Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 116 of 126
Found at i:22915438 original size:24 final size:24
Alignment explanation
Indices: 22915399--22915447 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 24
22915389 TTTTATTTTT
*
22915399 TTATATAAATTTATTA-AT-TATA
1 TTATATAAATTAATTATATATATA
22915421 TTATATACAATTGAATTATATATATA
1 TTATATA-AATT-AATTATATATATA
22915447 T
1 T
22915448 AATTGGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 4 0.18
25 2 0.09
26 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TTATATAAATTAATTATATATATA
Found at i:22921717 original size:19 final size:19
Alignment explanation
Indices: 22921685--22921725 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22921675 TTGAATTTTT
*
22921685 TTAAAATAATAATTATATA
1 TTAAAATAATAATTACATA
22921704 TTAAATATAA-AATTACATA
1 TTAAA-ATAATAATTACATA
22921723 TTA
1 TTA
22921726 TACAAATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAAATAATAATTACATA
Found at i:22922865 original size:20 final size:20
Alignment explanation
Indices: 22922840--22922894 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
22922830 TTTTTTTTTA
22922840 TTTTTTGTTTTTATTATGAT
1 TTTTTTGTTTTTATTATGAT
*
22922860 TTTTTT-ATTTTATGT-TGAT
1 TTTTTTGTTTTTAT-TATGAT
22922879 TTTTTTGTTTTTATTA
1 TTTTTTGTTTTTATTA
22922895 AAAATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (20 bp):
TTTTTTGTTTTTATTATGAT
Found at i:22923100 original size:15 final size:14
Alignment explanation
Indices: 22923082--22923115 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
22923072 ATAATATTTG
*
22923082 CTAAAAACTAATAAA
1 CTAAAAAATAA-AAA
22923097 CTAAAAAATAAAAA
1 CTAAAAAATAAAAA
22923111 CTAAA
1 CTAAA
22923116 GAATTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (14 bp):
CTAAAAAATAAAAA
Found at i:22923108 original size:7 final size:7
Alignment explanation
Indices: 22923082--22923115 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
22923072 ATAATATTTG
22923082 CTAAAAA
1 CTAAAAA
22923089 CTAATAAA
1 CTAA-AAA
22923097 CTAAAAA
1 CTAAAAA
*
22923104 ATAAAAA
1 CTAAAAA
22923111 CTAAA
1 CTAAA
22923116 GAATTGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAAAA
Found at i:22923736 original size:21 final size:21
Alignment explanation
Indices: 22923710--22923760 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 21
22923700 TTAAATATAA
*
22923710 AAAAGATTATATCATCAAAAT
1 AAAAGATTATATAATCAAAAT
22923731 AAAAGA--AT-TAATCAAAAT
1 AAAAGATTATATAATCAAAAT
22923749 AAAAGAATTATA
1 AAAAG-ATTATA
22923761 CATATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 14 0.56
19 3 0.12
21 8 0.32
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.25
Consensus pattern (21 bp):
AAAAGATTATATAATCAAAAT
Found at i:22923744 original size:18 final size:18
Alignment explanation
Indices: 22923723--22923758 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22923713 AGATTATATC
22923723 ATCAAAATAAAAGAATTA
1 ATCAAAATAAAAGAATTA
22923741 ATCAAAATAAAAGAATTA
1 ATCAAAATAAAAGAATTA
22923759 TACATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.22
Consensus pattern (18 bp):
ATCAAAATAAAAGAATTA
Found at i:22931957 original size:25 final size:26
Alignment explanation
Indices: 22931909--22931960 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
22931899 ACTCTCCCTT
* **
22931909 CTTTCTTTTCTTTCTTTTTTTTTTGG
1 CTTTCTTTTCTTTCTCTTGGTTTTGG
22931935 CTTT-TTTTCTTTCTCTTGGTTTTGG
1 CTTTCTTTTCTTTCTCTTGGTTTTGG
22931960 C
1 C
22931961 ACCACCTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.00, C:0.17, G:0.12, T:0.71
Consensus pattern (26 bp):
CTTTCTTTTCTTTCTCTTGGTTTTGG
Found at i:22937579 original size:16 final size:16
Alignment explanation
Indices: 22937560--22937594 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22937550 TATATATAAA
22937560 TATATATGTATGTATG
1 TATATATGTATGTATG
22937576 TATATATGTATGTATG
1 TATATATGTATGTATG
22937592 TAT
1 TAT
22937595 GTATATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (16 bp):
TATATATGTATGTATG
Found at i:22937583 original size:8 final size:8
Alignment explanation
Indices: 22937543--22937594 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
22937533 CATGTGAGGG
22937543 GTATATAT
1 GTATATAT
* *
22937551 ATATATAA
1 GTATATAT
*
22937559 ATATATAT
1 GTATATAT
*
22937567 GTATGTAT
1 GTATATAT
22937575 GTATATAT
1 GTATATAT
*
22937583 GTATGTAT
1 GTATATAT
22937591 GTAT
1 GTAT
22937595 GTATATTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (8 bp):
GTATATAT
Found at i:22937587 original size:4 final size:4
Alignment explanation
Indices: 22937564--22937598 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
22937554 TATAAATATA
*
22937564 TATG TATG TATG TATA TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
22937599 ATTGAAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:22939724 original size:16 final size:16
Alignment explanation
Indices: 22939700--22939730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22939690 TAAACAAAAC
22939700 AAAAGGAAAAGAAGCT
1 AAAAGGAAAAGAAGCT
*
22939716 AAAATGAAAAGAAGC
1 AAAAGGAAAAGAAGC
22939731 GTGAAGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.23, T:0.06
Consensus pattern (16 bp):
AAAAGGAAAAGAAGCT
Found at i:22945046 original size:15 final size:15
Alignment explanation
Indices: 22945012--22945063 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
22945002 TTTTGATTTT
*
22945012 TTTTATTTTATT-TA
1 TTTTATTTTTTTGTA
22945026 -TTTATTTTCTTTGT-
1 TTTTATTTT-TTTGTA
22945040 TTTTATTTTTTTGTA
1 TTTTATTTTTTTGTA
22945055 TTTT-TTTTT
1 TTTTATTTTT
22945064 AATTTATGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 8 0.24
14 12 0.36
15 13 0.39
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.83
Consensus pattern (15 bp):
TTTTATTTTTTTGTA
Found at i:22945056 original size:10 final size:9
Alignment explanation
Indices: 22945002--22945062 Score: 68
Period size: 9 Copynumber: 6.6 Consensus size: 9
22944992 AACTAAGTTG
*
22945002 TTTTGATTT
1 TTTTTATTT
22945011 TTTTTATTT
1 TTTTTATTT
*
22945020 TATTTATTT
1 TTTTTATTT
* *
22945029 ATTTTCTTT
1 TTTTTATTT
22945038 GTTTTTATTT
1 -TTTTTATTT
22945048 TTTTGTATTT
1 TTTT-TATTT
22945058 TTTTT
1 TTTTT
22945063 TAATTTATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
9 27 0.63
10 16 0.37
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (9 bp):
TTTTTATTT
Found at i:22945069 original size:25 final size:24
Alignment explanation
Indices: 22945008--22945086 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
22944998 GTTGTTTTGA
*
22945008 TTTTTTTTATTT-TATTTATT-TAT
1 TTTTTTTTATTTAT-TTTTTTGTAT
22945031 TTTCTTTGTT-TTTATTTTTTTGTAT
1 TTT-TTT-TTATTTATTTTTTTGTAT
* *
22945056 TTTTTTTTAATTTATGTGTTTGTAT
1 TTTTTTTT-ATTTATTTTTTTGTAT
22945081 TTTTTT
1 TTTTTT
22945087 GCATTAATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
23 5 0.11
24 14 0.30
25 28 0.60
ACGTcount: A:0.13, C:0.01, G:0.06, T:0.80
Consensus pattern (24 bp):
TTTTTTTTATTTATTTTTTTGTAT
Found at i:22945076 original size:35 final size:38
Alignment explanation
Indices: 22945000--22945087 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 38
22944990 TCAACTAAGT
* * * *
22945000 TGTTTTGATTTTTTT-TATTTTATTTATTTATTTTCTT
1 TGTTTTTATTTTTTTGTATTTTATTTATTTAATTTATG
22945037 TGTTTTTATTTTTTTGTA-TTT-TTT-TTTAATTTATG
1 TGTTTTTATTTTTTTGTATTTTATTTATTTAATTTATG
*
22945072 TGTTTGTATTTTTTTG
1 TGTTTTTATTTTTTTG
22945088 CATTAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
35 23 0.51
36 3 0.07
37 17 0.38
38 2 0.04
ACGTcount: A:0.12, C:0.01, G:0.09, T:0.77
Consensus pattern (38 bp):
TGTTTTTATTTTTTTGTATTTTATTTATTTAATTTATG
Found at i:22945251 original size:59 final size:60
Alignment explanation
Indices: 22945124--22945313 Score: 142
Period size: 63 Copynumber: 3.1 Consensus size: 60
22945114 GAAACAATAT
* * * *
22945124 AAAATAAAATTTTCAAGAATA-ATATTTTT-AAGAAAAAGTTTAAAA-TATCAAGTTTCCTTG
1 AAAATAAAAATTTAAAAAATATATATTTTTGAAG-GAAAG-TTAAAAGTATCAA-TTTCCTTG
* * *
22945184 AAAAT-AAAA-TTAAAAAATATATATTTTTGAAGGAAAGTTGAAAGTATCAATTTCTTTT
1 AAAATAAAAATTTAAAAAATATATATTTTTGAAGGAAAGTTAAAAGTATCAATTTCCTTG
* * * *
22945242 ATAAGTAAAAAGTTTTTAAAAATATATATTTTTTAGAA-G-AAGTTAAAAGTATTAATTTTTCTT
1 A-AAATAAAAA--TTTAAAAAATATATA-TTTTT-GAAGGAAAGTTAAAAGTATCAA-TTTCCTT
*
22945305 A
60 G
22945306 AAAATAAA
1 AAAATAAA
22945314 TTTTTTTAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
58 20 0.19
59 24 0.23
60 12 0.12
63 33 0.32
64 12 0.12
65 3 0.03
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (60 bp):
AAAATAAAAATTTAAAAAATATATATTTTTGAAGGAAAGTTAAAAGTATCAATTTCCTTG
Found at i:22945326 original size:17 final size:18
Alignment explanation
Indices: 22945295--22945331 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22945285 TAAAAGTATT
22945295 AATTTTTCTT-AAAAATA
1 AATTTTTCTTAAAAAATA
22945312 AATTTTT-TTAAAAAAATA
1 AATTTTTCTT-AAAAAATA
22945330 AA
1 AA
22945332 AGTGTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 7 0.39
18 9 0.50
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTTTCTTAAAAAATA
Found at i:22945326 original size:63 final size:64
Alignment explanation
Indices: 22945193--22945326 Score: 152
Period size: 63 Copynumber: 2.1 Consensus size: 64
22945183 GAAAATAAAA
* * *
22945193 TTAAAAAATATATATTTTTGAAGGAAAGTTGAAAGTATCAATTTCTTTTATAAGTAAAAAGTTT
1 TTAAAAAATATATATTTTTGAAGGAAAGTTAAAAGTATCAATTTCTTTTAAAAATAAAAAGTTT
* **
22945257 TT-AAAAATATATATTTTTTAGAA-G-AAGTTAAAAGTATTAATTT-TTCTTAAAAAT-AAATTT
1 TTAAAAAATATATA-TTTTT-GAAGGAAAGTTAAAAGTATCAATTTCTT-TTAAAAATAAAAAGT
22945317 TT
63 TT
22945319 TTAAAAAA
1 TTAAAAAA
22945327 ATAAAAGTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
62 10 0.17
63 39 0.65
64 8 0.13
65 3 0.05
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (64 bp):
TTAAAAAATATATATTTTTGAAGGAAAGTTAAAAGTATCAATTTCTTTTAAAAATAAAAAGTTT
Found at i:22945402 original size:77 final size:80
Alignment explanation
Indices: 22945249--22945403 Score: 181
Period size: 77 Copynumber: 2.0 Consensus size: 80
22945239 TTTATAAGTA
* * * * *
22945249 AAAAGTTTTTAAAAATATATATTTTTTAGAAGAAGTTAAAAGTATTAATTTTTCTTAAAAATAAA
1 AAAAGTGTTTAAAAATATATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTCAAAAATAAA
* ***
22945314 TTTTTTTAAAAAAAT
66 ATTTCAGAAAAAAAT
* * *
22945329 AAAAGTGTTTAAAAA-A-ATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAA
1 AAAAGTGTTTAAAAATATATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTCAAAAATAAA
22945391 ATTTCAGAAAAAA
66 ATTTCAGAAAAAA
22945404 TATTTTGAGG
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
77 45 0.71
78 3 0.05
79 1 0.02
80 14 0.22
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (80 bp):
AAAAGTGTTTAAAAATATATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTCAAAAATAAA
ATTTCAGAAAAAAAT
Found at i:22945408 original size:58 final size:57
Alignment explanation
Indices: 22945323--22945486 Score: 186
Period size: 58 Copynumber: 2.8 Consensus size: 57
22945313 ATTTTTTTAA
*
22945323 AAAAATAAAAGTGTTTAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTC
1 AAAAATAAAA-T-TTCAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTC
* * * * *
22945382 GAAATTAAAATTTCAGAAAAAATATTTTGAGGAAAAGTT-AGAAGTACCAATTTTTCTT
1 AAAAATAAAATTTCA-AAAAAATATTTTGAGAAAAAGTTGA-AAGTATCAATTTTTCTC
** * *
22945440 AAAAATAATTTTTCAAGAAAAACATTTTAAGAAAAAGTTGAAAGTAT
1 AAAAATAAAATTTCAA-AAAAATATTTTGAGAAAAAGTTGAAAGTAT
22945487 TTATTTTTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
57 5 0.06
58 73 0.84
59 9 0.10
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.33
Consensus pattern (57 bp):
AAAAATAAAATTTCAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTC
Found at i:22948692 original size:3 final size:3
Alignment explanation
Indices: 22948684--22948722 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
22948674 TTACGTAAAC
22948684 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22948723 TGACATTTTG
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22948873 original size:15 final size:15
Alignment explanation
Indices: 22948853--22948921 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
22948843 TATATAATAA
22948853 AAATAATTAATAAAT
1 AAATAATTAATAAAT
*
22948868 AAATAATAAAT-AAT
1 AAATAATTAATAAAT
22948882 AAA-AA-TAATCACAAT
1 AAATAATTAAT-A-AAT
*
22948897 AAA-AATTAATTAATT
1 AAATAATTAA-TAAAT
*
22948912 AATTAATTAA
1 AAATAATTAA
22948922 ATCTGTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
12 3 0.07
13 2 0.05
14 6 0.14
15 22 0.50
16 10 0.23
17 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATAATTAATAAAT
Found at i:22948875 original size:7 final size:7
Alignment explanation
Indices: 22948848--22948889 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
22948838 TTTTTTATAT
22948848 AATAA-A
1 AATAATA
*
22948854 AATAATT
1 AATAATA
22948861 AATAAATA
1 AAT-AATA
22948869 AATAATA
1 AATAATA
22948876 AATAATA
1 AATAATA
22948883 AA-AATA
1 AATAATA
22948889 A
1 A
22948890 TCACAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 10 0.31
7 16 0.50
8 6 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AATAATA
Found at i:22953969 original size:21 final size:21
Alignment explanation
Indices: 22953938--22953978 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22953928 TTAAAATTTT
22953938 ATAAGTTTTAAAATCATAAAAA
1 ATAAGTTTTAAAAT-ATAAAAA
22953960 ATAA-TTTTAAAATATAAAA
1 ATAAGTTTTAAAATATAAAA
22953979 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
ATAAGTTTTAAAATATAAAAA
Found at i:22953986 original size:7 final size:7
Alignment explanation
Indices: 22953962--22954013 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
22953952 CATAAAAAAT
22953962 AATTTTAA
1 AATTTT-A
* *
22953970 AATATAA
1 AATTTTA
22953977 AATTTTA
1 AATTTTA
22953984 AATTTTA
1 AATTTTA
22953991 AATTTTA
1 AATTTTA
*
22953998 AATATTA
1 AATTTTA
*
22954005 AATATTA
1 AATTTTA
22954012 AA
1 AA
22954014 AAAATCATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
7 35 0.90
8 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTTTA
Found at i:22953993 original size:14 final size:14
Alignment explanation
Indices: 22953962--22954013 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
22953952 CATAAAAAAT
*
22953962 AATTTTAAAATATAA
1 AATTTT-AAATATTA
*
22953977 AATTTTAAATTTTA
1 AATTTTAAATATTA
22953991 AATTTTAAATATTA
1 AATTTTAAATATTA
*
22954005 AATATTAAA
1 AATTTTAAA
22954014 AAAATCATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
14 27 0.82
15 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AATTTTAAATATTA
Found at i:22967877 original size:14 final size:14
Alignment explanation
Indices: 22967858--22967884 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22967848 TTTTTTTTGG
22967858 GGGGGGGGGACTTT
1 GGGGGGGGGACTTT
22967872 GGGGGGGGGACTT
1 GGGGGGGGGACTT
22967885 CGAAATGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.07, G:0.67, T:0.19
Consensus pattern (14 bp):
GGGGGGGGGACTTT
Found at i:22976008 original size:2 final size:2
Alignment explanation
Indices: 22975995--22976027 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
22975985 GATCATAAGA
*
22975995 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22976028 AAAGCAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:22980643 original size:28 final size:28
Alignment explanation
Indices: 22980610--22980679 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
22980600 ATTAATTATT
22980610 AATTTTATAAT-TCAAATATTATACTAAA
1 AATTTTATAATAT-AAATATTATACTAAA
* *
22980638 AATTTTTAAAATATAAATATTATATTAAA
1 AA-TTTTATAATATAAATATTATACTAAA
* *
22980667 TATTTTATCATAT
1 AATTTTATAATAT
22980680 TTTAGAGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 11 0.31
29 23 0.66
30 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTTTATAATATAAATATTATACTAAA
Found at i:22994465 original size:2 final size:2
Alignment explanation
Indices: 22994458--22994497 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
22994448 TGAAAATCTA
22994458 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22994497 A
1 A
22994498 CATAAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:22995650 original size:26 final size:28
Alignment explanation
Indices: 22995621--22995687 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
22995611 AGTTTTAATG
22995621 ATTTGAATATAATTTT-AAAA-AAATTA
1 ATTTGAATATAATTTTGAAAATAAATTA
*
22995647 ATTTATATATATAATTTTGAAAATAAATTA
1 ATTT-GA-ATATAATTTTGAAAATAAATTA
*
22995677 ATTTGTATATA
1 ATTTGAATATA
22995688 TATACATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.12
27 1 0.03
28 15 0.44
29 4 0.12
30 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
ATTTGAATATAATTTTGAAAATAAATTA
Found at i:22995658 original size:28 final size:30
Alignment explanation
Indices: 22995627--22995689 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
22995617 AATGATTTGA
22995627 ATATAATTTT-AAAA-AAATTAATTTATAT
1 ATATAATTTTGAAAATAAATTAATTTATAT
*
22995655 ATATAATTTTGAAAATAAATTAATTTGTAT
1 ATATAATTTTGAAAATAAATTAATTTATAT
22995685 ATATA
1 ATATA
22995690 TACATATTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 10 0.31
29 4 0.12
30 18 0.56
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (30 bp):
ATATAATTTTGAAAATAAATTAATTTATAT
Found at i:22996556 original size:10 final size:10
Alignment explanation
Indices: 22996541--22996569 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
22996531 ATTTTACAAA
22996541 AAATTTTAAT
1 AAATTTTAAT
22996551 AAATTTTAAT
1 AAATTTTAAT
22996561 AAATTTTAA
1 AAATTTTAA
22996570 ATTATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATTTTAAT
Found at i:22996907 original size:51 final size:51
Alignment explanation
Indices: 22996817--22996916 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
22996807 AAATTAAAAA
**
22996817 ATATGTTTTATCATAATAAGATAAAACTCAATTGTTTTATTTTTTTATAAAC
1 ATATGTTTTATCATAATAAGATAAAACTCAATTACTTTA-TTTTTTATAAAC
* * * *
22996869 ATAT-TTTTATTATAATGAGATAAAATTCATTTACTTTATTTTTTATAA
1 ATATGTTTTATCATAATAAGATAAAACTCAATTACTTTATTTTTTATAA
22996917 TAAATAAGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 10 0.24
51 28 0.67
52 4 0.10
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (51 bp):
ATATGTTTTATCATAATAAGATAAAACTCAATTACTTTATTTTTTATAAAC
Found at i:23000263 original size:41 final size:41
Alignment explanation
Indices: 23000184--23000267 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
23000174 CTTACTCTAC
**
23000184 ATAGTTTCTGTGAGTAACAATTCAGTACTTTATCATGATGA
1 ATAGTTTCTGTGAGTAACAATTCAGTACACTATCATGATGA
* *
23000225 ATAGTTTCTGTGAGTAACATTTCAGTACACTATTATGATGA
1 ATAGTTTCTGTGAGTAACAATTCAGTACACTATCATGATGA
23000266 AT
1 AT
23000268 GCTAATTTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (41 bp):
ATAGTTTCTGTGAGTAACAATTCAGTACACTATCATGATGA
Found at i:23002165 original size:30 final size:30
Alignment explanation
Indices: 23002124--23002180 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
23002114 ATTTTTTATT
* * *
23002124 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
23002154 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
23002181 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:23002183 original size:21 final size:22
Alignment explanation
Indices: 23002153--23002201 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
23002143 GATATTTTTA
23002153 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
23002173 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
23002195 AATATTT
1 AATATTT
23002202 CATTAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 4 0.15
21 6 0.22
22 17 0.63
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:23010834 original size:44 final size:44
Alignment explanation
Indices: 23010764--23010861 Score: 160
Period size: 44 Copynumber: 2.2 Consensus size: 44
23010754 GGAAATTGCC
* *
23010764 AACAATGGACACAACAAAAGCAACCCATAAAGTAACAAACCCAA
1 AACAATTGACACAACAAAAGCAACCCACAAAGTAACAAACCCAA
* *
23010808 AATAATTGACACAACAAAAGCAACCCACAAAGTGACAAACCCAA
1 AACAATTGACACAACAAAAGCAACCCACAAAGTAACAAACCCAA
23010852 AACAATTGAC
1 AACAATTGAC
23010862 TACATTGTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.55, C:0.27, G:0.09, T:0.09
Consensus pattern (44 bp):
AACAATTGACACAACAAAAGCAACCCACAAAGTAACAAACCCAA
Found at i:23014955 original size:44 final size:44
Alignment explanation
Indices: 23014885--23014982 Score: 160
Period size: 44 Copynumber: 2.2 Consensus size: 44
23014875 GGAAATTGCC
* *
23014885 AACAATGGACACAACAAAAGCAACCCATAAAGTAACAAACCCAA
1 AACAATTGACACAACAAAAGCAACCCACAAAGTAACAAACCCAA
* *
23014929 AATAATTGACACAACAAAAGCAACCCACAAAGTGACAAACCCAA
1 AACAATTGACACAACAAAAGCAACCCACAAAGTAACAAACCCAA
23014973 AACAATTGAC
1 AACAATTGAC
23014983 TACATTGTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.55, C:0.27, G:0.09, T:0.09
Consensus pattern (44 bp):
AACAATTGACACAACAAAAGCAACCCACAAAGTAACAAACCCAA
Found at i:23017243 original size:20 final size:20
Alignment explanation
Indices: 23017206--23017243 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23017196 AAATATTAGT
*
23017206 AATAATAAAAAAAGTAAAAC
1 AATAATAAAAAAAATAAAAC
23017226 AATAA-AAAAACAAATAAA
1 AATAATAAAAA-AAATAAA
23017244 TACTAAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (20 bp):
AATAATAAAAAAAATAAAAC
Found at i:23019412 original size:14 final size:16
Alignment explanation
Indices: 23019393--23019424 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
23019383 TCATATTATT
23019393 ATATTTTT-TA-TAAA
1 ATATTTTTATATTAAA
23019407 ATATTTTTATATTAAA
1 ATATTTTTATATTAAA
23019423 AT
1 AT
23019425 TATATATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTTTTATATTAAA
Found at i:23021415 original size:21 final size:21
Alignment explanation
Indices: 23021360--23021416 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
23021350 ATGCAATGAG
* *
23021360 ATTAATTATTATAACAATAAA
1 ATTAAATATTATAATAATAAA
23021381 ATTAAATATTATAATAATAAA
1 ATTAAATATTATAATAATAAA
23021402 ATTAAA-ATTAATAAT
1 ATTAAATATT-ATAAT
23021417 GAAATACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAAATATTATAATAATAAA
Found at i:23021436 original size:29 final size:28
Alignment explanation
Indices: 23021376--23021445 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
23021366 TATTATAACA
*
23021376 ATAAAATTAA-ATATTATAATAATAAAAT
1 ATAAAATTAATA-ATGATAATAATAAAAT
23021404 -TAAAATTAATAATGA-AATACATATAAAT
1 ATAAAATTAATAATGATAATA-ATA-AAAT
*
23021432 ATAAAAATAATAAT
1 ATAAAATTAATAAT
23021446 AACATTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
26 4 0.11
27 15 0.42
28 5 0.14
29 12 0.33
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (28 bp):
ATAAAATTAATAATGATAATAATAAAAT
Found at i:23026695 original size:17 final size:17
Alignment explanation
Indices: 23026669--23026704 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23026659 TATACTTTTA
23026669 TATATCTTTAATACAAT
1 TATATCTTTAATACAAT
* *
23026686 TATATTTTTAGTACAAT
1 TATATCTTTAATACAAT
23026703 TA
1 TA
23026705 GATAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (17 bp):
TATATCTTTAATACAAT
Found at i:23036098 original size:6 final size:6
Alignment explanation
Indices: 23036087--23036119 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
23036077 TAAAAAAACA
23036087 GTTTTT GTTTTT G-TTTT GTTTTT GTTTTT -TTTT
1 GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTT
23036120 GTGATTCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
GTTTTT
Found at i:23036105 original size:11 final size:11
Alignment explanation
Indices: 23036089--23036121 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
23036079 AAAAAACAGT
23036089 TTTTGTTTTTG
1 TTTTGTTTTTG
23036100 TTTTGTTTTTG
1 TTTTGTTTTTG
23036111 TTTT-TTTTTG
1 TTTTGTTTTTG
23036121 T
1 T
23036122 GATTCCAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.32
11 15 0.68
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:23036109 original size:17 final size:16
Alignment explanation
Indices: 23036087--23036121 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
23036077 TAAAAAAACA
23036087 GTTTTTGTTTTTGTTTT
1 GTTTTTGTTTTT-TTTT
23036104 GTTTTTGTTTTTTTTT
1 GTTTTTGTTTTTTTTT
23036120 GT
1 GT
23036122 GATTCCAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (16 bp):
GTTTTTGTTTTTTTTT
Found at i:23039871 original size:2 final size:2
Alignment explanation
Indices: 23039866--23039898 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23039856 TCTGATCGAT
23039866 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
23039899 CTAACGAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23040275 original size:19 final size:18
Alignment explanation
Indices: 23040239--23040281 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23040229 AGGGTTAGTG
23040239 TTATAAATAGATTTTAAA
1 TTATAAATAGATTTTAAA
23040257 TTATAATATA-ATATTTAAA
1 TTATAA-ATAGAT-TTTAAA
23040276 TT-TAAA
1 TTATAAA
23040282 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 11 0.48
19 11 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTATAAATAGATTTTAAA
Found at i:23040298 original size:29 final size:28
Alignment explanation
Indices: 23040253--23040326 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
23040243 AAATAGATTT
*
23040253 TAAA-TTA-TAATATAATATTTAAATT-
1 TAAATTTATTAATTTAATATTTAAATTA
*
23040278 TAAAATTTTTTTAATTTAATATTTAAATTA
1 T-AAA-TTTATTAATTTAATATTTAAATTA
23040308 TAAATTTATTAA-TTAATAT
1 TAAATTTATTAATTTAATAT
23040327 GATACTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 7 0.17
28 9 0.22
29 20 0.49
30 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TAAATTTATTAATTTAATATTTAAATTA
Found at i:23040453 original size:29 final size:29
Alignment explanation
Indices: 23040414--23040469 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
23040404 TTATATTCAT
23040414 ATTTTAAATATTACATTAAATATTTTTAA
1 ATTTTAAATATTACATTAAATATTTTTAA
*
23040443 ATTTTAAATATTATATTAAATATTTTT
1 ATTTTAAATATTACATTAAATATTTTT
23040470 TATAATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (29 bp):
ATTTTAAATATTACATTAAATATTTTTAA
Found at i:23040486 original size:30 final size:29
Alignment explanation
Indices: 23040414--23040486 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
23040404 TTATATTCAT
* * *
23040414 ATTTTAAATATTACATTAAATATTTTTAA
1 ATTTCAAAAATTATATTAAATATTTTTAA
* *
23040443 ATTTTAAATATTATATTAAATATTTTTTATA
1 ATTTCAAAAATTATATTAAATA-TTTTTA-A
23040474 A-TTCAAAAATTAT
1 ATTTCAAAAATTAT
23040487 TCATGATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 21 0.54
30 16 0.41
31 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTTCAAAAATTATATTAAATATTTTTAA
Found at i:23040965 original size:17 final size:17
Alignment explanation
Indices: 23040943--23040975 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23040933 CTTTTAAATT
*
23040943 TTGAAGTATATAATAGA
1 TTGAAGTATAGAATAGA
23040960 TTGAAGTATAGAATAG
1 TTGAAGTATAGAATAG
23040976 TTGTAAAAAT
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:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (17 bp):
TTGAAGTATAGAATAGA
Found at i:23041126 original size:12 final size:11
Alignment explanation
Indices: 23041091--23041137 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 11
23041081 AAGTTTTCTT
23041091 AAATAATTTAA
1 AAATAATTTAA
23041102 AAATAGGATTTAA
1 AAATA--ATTTAA
23041115 GAAATAATTT-A
1 -AAATAATTTAA
23041126 AAA-AATTTAA
1 AAATAATTTAA
23041136 AA
1 AA
23041138 CAGTAAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
9 5 0.16
10 6 0.19
11 6 0.19
12 4 0.12
13 6 0.19
14 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (11 bp):
AAATAATTTAA
Found at i:23041347 original size:4 final size:4
Alignment explanation
Indices: 23041338--23041369 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
23041328 CCAGTCCTTC
*
23041338 AAGA AAGA AAGA AAGA AAGA AAGA CAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
23041370 TTTCTACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:23050956 original size:18 final size:17
Alignment explanation
Indices: 23050924--23050958 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23050914 TTTGATACGA
*
23050924 TAATATTTTATATATGT
1 TAATATTTTAAATATGT
23050941 TAATATATTTAAATATGT
1 TAATAT-TTTAAATATGT
23050959 GTAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TAATATTTTAAATATGT
Found at i:23051590 original size:29 final size:28
Alignment explanation
Indices: 23051517--23051592 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
23051507 TAGTCGTAAT
**
23051517 TTTTATATATTTGCATTAGTCATGTCTA
1 TTTTATATATTTGTGTTAGTCATGTCTA
* * *
23051545 TTTATGTATATTCGTGTTAGTCATGTTTA
1 TTT-TATATATTTGTGTTAGTCATGTCTA
23051574 TTATTATATATTTGTGTTA
1 TT-TTATATATTTGTGTTA
23051593 TTCCTATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 3 0.08
29 35 0.90
30 1 0.03
ACGTcount: A:0.24, C:0.07, G:0.13, T:0.57
Consensus pattern (28 bp):
TTTTATATATTTGTGTTAGTCATGTCTA
Found at i:23051761 original size:18 final size:18
Alignment explanation
Indices: 23051726--23051760 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23051716 TGAATTTTGT
23051726 TAATAAAAAGATAAAAAA
1 TAATAAAAAGATAAAAAA
23051744 TAATAAAAA-ATAAAAAA
1 TAATAAAAAGATAAAAAA
23051761 AGCGAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
TAATAAAAAGATAAAAAA
Found at i:23051958 original size:27 final size:27
Alignment explanation
Indices: 23051928--23051991 Score: 121
Period size: 26 Copynumber: 2.4 Consensus size: 27
23051918 TAGAAAGCAA
23051928 AAAAAAATTTTGAAAATTTTTTTGAGT
1 AAAAAAATTTTGAAAATTTTTTTGAGT
23051955 AAAAAAA-TTTGAAAATTTTTTTGAGT
1 AAAAAAATTTTGAAAATTTTTTTGAGT
23051981 AAAAAAATTTT
1 AAAAAAATTTT
23051992 TTTCTGGGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 26 0.72
27 10 0.28
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (27 bp):
AAAAAAATTTTGAAAATTTTTTTGAGT
Found at i:23054476 original size:15 final size:15
Alignment explanation
Indices: 23054456--23054487 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23054446 TCTCTATGTA
23054456 TATATATATATATAT
1 TATATATATATATAT
*
23054471 TATATATATATGTAT
1 TATATATATATATAT
23054486 TA
1 TA
23054488 ATCAAATGTT
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:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:23055118 original size:17 final size:18
Alignment explanation
Indices: 23055098--23055131 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23055088 TAATTTTATA
23055098 TTTACA-TTAAAAAATAT
1 TTTACACTTAAAAAATAT
*
23055115 TTTATACTTAAAAAATA
1 TTTACACTTAAAAAATA
23055132 ATATTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTACACTTAAAAAATAT
Found at i:23055871 original size:20 final size:20
Alignment explanation
Indices: 23055823--23055871 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
23055813 TTCACGTTAG
* * *
23055823 CAAAATCAATATTATATCAA
1 CAAAATTAACATTACATCAA
*
23055843 CAAAGTTAACATTACATCAA
1 CAAAATTAACATTACATCAA
*
23055863 TAAAATTAA
1 CAAAATTAA
23055872 TGAAAAATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (20 bp):
CAAAATTAACATTACATCAA
Found at i:23058492 original size:1 final size:1
Alignment explanation
Indices: 23058486--23058510 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
23058476 TTTGTTTCCC
23058486 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
23058511 CAAAAGAGCT
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:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:23059054 original size:30 final size:31
Alignment explanation
Indices: 23059020--23059079 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
23059010 TAAAATTATA
23059020 AATTTTTA-A-AATTAGATATAAATTCAAATC
1 AATTTTTATATAATTAGATATAAATT-AAATC
* *
23059050 AATTTTTATATAATTCGATCTAAATTAAAT
1 AATTTTTATATAATTAGATATAAATTAAAT
23059080 TCTCTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 5 0.19
32 13 0.50
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (31 bp):
AATTTTTATATAATTAGATATAAATTAAATC
Found at i:23063145 original size:102 final size:102
Alignment explanation
Indices: 23062969--23063158 Score: 335
Period size: 102 Copynumber: 1.9 Consensus size: 102
23062959 ACATCTGGTG
* *
23062969 TATATCAAGGTATTTTTAAATGAAAATTAAGACAAATTTTAAAACATAATGCAAAAGTCATACTA
1 TATATCAAGGTATTTTTAAATCAAAATTAAGACAAATTTTAAAAAATAATGCAAAAGTCATACTA
23063034 GATGGGGAGTTTGGGCAACAAATCTATGATAAGACAA
66 GATGGGGAGTTTGGGCAACAAATCTATGATAAGACAA
* * *
23063071 TATATCAAGGTATTTTTAAATCAAAATTAAGACAATTTTTAAAAAATAATGTAAAAGTCATATTA
1 TATATCAAGGTATTTTTAAATCAAAATTAAGACAAATTTTAAAAAATAATGCAAAAGTCATACTA
23063136 GATGGGGAGTTTGGGCAACAAAT
66 GATGGGGAGTTTGGGCAACAAAT
23063159 TTCCGACAAG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (102 bp):
TATATCAAGGTATTTTTAAATCAAAATTAAGACAAATTTTAAAAAATAATGCAAAAGTCATACTA
GATGGGGAGTTTGGGCAACAAATCTATGATAAGACAA
Found at i:23065106 original size:2 final size:2
Alignment explanation
Indices: 23065099--23065123 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23065089 ATTAATATTT
23065099 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23065124 TTGAAACCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23066693 original size:16 final size:16
Alignment explanation
Indices: 23066672--23066702 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23066662 GCAATTAACT
*
23066672 CTAATTTCATGCTTAC
1 CTAATTCCATGCTTAC
23066688 CTAATTCCATGCTTA
1 CTAATTCCATGCTTA
23066703 AGCTCTTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (16 bp):
CTAATTCCATGCTTAC
Found at i:23074415 original size:34 final size:33
Alignment explanation
Indices: 23074371--23074434 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
23074361 TTTGAAGTTT
23074371 TATAACTTTTCAAAAATGAATTTTTAAAAAATTA
1 TATAACTTTTCAAAAATGAA-TTTTAAAAAATTA
* * **
23074405 TATAATTTTTCGAAAATTCATTTTAAAAAA
1 TATAACTTTTCAAAAATGAATTTTAAAAAA
23074435 GATTTAGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 10 0.38
34 16 0.62
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (33 bp):
TATAACTTTTCAAAAATGAATTTTAAAAAATTA
Found at i:23075794 original size:17 final size:17
Alignment explanation
Indices: 23075772--23075804 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23075762 CATACACTTT
23075772 TATAAAGAAATTAATCC
1 TATAAAGAAATTAATCC
*
23075789 TATAAAGAAGTTAATC
1 TATAAAGAAATTAATC
23075805 TTTTATAGTA
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:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (17 bp):
TATAAAGAAATTAATCC
Found at i:23096510 original size:21 final size:25
Alignment explanation
Indices: 23096476--23096526 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
23096466 TCAAACAATT
23096476 TTTTTTAGTCTATATTATT-T-TTA
1 TTTTTTAGTCTATATTATTGTATTA
23096499 TTTTTTA-T-TATATTATTGTATTA
1 TTTTTTAGTCTATATTATTGTATTA
23096522 TTTTT
1 TTTTT
23096527 AAAATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.35
22 2 0.08
23 15 0.58
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (25 bp):
TTTTTTAGTCTATATTATTGTATTA
Found at i:23098457 original size:5 final size:5
Alignment explanation
Indices: 23098447--23098472 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23098437 CATATTAAAA
23098447 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
23098473 ATAATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:23101522 original size:3 final size:3
Alignment explanation
Indices: 23101516--23101551 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
23101506 GAAGAAGTTT
*
23101516 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
23101552 TGTTAGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:23101901 original size:2 final size:2
Alignment explanation
Indices: 23101894--23101929 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23101884 TAGCCCACTC
23101894 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23101930 TTTGCAATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:23109046 original size:2 final size:2
Alignment explanation
Indices: 23109039--23109064 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23109029 GCCAACTAAT
23109039 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
23109065 AATTGTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23109214 original size:21 final size:22
Alignment explanation
Indices: 23109188--23109231 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23109178 TATAAAATAT
*
23109188 TTATTT-TTAATTTTATTAAAA
1 TTATTTATGAATTTTATTAAAA
*
23109209 TTATTTATGATTTTTATTAAAA
1 TTATTTATGAATTTTATTAAAA
23109231 T
1 T
23109232 ATTAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTATTTATGAATTTTATTAAAA
Found at i:23110734 original size:5 final size:5
Alignment explanation
Indices: 23110724--23110748 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23110714 TGGAACCACA
23110724 GTTTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT
23110749 CACTAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
GTTTT
Found at i:23114007 original size:17 final size:18
Alignment explanation
Indices: 23113985--23114040 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 18
23113975 TTAGATTTAC
23113985 TTATAATAAATAATA-AA
1 TTATAATAAATAATAGAA
* *
23114002 TTATAACAGATAATAGAA
1 TTATAATAAATAATAGAA
* *
23114020 TAAGTAATAAAGTAATCGAA
1 TTA-TAATAAA-TAATAGAA
23114040 T
1 T
23114041 AACTAGTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 13 0.43
18 4 0.13
19 5 0.17
20 8 0.27
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (18 bp):
TTATAATAAATAATAGAA
Found at i:23114035 original size:20 final size:21
Alignment explanation
Indices: 23114004--23114074 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
23113994 ATAATAAATT
23114004 ATAACAGATAATAGAATAAGTA
1 ATAA-AGATAATAGAATAAGTA
* *
23114026 ATAAAG-TAATCGAATAACTA
1 ATAAAGATAATAGAATAAGTA
* * *
23114046 GTAAGGATAATATAATAAGT-
1 ATAAAGATAATAGAATAAGTA
23114066 ATAAA-ATAA
1 ATAAAGATAA
23114075 ATATAATATA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
19 4 0.10
20 19 0.49
21 12 0.31
22 4 0.10
ACGTcount: A:0.58, C:0.04, G:0.13, T:0.25
Consensus pattern (21 bp):
ATAAAGATAATAGAATAAGTA
Found at i:23114069 original size:14 final size:14
Alignment explanation
Indices: 23114047--23114091 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
23114037 GAATAACTAG
*
23114047 TAAGGATAATATAA
1 TAAGTATAATATAA
23114061 TAAGTAT-A-A-AA
1 TAAGTATAATATAA
*
23114072 TAAATATAATATAA
1 TAAGTATAATATAA
23114086 TAAGTA
1 TAAGTA
23114092 ATGAACAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
11 8 0.32
12 2 0.08
13 2 0.08
14 13 0.52
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (14 bp):
TAAGTATAATATAA
Found at i:23114456 original size:127 final size:128
Alignment explanation
Indices: 23114230--23114487 Score: 473
Period size: 127 Copynumber: 2.0 Consensus size: 128
23114220 TATGGTAAGG
*
23114230 ATACATATGTATCCGTGTTTAAAAATTCGTCAATGATACATTTTTTTATATATTATGATTGAAAA
1 ATACATATGTATCCGTGTTTAAAAATTCGTCAATGATACATTTTTTCATATATTATGATTGAAAA
*
23114295 TTGGATTGATTAATTTTATTTGAAAACATTATAAAATTTATAACGAACTT-AAATCATTGTGC
66 TTAGATTGATTAATTTTATTTGAAAACATTATAAAATTTATAACGAACTTAAAATCATTGTGC
* *
23114357 ATACATATGTATCTGTGTTTGAAAATTCGTCAATGATACATTTTTTCATATATTATGATTGAAAA
1 ATACATATGTATCCGTGTTTAAAAATTCGTCAATGATACATTTTTTCATATATTATGATTGAAAA
23114422 TTAGATTGATTAATTTTATTTGAAAACATTATAAAATTTATAACGAACTTAAAATCATTGTGC
66 TTAGATTGATTAATTTTATTTGAAAACATTATAAAATTTATAACGAACTTAAAATCATTGTGC
23114485 ATA
1 ATA
23114488 TTACAATGAC
Statistics
Matches: 126, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
127 111 0.88
128 15 0.12
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (128 bp):
ATACATATGTATCCGTGTTTAAAAATTCGTCAATGATACATTTTTTCATATATTATGATTGAAAA
TTAGATTGATTAATTTTATTTGAAAACATTATAAAATTTATAACGAACTTAAAATCATTGTGC
Found at i:23120500 original size:15 final size:15
Alignment explanation
Indices: 23120480--23120512 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23120470 ATTTTAAGTA
23120480 AATAAATTAATGAAT
1 AATAAATTAATGAAT
*
23120495 AATAAATTAATGGAT
1 AATAAATTAATGAAT
23120510 AAT
1 AAT
23120513 TGACTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (15 bp):
AATAAATTAATGAAT
Found at i:23134453 original size:24 final size:24
Alignment explanation
Indices: 23134417--23134468 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
23134407 AATAATTCAA
* *
23134417 AATATTTATATTTGATATATTATC
1 AATATATAAATTTGATATATTATC
* *
23134441 AATATATAAATTTTATATATTATT
1 AATATATAAATTTGATATATTATC
23134465 AATA
1 AATA
23134469 AATTAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
AATATATAAATTTGATATATTATC
Found at i:23135931 original size:28 final size:25
Alignment explanation
Indices: 23135893--23136059 Score: 88
Period size: 27 Copynumber: 6.2 Consensus size: 25
23135883 ATACTTTTGA
23135893 TAATAATTTTACTTATAAATAATATTAT
1 TAATAA-TTTA-TTATAAATAATA-TAT
*
23135921 ATTATAATTTATTAATAAATAATATAT
1 -TAATAATTTATT-ATAAATAATATAT
23135948 TAATACATATTATTATAAATAAT-TAT
1 TAATA-AT-TTATTATAAATAATATAT
* * * *
23135974 TCA-AATTAATAAATAAAATATTATAT
1 TAATAATTTAT-TAT-AAATAATATAT
* * *
23136000 CAATAAATAATATTATAATATATTA-AT
1 TAAT-AAT-TTATTATAA-ATAATATAT
* * *
23136027 AAATAATATACTATTAATATAATATAT
1 TAATAATTTATTA-TAA-ATAATATAT
23136054 TAATAA
1 TAATAA
23136060 ATAACATAAT
Statistics
Matches: 111, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
23 3 0.03
24 4 0.04
25 12 0.11
26 25 0.23
27 30 0.27
28 30 0.27
29 7 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATAATTTATTATAAATAATATAT
Found at i:23135942 original size:15 final size:15
Alignment explanation
Indices: 23135924--23136126 Score: 139
Period size: 15 Copynumber: 13.5 Consensus size: 15
23135914 ATATTATATT
*
23135924 ATAATTTATTAATAA
1 ATAATATATTAATAA
*
23135939 ATAATATATTAATAC
1 ATAATATATTAATAA
* *
23135954 ATATTATTATAAATAA
1 ATAATA-TATTAATAA
* * *
23135970 TTATTCAAATTAATAA
1 ATAAT-ATATTAATAA
* *
23135986 ATAAAATATTATATCA
1 ATAATATATTA-ATAA
* *
23136002 ATAA-ATAAT-AT-T
1 ATAATATATTAATAA
23136014 ATAATATATTAATAA
1 ATAATATATTAATAA
* *
23136029 ATAATATACTATTAA
1 ATAATATATTAATAA
23136044 TATAATATATTAATAA
1 -ATAATATATTAATAA
* *
23136060 ATAACATAATAATAA
1 ATAATATATTAATAA
* * *
23136075 ATATTGTTAATGTAATTA
1 ATAAT-AT-AT-TAATAA
23136093 ATAA-ATATT-AT-A
1 ATAATATATTAATAA
23136105 ATAATATATTAATAA
1 ATAATATATTAATAA
23136120 ATAATAT
1 ATAATAT
23136127 TATAAATATT
Statistics
Matches: 145, Mismatches: 30, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
12 9 0.06
13 13 0.09
14 5 0.03
15 66 0.46
16 42 0.29
17 2 0.01
18 8 0.06
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (15 bp):
ATAATATATTAATAA
Found at i:23136004 original size:20 final size:22
Alignment explanation
Indices: 23135981--23136149 Score: 107
Period size: 23 Copynumber: 7.6 Consensus size: 22
23135971 TATTCAAATT
*
23135981 AATAAATAA-A-ATATTATATC
1 AATAAATAATATATAATATATC
*
23136001 AATAAATAATATTATAATATATT
1 AATAAATAATA-TATAATATATC
*
23136024 AATAAATAATATACTATTAATAT-
1 AATAAATAATATA-TAAT-ATATC
* * *
23136047 AATATATTAATAAATAACATAAT-
1 AATA-AATAATATATAATAT-ATC
* * * *
23136070 AATAAATATTGT-TAATGTAATT
1 AATAAATAATATATAATAT-ATC
* *
23136092 AATAAATATTATAATAATATATT
1 AATAAATAATAT-ATAATATATC
*
23136115 AATAAATAATATTATAA-ATATT
1 AATAAATAATA-TATAATATATC
23136137 AATAAATAATATA
1 AATAAATAATATA
23136150 ATGAATAATA
Statistics
Matches: 122, Mismatches: 16, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
20 9 0.07
21 10 0.08
22 35 0.29
23 51 0.42
24 17 0.14
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (22 bp):
AATAAATAATATATAATATATC
Found at i:23136053 original size:18 final size:17
Alignment explanation
Indices: 23136007--23136053 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
23135997 TATCAATAAA
*
23136007 TAATATTATA-ATATAT
1 TAATATAATATATATAT
23136023 TAATA-AATAATATACTAT
1 TAATATAAT-ATATA-TAT
23136041 TAATATAATATAT
1 TAATATAATATAT
23136054 TAATAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 2 0.08
16 6 0.23
17 3 0.12
18 12 0.46
19 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATAATATATATAT
Found at i:23136157 original size:26 final size:25
Alignment explanation
Indices: 23136089--23136157 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 25
23136079 TGTTAATGTA
*
23136089 ATTAATAAATATTATAATAAT--AT
1 ATTAATAAATAATATAATAATAAAT
23136112 ATTAATAAATAATAT--T-ATAAAT
1 ATTAATAAATAATATAATAATAAAT
23136134 ATTAATAAATAATATAATGAATAA
1 ATTAATAAATAATATAAT-AATAA
23136158 TAATTAGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 2 0.05
21 1 0.03
22 17 0.44
23 14 0.36
24 1 0.03
26 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (25 bp):
ATTAATAAATAATATAATAATAAAT
Found at i:23136163 original size:26 final size:24
Alignment explanation
Indices: 23135934--23136159 Score: 83
Period size: 23 Copynumber: 9.5 Consensus size: 24
23135924 ATAATTTATT
*
23135934 AATAAATAATATATTAATACATATT
1 AATAAATAATATAATAATA-ATATT
23135959 ATTATAAATAAT-T-AT--TCAA-ATT
1 A--ATAAATAATATAATAAT-AATATT
* *
23135981 AATAAAT-A-A-AAT-ATTATATC
1 AATAAATAATATAATAATAATATT
*
23136001 AATAAATAATATTATAAT-ATATT
1 AATAAATAATATAATAATAATATT
23136024 AATAAATAATATACTATTAATATAATATATT
1 AATAAATAATATA--A-T-A-AT-A-ATATT
*
23136055 AATAAATAACATAATAATAAATATT
1 AATAAATAATATAATAATAA-TATT
** * *
23136080 GTTAATGTAAT-TAATAAATATTA-T
1 AATAA-ATAATATAAT-AATAATATT
23136104 AAT-AAT-ATATTAATAAATAATATT
1 AATAAATAATA-TAAT-AATAATATT
23136128 -ATAAAT-AT-TAATAAATAATA-T
1 AATAAATAATATAAT-AATAATATT
*
23136149 AATGAATAATA
1 AATAAATAATA
23136160 ATTAGTTTTA
Statistics
Matches: 155, Mismatches: 17, Indels: 59
0.67 0.07 0.26
Matches are distributed among these distances:
19 4 0.03
20 16 0.10
21 4 0.03
22 23 0.15
23 36 0.23
24 12 0.08
25 17 0.11
26 11 0.07
27 11 0.07
28 3 0.02
29 1 0.01
31 17 0.11
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (24 bp):
AATAAATAATATAATAATAATATT
Found at i:23136244 original size:23 final size:23
Alignment explanation
Indices: 23136200--23136250 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
23136190 AACATAATAT
*
23136200 TATAATATTAAATATTATTATTA
1 TATAATATTAAATATTAATATTA
*
23136223 TATAATAATT-AATTTTAATATTA
1 TATAAT-ATTAAATATTAATATTA
23136246 -ATAAT
1 TATAAT
23136251 TTTAGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 17 0.68
24 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TATAATATTAAATATTAATATTA
Found at i:23136249 original size:19 final size:19
Alignment explanation
Indices: 23136110--23136251 Score: 56
Period size: 18 Copynumber: 7.6 Consensus size: 19
23136100 TTATAATAAT
*
23136110 ATATTAATAAATAATATTATAA
1 ATATTAATAATTAAT-TT-T-A
* *
23136132 ATATTAATAAATAA-TATA
1 ATATTAATAATTAATTTTA
* *
23136150 ATGAATAATAATTAGTTTT-
1 AT-ATTAATAATTAATTTTA
*
23136169 ATTTTAAGT-ATT--TTTT-
1 ATATTAA-TAATTAATTTTA
*
23136185 ATATTAACATAA-T-ATTATA
1 ATATT-A-ATAATTAATTTTA
23136204 ATATTAA-ATATT-ATTATT-
1 ATATTAATA-ATTAATT-TTA
23136222 ATA-TAATAATTAATTTTA
1 ATATTAATAATTAATTTTA
23136240 ATATTAATAATT
1 ATATTAATAATT
23136252 TTAGTATGTT
Statistics
Matches: 95, Mismatches: 10, Indels: 33
0.69 0.07 0.24
Matches are distributed among these distances:
16 9 0.09
17 13 0.14
18 29 0.31
19 27 0.28
20 3 0.03
22 14 0.15
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATTAATAATTAATTTTA
Found at i:23136252 original size:15 final size:14
Alignment explanation
Indices: 23136194--23136254 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
23136184 TATATTAACA
23136194 TAATATTATAATATT
1 TAATATTATAAT-TT
* *
23136209 AAATATTATTATTAT
1 TAATATTATAATT-T
*
23136224 ATAATAAT-TAATTT
1 -TAATATTATAATTT
23136238 TAATATTAATAATTT
1 TAATATT-ATAATTT
23136253 TA
1 TA
23136255 GTATGTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
13 6 0.17
14 2 0.06
15 23 0.64
16 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATTATAATTT
Found at i:23136288 original size:25 final size:24
Alignment explanation
Indices: 23136234--23136292 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
23136224 ATAATAATTA
*
23136234 ATTTTAATATTAATAATTTTAGTAT
1 ATTTTAATAATAATAATTTTAG-AT
*
23136259 GTTTTAATAATATATAATTGTTA-AT
1 ATTTTAATAATA-ATAATT-TTAGAT
23136284 ATTTTAATA
1 ATTTTAATA
23136293 GTTATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 20 0.69
26 6 0.21
27 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (24 bp):
ATTTTAATAATAATAATTTTAGAT
Found at i:23138275 original size:17 final size:17
Alignment explanation
Indices: 23138253--23138299 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
23138243 TGATTATTTT
*
23138253 AATAATTTAATCATTAA
1 AATAATTTTATCATTAA
*
23138270 AATAATTTTAT-TTTAA
1 AATAATTTTATCATTAA
23138286 AAGTAATTTTATCA
1 AA-TAATTTTATCA
23138300 CTAATGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
AATAATTTTATCATTAA
Found at i:23138635 original size:17 final size:18
Alignment explanation
Indices: 23138613--23138658 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23138603 TAAATTATGT
*
23138613 AAAAAATATATG-AATTA
1 AAAAAATATATGAAAATA
*
23138630 AAAAAATCTATGAAAATA
1 AAAAAATATATGAAAATA
*
23138648 AAAAATTATAT
1 AAAAAATATAT
23138659 TATATATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAAAATATATGAAAATA
Found at i:23140201 original size:16 final size:16
Alignment explanation
Indices: 23140180--23140216 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
23140170 ATTTTAATAA
23140180 AAATTTTATGTTAAA-T
1 AAATTTTAT-TTAAATT
23140196 AAATTTTATTTAAATT
1 AAATTTTATTTAAATT
23140212 AAATT
1 AAATT
23140217 AATAATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
AAATTTTATTTAAATT
Found at i:23140842 original size:18 final size:17
Alignment explanation
Indices: 23140817--23140856 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 17
23140807 ACATCTCAAG
23140817 GAAAAACTTTTTGCCAA
1 GAAAAACTTTTTGCCAA
23140834 GAAAGAACTTTTTGCCAA
1 GAAA-AACTTTTTGCCAA
23140852 GAAAA
1 GAAAA
23140857 TGGGACGCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (17 bp):
GAAAAACTTTTTGCCAA
Found at i:23142381 original size:2 final size:2
Alignment explanation
Indices: 23142374--23142405 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23142364 AGACATCTTT
23142374 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
23142406 AAGCCTTCAA
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:23143112 original size:29 final size:28
Alignment explanation
Indices: 23143060--23143128 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 28
23143050 CTTTTATTTG
23143060 AAATAAAAATATATTTGGATATAAATCAAA
1 AAATAAAAAT-TATTTGGATAT-AATCAAA
*
23143090 AAATAAAAATTATTTGAGA-ATAATTAAA
1 AAATAAAAATTATTTG-GATATAATCAAA
23143118 ATAA-AAAAATT
1 A-AATAAAAATT
23143129 TATCTAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 14 0.39
29 10 0.28
30 12 0.33
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.30
Consensus pattern (28 bp):
AAATAAAAATTATTTGGATATAATCAAA
Found at i:23143131 original size:29 final size:30
Alignment explanation
Indices: 23143060--23143131 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
23143050 CTTTTATTTG
*
23143060 AAATAAAAATATATTTGGATATAAATCAAA
1 AAATAAAAATTTATTTGGATATAAATCAAA
*
23143090 AAATAAAAA-TTATTTGAGA-AT-AATTAAA
1 AAATAAAAATTTATTTG-GATATAAATCAAA
23143118 ATAA-AAAAATTTAT
1 A-AATAAAAATTTAT
23143132 CTAAATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 12 0.32
29 14 0.38
30 11 0.30
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (30 bp):
AAATAAAAATTTATTTGGATATAAATCAAA
Found at i:23149925 original size:33 final size:30
Alignment explanation
Indices: 23149888--23149977 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 30
23149878 GCAAGTGATC
*
23149888 AAATTATATCCAAACAATAAAAAATAAATAATT
1 AAATTATAT-CAAA-AATAAAAAATAAA-AATA
* *
23149921 AAATTATAT-TAAAATAATAAATAAAAATA
1 AAATTATATCAAAAATAAAAAATAAAAATA
23149950 AAATTATATTCAAATAATGAAAAAATAA
1 AAATTATA-TCAAA-AAT-AAAAAATAA
23149978 TAAAGTAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 11 0.23
30 13 0.27
31 4 0.08
32 3 0.06
33 17 0.35
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (30 bp):
AAATTATATCAAAAATAAAAAATAAAAATA
Found at i:23149942 original size:26 final size:27
Alignment explanation
Indices: 23149905--23149977 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 27
23149895 ATCCAAACAA
*
23149905 TAAAA-AATAAAT-AATTAAATTATAT
1 TAAAATAATAAATAAATAAAATTATAT
23149930 TAAAATAATAAATAAAAATAAAATTATAT
1 TAAAATAATAAAT--AAATAAAATTATAT
*
23149959 TCAAATAATGAAA-AAATAA
1 TAAAATAAT-AAATAAATAA
23149978 TAAAGTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 5 0.12
26 7 0.17
27 6 0.15
29 20 0.49
30 3 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (27 bp):
TAAAATAATAAATAAATAAAATTATAT
Found at i:23149964 original size:29 final size:30
Alignment explanation
Indices: 23149903--23149991 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
23149893 ATATCCAAAC
* * *
23149903 AATAAAAAATAAATAATTAAATTATATTAA
1 AATAATAAATAAATAATAAAATTATATTCA
23149933 AATAATAAATAAA-AATAAAATTATATTCA
1 AATAATAAATAAATAATAAAATTATATTCA
* *
23149962 AATAATGAAA-AAATAATAAAGTAATATTCA
1 AATAAT-AAATAAATAATAAAATTATATTCA
23149992 CACAATTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 23 0.44
30 29 0.56
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (30 bp):
AATAATAAATAAATAATAAAATTATATTCA
Found at i:23150760 original size:21 final size:21
Alignment explanation
Indices: 23150734--23150903 Score: 186
Period size: 21 Copynumber: 8.3 Consensus size: 21
23150724 AAGAAAAAAC
*
23150734 CTGCTGAAGGAAACCAGTAGT
1 CTGCTGCAGGAAACCAGTAGT
* * *
23150755 CTGCTGCAAGAAATCAGTAAT
1 CTGCTGCAGGAAACCAGTAGT
* *
23150776 CTGCTGCAGGAAACCAGCAAT
1 CTGCTGCAGGAAACCAGTAGT
23150797 CTGCTGCAGGAAACCAGTAGT
1 CTGCTGCAGGAAACCAGTAGT
* * *
23150818 TTGCTGCAGGAAACTAGTAAT
1 CTGCTGCAGGAAACCAGTAGT
** * *
23150839 CTATTGCAGGAAACCAGCAGA
1 CTGCTGCAGGAAACCAGTAGT
*
23150860 C-G-T--AGGAAACCAGCAGT
1 CTGCTGCAGGAAACCAGTAGT
23150877 CTGCTGCAGGAAACCAGTAGT
1 CTGCTGCAGGAAACCAGTAGT
23150898 CTGCTG
1 CTGCTG
23150904 TTGTCTTTGC
Statistics
Matches: 123, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
17 14 0.11
18 1 0.01
19 2 0.02
21 106 0.86
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.19
Consensus pattern (21 bp):
CTGCTGCAGGAAACCAGTAGT
Found at i:23152042 original size:16 final size:17
Alignment explanation
Indices: 23152009--23152043 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
23151999 AACCGATCTT
23152009 AAAACCGATTATAATCG
1 AAAACCGATTATAATCG
23152026 AAAACCGATTA-AATCG
1 AAAACCGATTATAATCG
23152042 AA
1 AA
23152044 CCGAAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.20
Consensus pattern (17 bp):
AAAACCGATTATAATCG
Found at i:23152636 original size:10 final size:11
Alignment explanation
Indices: 23152618--23152672 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 11
23152608 AATTAAATAT
23152618 ATAAAATTTTA
1 ATAAAATTTTA
23152629 AT-AAATTTTA
1 ATAAAATTTTA
* *
23152639 A-CATATTTTAAA
1 ATAAAATTTT--A
23152651 ATAAATATTTTA
1 ATAAA-ATTTTA
23152663 ATAAAATTTT
1 ATAAAATTTT
23152673 TATTATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
10 15 0.42
11 7 0.19
12 8 0.22
13 1 0.03
14 5 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAAAATTTTA
Found at i:23157266 original size:27 final size:27
Alignment explanation
Indices: 23157235--23157291 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
23157225 ACATAATTTG
23157235 ATTGCAAGCGA-AGCATTCCTTGAAAAA
1 ATTGCAAGC-ATAGCATTCCTTGAAAAA
* *
23157262 ATTGCAAGCATAGCTTTCCTTGAAGAA
1 ATTGCAAGCATAGCATTCCTTGAAAAA
23157289 ATT
1 ATT
23157292 ATTGAAGCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (27 bp):
ATTGCAAGCATAGCATTCCTTGAAAAA
Found at i:23158934 original size:231 final size:231
Alignment explanation
Indices: 23158531--23158963 Score: 805
Period size: 231 Copynumber: 1.9 Consensus size: 231
23158521 TGGCTGTTAA
* *
23158531 CCACAAGGTCGGAGGTTCGAGCCCTCTTTCTAGCGATAAATTTTTCCTGATTTCTTTCTCTTGGG
1 CCACAAGGTCGGAGGTTCGAGCCCTCTTTCTAGCGATAAATTTTTCCCGATTTCTTACTCTTGGG
23158596 TGTAAAAATAATAATAAAAAAATCATTCGGTAATCAGCGCATTTCATTGCATTGGCGGCGATTGA
66 TGTAAAAATAATAATAAAAAAATCATTCGGTAATCAGCGCATTTCATTGCATTGGCGGCGATTGA
*
23158661 CCTAATTTAGGTTTTTGCTTTTCTTTTGTTTGTTAAAATAATAATAAAAAAATTCTTCAGAAATC
131 CCTAATTTAGGTGTTTGCTTTTCTTTTGTTTGTTAAAATAATAATAAAAAAATTCTTCAGAAATC
23158726 GGCGATTTCATTGGCGGCGATTGACCAATTTTCAGG
196 GGCGATTTCATTGGCGGCGATTGACCAATTTTCAGG
*
23158762 CCACAAGGTCGGAGGTTCGAG-CCTTTCTTCTAGCGATAAATTTTTCCCGATTTCTTACTCTTGG
1 CCACAAGGTCGGAGGTTCGAGCCCTCT-TTCTAGCGATAAATTTTTCCCGATTTCTTACTCTTGG
*
23158826 GTGTAAAAATAATAATAAAAAAATCATTCGGTAATGAGCGCATTTCATTGCATTGGCGGCGATTG
65 GTGTAAAAATAATAATAAAAAAATCATTCGGTAATCAGCGCATTTCATTGCATTGGCGGCGATTG
23158891 ACCTAATTTAGGTGTTTGCTTTTCTTTTGTTTGTTAAAATAATAATAAAAAAATTCTTCAGAAAT
130 ACCTAATTTAGGTGTTTGCTTTTCTTTTGTTTGTTAAAATAATAATAAAAAAATTCTTCAGAAAT
23158956 CGGCGATT
195 CGGCGATT
23158964 GACCAATTTT
Statistics
Matches: 196, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
230 4 0.02
231 192 0.98
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (231 bp):
CCACAAGGTCGGAGGTTCGAGCCCTCTTTCTAGCGATAAATTTTTCCCGATTTCTTACTCTTGGG
TGTAAAAATAATAATAAAAAAATCATTCGGTAATCAGCGCATTTCATTGCATTGGCGGCGATTGA
CCTAATTTAGGTGTTTGCTTTTCTTTTGTTTGTTAAAATAATAATAAAAAAATTCTTCAGAAATC
GGCGATTTCATTGGCGGCGATTGACCAATTTTCAGG
Found at i:23161924 original size:17 final size:18
Alignment explanation
Indices: 23161904--23161937 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23161894 TTATATTATT
23161904 TGTTTTAAT-ATTTTTTA
1 TGTTTTAATAATTTTTTA
23161921 TGTTTTAATAATTTTTT
1 TGTTTTAATAATTTTTT
23161938 TCACCACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TGTTTTAATAATTTTTTA
Found at i:23162016 original size:3 final size:3
Alignment explanation
Indices: 23162010--23162057 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
23162000 AAAATTATTA
*
23162010 AAT AAT AAT AA- AAC AA- AAT AAAT AA- AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
23162053 AAT AA
1 AAT AA
23162058 ATTAGAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.15
3 32 0.78
4 3 0.07
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:23164120 original size:22 final size:23
Alignment explanation
Indices: 23164094--23164137 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23164084 TTTTAAATTT
*
23164094 TATTTTGA-ATAAAAATAATTAA
1 TATTTTAATATAAAAATAATTAA
23164116 TATTTTAATATAAAAATAATTA
1 TATTTTAATATAAAAATAATTA
23164138 TTATCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TATTTTAATATAAAAATAATTAA
Found at i:23164152 original size:23 final size:23
Alignment explanation
Indices: 23164102--23164154 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
23164092 TTTATTTTGA
***
23164102 ATAAAAATAATTAATATTTTAAT
1 ATAAAAATAATTAATATCAAAAT
*
23164125 ATAAAAATAATTATTATCAAAAT
1 ATAAAAATAATTAATATCAAAAT
*
23164148 TTAAAAA
1 ATAAAAA
23164155 ATCATTGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAAATAATTAATATCAAAAT
Found at i:23165858 original size:12 final size:12
Alignment explanation
Indices: 23165841--23165873 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
23165831 GAATTTCAAT
23165841 TTTTGTTTTCAG
1 TTTTGTTTTCAG
23165853 TTTTG-TTTCAG
1 TTTTGTTTTCAG
*
23165864 TTTGGTTTTC
1 TTTTGTTTTC
23165874 TTGTGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.06, C:0.09, G:0.18, T:0.67
Consensus pattern (12 bp):
TTTTGTTTTCAG
Found at i:23172179 original size:22 final size:23
Alignment explanation
Indices: 23172153--23172221 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
23172143 GATTGTCATG
*
23172153 ATTTTTAATATTAAAAAAT-ATA
1 ATTTTTAATATTAAAAAATAAAA
*
23172175 A-TTTTAAAATATAAAAAATAAAA
1 ATTTTTAATAT-TAAAAAATAAAA
* *
23172198 ATTTTAAATATTAACAAAAGAAAA
1 ATTTTTAATATTAA-AAAATAAAA
23172222 TATACATCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 8 0.21
22 9 0.24
23 6 0.16
24 15 0.39
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (23 bp):
ATTTTTAATATTAAAAAATAAAA
Found at i:23172191 original size:23 final size:23
Alignment explanation
Indices: 23172155--23172205 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
23172145 TTGTCATGAT
* *
23172155 TTTTAATAT-TAAAAAATAT-AA
1 TTTTAAAATATAAAAAATAAAAA
23172176 TTTTAAAATATAAAAAATAAAAA
1 TTTTAAAATATAAAAAATAAAAA
23172199 TTTTAAA
1 TTTTAAA
23172206 TATTAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 8 0.31
22 9 0.35
23 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TTTTAAAATATAAAAAATAAAAA
Found at i:23172221 original size:23 final size:22
Alignment explanation
Indices: 23172153--23172222 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
23172143 GATTGTCATG
* * *
23172153 ATTTTTAATATTAAAAAATATA
1 ATTTTAAATATTAAAAAAAAAA
23172175 ATTTTAAA-ATATAAAAAATAAAA
1 ATTTTAAATAT-TAAAAAA-AAAA
*
23172198 ATTTTAAATATTAACAAAAGAAA
1 ATTTTAAATATTAA-AAAAAAAA
23172221 AT
1 AT
23172223 ATACATCGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.05
22 14 0.35
23 18 0.45
24 6 0.15
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (22 bp):
ATTTTAAATATTAAAAAAAAAA
Found at i:23179895 original size:62 final size:59
Alignment explanation
Indices: 23179829--23179946 Score: 182
Period size: 62 Copynumber: 1.9 Consensus size: 59
23179819 TTTTTTTCAG
* *
23179829 AATTTCTAAATTTTTCACCATTTGGGTCAATTTAGAAATTCTTTTTATTTGTCTTTTTTTTT
1 AATTTCTAAAATTTTCACCATTTGGGTCAATTTAAAAATT-TTTTTA-TT-TCTTTTTTTTT
*
23179891 AATTTCTAAAATTTTCACCATTTGGGTCTATTTAAAAATTTTTTTATTTCTTTTTT
1 AATTTCTAAAATTTTCACCATTTGGGTCAATTTAAAAATTTTTTTATTTCTTTTTT
23179947 AAAAATAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 8 0.15
60 2 0.04
61 6 0.11
62 37 0.70
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.58
Consensus pattern (59 bp):
AATTTCTAAAATTTTCACCATTTGGGTCAATTTAAAAATTTTTTTATTTCTTTTTTTTT
Found at i:23181222 original size:8 final size:8
Alignment explanation
Indices: 23181192--23181222 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
23181182 TTTCTCATTT
23181192 TTTTTTCA
1 TTTTTTCA
23181200 GTTTTTTCA
1 -TTTTTTCA
23181209 TTTTTTCA
1 TTTTTTCA
23181217 TTTTTT
1 TTTTTT
23181223 TATAAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:23181223 original size:9 final size:9
Alignment explanation
Indices: 23181191--23181223 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
23181181 TTTTCTCATT
23181191 TTTTTTTCA
1 TTTTTTTCA
*
23181200 GTTTTTTCA
1 TTTTTTTCA
23181209 -TTTTTTCA
1 TTTTTTTCA
23181217 TTTTTTT
1 TTTTTTT
23181224 ATAAAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:23181367 original size:6 final size:6
Alignment explanation
Indices: 23181345--23181392 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
23181335 TAACATACTC
* *
23181345 TTTT-T TTTTGT TTTT-T TTGT-T TTTTA- TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
23181389 TTTT
1 TTTT
23181393 TGAAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
5 17 0.45
6 21 0.55
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (6 bp):
TTTTAT
Done.