 GCATGTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (29 bp):
TATTTGCATGATATGTTGCATAGACTTTT
Found at i:10706399 original size:29 final size:29
Alignment explanation
Indices: 10706337--10706392 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
10706327 ATTATTACAA
10706337 AATTTAAAATTTAATCCTTAAACTATTAT
1 AATTTAAAATTTAATCCTTAAACTATTAT
* * *
10706366 TATTTTAAATTTAATCCTTATACTATT
1 AATTTAAAATTTAATCCTTAAACTATT
10706393 TGAATTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (29 bp):
AATTTAAAATTTAATCCTTAAACTATTAT
Found at i:10706679 original size:18 final size:19
Alignment explanation
Indices: 10706654--10706705 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
10706644 TCCTTTAATA
10706654 TAAAAAATATTTTA-ATTT
1 TAAAAAATATTTTAGATTT
* *
10706672 TTAAAAATTTTTTAGATTT
1 TAAAAAATATTTTAGATTT
10706691 TAAAAAATATTTTAG
1 TAAAAAATATTTTAG
10706706 TTCCTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (19 bp):
TAAAAAATATTTTAGATTT
Found at i:10707798 original size:19 final size:19
Alignment explanation
Indices: 10707774--10707824 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
10707764 TGCAAACTTT
10707774 AAACCCCAAACCACCATGC
1 AAACCCCAAACCACCATGC
*
10707793 AAACCCTAAACCACCATGC
1 AAACCCCAAACCACCATGC
*
10707812 AAGCCCGCAAACC
1 AAACCC-CAAACC
10707825 TAAACCCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.41, C:0.45, G:0.08, T:0.06
Consensus pattern (19 bp):
AAACCCCAAACCACCATGC
Found at i:10707836 original size:6 final size:6
Alignment explanation
Indices: 10707827--10707912 Score: 55
Period size: 6 Copynumber: 13.7 Consensus size: 6
10707817 CGCAAACCTA
** * * *
10707827 AACCCT AACCCT AAACCCT AAACCAA AATCAT AAACCT AACCCT AACCCT
1 AACCCT AACCCT -AACCCT -AACCCT AACCCT AACCCT AACCCT AACCCT
** * *
10707877 ATATGCT AAACCT AACCCT AAACCCT AAACCT AACC
1 A-ACCCT AACCCT AACCCT -AACCCT AACCCT AACC
10707913 TTAAACCTTA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
6 42 0.67
7 21 0.33
ACGTcount: A:0.43, C:0.38, G:0.01, T:0.17
Consensus pattern (6 bp):
AACCCT
Found at i:10707843 original size:7 final size:7
Alignment explanation
Indices: 10707823--10708171 Score: 190
Period size: 7 Copynumber: 53.1 Consensus size: 7
10707813 AGCCCGCAAA
10707823 CCTAAAC
1 CCTAAAC
10707830 CCT-AAC
1 CCTAAAC
10707836 CCTAAAC
1 CCTAAAC
10707843 CCTAAA-
1 CCTAAAC
* *
10707849 CCAAAAT
1 CCTAAAC
*
10707856 CATAAA-
1 CCTAAAC
10707862 CCT-AAC
1 CCTAAAC
10707868 CCT-AAC
1 CCTAAAC
* *
10707874 CCTATAT
1 CCTAAAC
*
10707881 GCTAAA-
1 CCTAAAC
10707887 CCT-AAC
1 CCTAAAC
10707893 CCTAAAC
1 CCTAAAC
10707900 CCTAAA-
1 CCTAAAC
10707906 CCT-AAC
1 CCTAAAC
*
10707912 CTTAAAC
1 CCTAAAC
* *
10707919 CTTAAAA
1 CCTAAAC
*
10707926 CTTAAA-
1 CCTAAAC
* *
10707932 ACT-AAT
1 CCTAAAC
*
10707938 CCTAGAC
1 CCTAAAC
*
10707945 CTTAAAC
1 CCTAAAC
*
10707952 CTTAAAC
1 CCTAAAC
**
10707959 CCTAGGC
1 CCTAAAC
10707966 CCTAAAC
1 CCTAAAC
**
10707973 TTTAAAC
1 CCTAAAC
*
10707980 CTTAAAC
1 CCTAAAC
* *
10707987 CTTAGAC
1 CCTAAAC
10707994 CCTAAA-
1 CCTAAAC
* *
10708000 ACTAAAT
1 CCTAAAC
10708007 CCTAAA-
1 CCTAAAC
*
10708013 CCTAGAC
1 CCTAAAC
*
10708020 CTTAAAC
1 CCTAAAC
10708027 CCTAAAC
1 CCTAAAC
10708034 CCTAAA-
1 CCTAAAC
10708040 CC-AAAC
1 CCTAAAC
* *
10708046 CTTGAAC
1 CCTAAAC
10708053 CCTAAAC
1 CCTAAAC
*
10708060 CATAAAAC
1 CCT-AAAC
*
10708068 CTTAAAC
1 CCTAAAC
*
10708075 CTTAAAC
1 CCTAAAC
10708082 CCTAAAC
1 CCTAAAC
*
10708089 CCCAAA-
1 CCTAAAC
*
10708095 -CTTAAC
1 CCTAAAC
10708101 CCT-AA-
1 CCTAAAC
10708106 CCTAAAAC
1 CCT-AAAC
*
10708114 TCT-AAC
1 CCTAAAC
10708120 CCTAAAC
1 CCTAAAC
10708127 CCT-AAC
1 CCTAAAC
10708133 CCT-AAC
1 CCTAAAC
10708139 CCT-AAC
1 CCTAAAC
10708145 CCTAAA-
1 CCTAAAC
10708151 CCT-AAC
1 CCTAAAC
*
10708157 TCTAAAC
1 CCTAAAC
10708164 CCTAAAC
1 CCTAAAC
10708171 C
1 C
10708172 TCAATCCAAG
Statistics
Matches: 269, Mismatches: 49, Indels: 48
0.73 0.13 0.13
Matches are distributed among these distances:
5 19 0.07
6 78 0.29
7 164 0.61
8 8 0.03
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:10707904 original size:19 final size:19
Alignment explanation
Indices: 10707823--10708172 Score: 183
Period size: 19 Copynumber: 18.5 Consensus size: 19
10707813 AGCCCGCAAA
10707823 CCTAAACCCTAACCCTAAAC
1 CCTAAA-CCTAACCCTAAAC
* * *
10707843 CCTAAACCAAAATCATAAA-
1 CCTAAACC-TAACCCTAAAC
* * *
10707862 CCTAACCCTAACCCTATAT
1 CCTAAACCTAACCCTAAAC
*
10707881 GCTAAACCTAACCCTAAAC
1 CCTAAACCTAACCCTAAAC
*
10707900 CCTAAACCTAACCTTAAA-
1 CCTAAACCTAACCCTAAAC
* *
10707918 CCTTAA---AA-CTTAAA-
1 CCTAAACCTAACCCTAAAC
* * *
10707932 ACTAATCCTAGACCTTAAAC
1 CCTAAACCTA-ACCCTAAAC
* *
10707952 CTTAAACCCTAGGCCCTAAAC
1 CCTAAA-CCTA-ACCCTAAAC
** * *
10707973 TTTAAACCTTAAACCTTAGAC
1 CCTAAACC-T-AACCCTAAAC
* *
10707994 CCTAAAACTAAATCCTAAA-
1 CCTAAACCT-AACCCTAAAC
*
10708013 CCTAGACCTTAAACCCTAAAC
1 CCTAAACC-T-AACCCTAAAC
* * *
10708034 CCTAAACCAAACCTTGAAC
1 CCTAAACCTAACCCTAAAC
10708053 CCTAAACC--A---TAAAAC
1 CCTAAACCTAACCCT-AAAC
*
10708068 CTTAAACCTTAAACCCTAAAC
1 CCTAAACC-T-AACCCTAAAC
* *
10708089 CCCAAACTTAACCCT-AA-
1 CCTAAACCTAACCCTAAAC
10708106 CCTAAAACTCTAACCCTAAAC
1 CCT-AAAC-CTAACCCTAAAC
*
10708127 CCTAACCCTAACCCT-AAC
1 CCTAAACCTAACCCTAAAC
*
10708145 CCTAAACCTAACTCTAAAC
1 CCTAAACCTAACCCTAAAC
10708164 CCTAAACCT
1 CCTAAACCT
10708173 CAATCCAAGC
Statistics
Matches: 254, Mismatches: 50, Indels: 53
0.71 0.14 0.15
Matches are distributed among these distances:
14 10 0.04
15 12 0.05
17 4 0.02
18 34 0.13
19 102 0.40
20 42 0.17
21 48 0.19
22 2 0.01
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.21
Consensus pattern (19 bp):
CCTAAACCTAACCCTAAAC
Found at i:10708000 original size:68 final size:68
Alignment explanation
Indices: 10707882--10708040 Score: 202
Period size: 68 Copynumber: 2.4 Consensus size: 68
10707872 ACCCTATATG
* *
10707882 CTAAACC-T-AACCCTAAACCCTAAAC-CT-AACCTTAAACCTTAAAACTTAAAACT-AATCCTA
1 CTAAACCTTAAACCCTAAACCCTAAACTTTAAACCTTAAACCTTAAAACCTAAAACTAAATCCTA
*
10707942 GAC
66 AAC
** * *
10707945 CTTAAACCTTAAACCCTAGGCCCTAAACTTTAAACCTTAAACCTTAGACCCTAAAACTAAATCCT
1 C-TAAACCTTAAACCCTAAACCCTAAACTTTAAACCTTAAACCTTAAAACCTAAAACTAAATCCT
10708010 AAAC
65 AAAC
*
10708014 CTAGACCTTAAACCCTAAACCCTAAAC
1 CTAAACCTTAAACCCTAAACCCTAAAC
10708041 CAAACCTTGA
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
63 1 0.01
64 6 0.08
65 1 0.01
66 15 0.19
67 1 0.01
68 46 0.57
69 10 0.12
ACGTcount: A:0.42, C:0.32, G:0.03, T:0.23
Consensus pattern (68 bp):
CTAAACCTTAAACCCTAAACCCTAAACTTTAAACCTTAAACCTTAAAACCTAAAACTAAATCCTA
AAC
Found at i:10708013 original size:27 final size:27
Alignment explanation
Indices: 10707894--10708172 Score: 125
Period size: 26 Copynumber: 10.6 Consensus size: 27
10707884 AAACCTAACC
*
10707894 CTAAACCCTAAACCTA-ACCTTAAAC-
1 CTAAACCCTAAACCTAGACCCTAAACA
* * * * *
10707919 CTTAAAACTTAAAACTA-ATCCTAGAC-
1 C-TAAACCCTAAACCTAGACCCTAAACA
* * *
10707945 CTTAAACCTTAAACCCTAGGCCCTAAACT
1 C-TAAACCCTAAA-CCTAGACCCTAAACA
* *
10707974 TTAAACCTTAAACCTTAGACCCTAAA-A
1 CTAAACCCTAAACC-TAGACCCTAAACA
* * *
10708001 CTAAATCCTAAACCTAGACCTTAAACC
1 CTAAACCCTAAACCTAGACCCTAAACA
* * * *
10708028 CTAAACCCTAAACC-AAACCTTGAACC
1 CTAAACCCTAAACCTAGACCCTAAACA
* * * *
10708054 CTAAACCATAAAACCTTAAACCTTAAACC
1 CTAAACCCT-AAACC-TAGACCCTAAACA
* *
10708083 CTAAACCCCAAACTTA-ACCCT-AAC-
1 CTAAACCCTAAACCTAGACCCTAAACA
* * * *
10708107 CTAAAACTCTAACCCTAAACCCT-AACC
1 CT-AAACCCTAAACCTAGACCCTAAACA
* * *
10708134 CT-AACCCTAACCCTA-AACCT-AACT
1 CTAAACCCTAAACCTAGACCCTAAACA
10708158 CTAAACCCTAAACCT
1 CTAAACCCTAAACCT
10708173 CAATCCAAGC
Statistics
Matches: 205, Mismatches: 36, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
24 11 0.05
25 37 0.18
26 70 0.34
27 38 0.19
28 31 0.15
29 18 0.09
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.21
Consensus pattern (27 bp):
CTAAACCCTAAACCTAGACCCTAAACA
Found at i:10708017 original size:75 final size:73
Alignment explanation
Indices: 10707892--10708037 Score: 195
Period size: 75 Copynumber: 2.0 Consensus size: 73
10707882 CTAAACCTAA
* * *
10707892 CCCTAAACCCTAAACCTAACCTTAAACCTTAAAACTTAAAACTAATCCTAGACCTTAAACCTTAA
1 CCCTAAACCCTAAACCTAACCTTAAACCCTAAAACTTAAAACTAAACCTAGACCTTAAACCCTAA
10707957 ACCCTAGG
66 ACCCTAGG
** * *
10707965 CCCTAAACTTTAAACCTTAAACCTTAGACCCTAAAAC-TAAATCCTAAACCTAGACCTTAAACCC
1 CCCTAAACCCTAAACC-T-AACCTTAAACCCTAAAACTTAAA-ACTAAACCTAGACCTTAAACCC
10708029 TAAACCCTA
63 TAAACCCTA
10708038 AACCAAACCT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
73 14 0.22
74 5 0.08
75 44 0.70
ACGTcount: A:0.41, C:0.32, G:0.03, T:0.23
Consensus pattern (73 bp):
CCCTAAACCCTAAACCTAACCTTAAACCCTAAAACTTAAAACTAAACCTAGACCTTAAACCCTAA
ACCCTAGG
Found at i:10708073 original size:15 final size:14
Alignment explanation
Indices: 10707820--10708172 Score: 91
Period size: 13 Copynumber: 26.4 Consensus size: 14
10707810 GCAAGCCCGC
10707820 AAACCT-AAACCCT
1 AAACCTAAAACCCT
*
10707833 AACCCT-AAACCCT
1 AAACCTAAAACCCT
* *
10707846 AAACC-AAAATCAT
1 AAACCTAAAACCCT
10707859 AAACCT--AACCCT
1 AAACCTAAAACCCT
* * **
10707871 AACCCT-ATATGCT
1 AAACCTAAAACCCT
10707884 AAACCT--AACCCT
1 AAACCTAAAACCCT
10707896 AAACCCT-AAA-CCT
1 AAA-CCTAAAACCCT
* *
10707909 -AACCTTAAACCTT
1 AAACCTAAAACCCT
*
10707922 AAAACTTAAAA--CT
1 -AAACCTAAAACCCT
* * *
10707935 AATCCT-AGACCTT
1 AAACCTAAAACCCT
*
10707948 AAACCTTAAACCCT
1 AAACCTAAAACCCT
** **
10707962 AGGCCCT-AAACTTT
1 A-AACCTAAAACCCT
* *
10707976 AAACCTTAAACCTT
1 AAACCTAAAACCCT
*
10707990 AGACCCTAAAA--CT
1 A-AACCTAAAACCCT
10708003 AAATCCT-AAA-CCT
1 AAA-CCTAAAACCCT
* *
10708016 AGACCTTAAACCCT
1 AAACCTAAAACCCT
10708030 AAACCCT-AAA-CC-
1 AAA-CCTAAAACCCT
**
10708042 AAACCTTGAACCCT
1 AAACCTAAAACCCT
*
10708056 AAACCATAAAACCTT
1 AAACC-TAAAACCCT
*
10708071 AAACCTTAAACCCT
1 AAACCTAAAACCCT
*
10708085 AAACCCCAAACTTAACCCT
1 AAA--CCTAA---AACCCT
*
10708104 -AACCTAAAACTCT
1 AAACCTAAAACCCT
*
10708117 AACCCT-AAACCCT
1 AAACCTAAAACCCT
*
10708130 AACCCT--AACCCT
1 AAACCTAAAACCCT
*
10708142 AACCCT-AAA-CCT
1 AAACCTAAAACCCT
10708154 -AACTCT-AAACCCT
1 AAAC-CTAAAACCCT
10708167 AAACCT
1 AAACCT
10708173 CAATCCAAGC
Statistics
Matches: 255, Mismatches: 51, Indels: 68
0.68 0.14 0.18
Matches are distributed among these distances:
11 10 0.04
12 56 0.22
13 92 0.36
14 51 0.20
15 31 0.12
16 7 0.03
18 2 0.01
19 6 0.02
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.20
Consensus pattern (14 bp):
AAACCTAAAACCCT
Found at i:10708081 original size:68 final size:66
Alignment explanation
Indices: 10707909--10708089 Score: 184
Period size: 68 Copynumber: 2.7 Consensus size: 66
10707899 CCCTAAACCT
* * * * **
10707909 AACCTTAAACCTTAAAACTTAAAACTAATCCTAGACCTTAAACCTTAAACCCTAGGCCCTAAACT
1 AACCTTAAACCTTAAACCATAAAACTAAACCTAAACCTTAAACCTTAAACCCTAAACCCTAAAC-
*
10707974 TTA
65 -CA
* * *
10707977 AACCTTAAACCTTAGACCCTAAAACTAAATCCTAAACC-TAGACCTTAAACCCTAAACCCTAAAC
1 AACCTTAAACCTTAAACCATAAAACTAAA-CCTAAACCTTAAACCTTAAACCCTAAACCCTAAAC
10708041 CA
65 CA
* * *
10708043 AACCTTGAACCCTAAACCATAAAACCTTAAACCTTAAACCCTAAACC
1 AACCTTAAACCTTAAACCATAAAA-C-TAAACC-TAAACCTTAAACC
10708090 CCAAACTTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
66 21 0.22
67 3 0.03
68 58 0.62
69 12 0.13
ACGTcount: A:0.43, C:0.31, G:0.03, T:0.22
Consensus pattern (66 bp):
AACCTTAAACCTTAAACCATAAAACTAAACCTAAACCTTAAACCTTAAACCCTAAACCCTAAACC
A
Done.