Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 73 of 218
Found at i:21785290 original size:26 final size:26
Alignment explanation
Indices: 21785254--21785306 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
21785244 AGTATTTACT
*
21785254 TAAAGAGGCTATATGATTGAGGGTGG
1 TAAAGAGGCTATATGATTGAAGGTGG
21785280 TAAAGAGGCTATATGATTGAAGGTGG
1 TAAAGAGGCTATATGATTGAAGGTGG
21785306 T
1 T
21785307 GAATGAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.28
Consensus pattern (26 bp):
TAAAGAGGCTATATGATTGAAGGTGG
Found at i:21785995 original size:20 final size:20
Alignment explanation
Indices: 21785952--21786021 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
21785942 GTTTCTTTTG
*
21785952 AATCGATTTTTTGTTGTCTTA
1 AATCGATTCTTTGTTGT-TTA
*
21785973 AATTGATTCTTTGTTGTTTA
1 AATCGATTCTTTGTTGTTTA
21785993 AATCGATTCTTTGTTGTTTA
1 AATCGATTCTTTGTTGTTTA
*
21786013 ACTCGATTC
1 AATCGATTC
21786022 AAACGTCAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (20 bp):
AATCGATTCTTTGTTGTTTA
Found at i:21795109 original size:40 final size:40
Alignment explanation
Indices: 21795054--21795133 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
21795044 ATCTCTTCCA
21795054 ATTATTTATTGTGCACGCACAAAGGAATGTGTTTGGTCCC
1 ATTATTTATTGTGCACGCACAAAGGAATGTGTTTGGTCCC
21795094 ATTATTTATTGTGCACGCACAAAGGAATGTGTTTGGTCCC
1 ATTATTTATTGTGCACGCACAAAGGAATGTGTTTGGTCCC
21795134 TCTCCCTAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (40 bp):
ATTATTTATTGTGCACGCACAAAGGAATGTGTTTGGTCCC
Found at i:21796949 original size:30 final size:30
Alignment explanation
Indices: 21796913--21796974 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
21796903 AAATTATGAG
21796913 TTAGTGGGAAGAGATGGAACAAACATTGAC
1 TTAGTGGGAAGAGATGGAACAAACATTGAC
21796943 TTAGTGGGAAGAGATGGAACAAACATTGAC
1 TTAGTGGGAAGAGATGGAACAAACATTGAC
21796973 TT
1 TT
21796975 CTTTTTCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.23
Consensus pattern (30 bp):
TTAGTGGGAAGAGATGGAACAAACATTGAC
Found at i:21801724 original size:13 final size:13
Alignment explanation
Indices: 21801708--21801749 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
21801698 AAATGGACTA
*
21801708 TTTTTTATTTGTT
1 TTTTTTATTTATT
21801721 TTTTTTATTATATT
1 TTTTTTATT-TATT
21801735 TTTGTTTATTTATT
1 TTT-TTTATTTATT
21801749 T
1 T
21801750 CTGATTTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 11 0.42
15 6 0.23
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (13 bp):
TTTTTTATTTATT
Found at i:21803475 original size:23 final size:23
Alignment explanation
Indices: 21803445--21803572 Score: 66
Period size: 23 Copynumber: 5.4 Consensus size: 23
21803435 GATGATAAGA
*
21803445 TGCTGTCCAAATTGGTGCTTAAT
1 TGCTGTCCAAATTAGTGCTTAAT
* **
21803468 TGCTGTCC-ATTTTTTAGCATACTAAT
1 TGCTGTCCAAATTAGT-GC-T--TAAT
*
21803494 T-CTGTCCAAATTAGTGCTTAAA
1 TGCTGTCCAAATTAGTGCTTAAT
* **
21803516 TGCTGTCC-ATTTTTTGGCATATTAA-
1 TGCTGTCCAAATTAGT-GC---TTAAT
*
21803541 TGCTGTCCAAATTAGTGCTTAAA
1 TGCTGTCCAAATTAGTGCTTAAT
*
21803564 TGATGTCCA
1 TGCTGTCCA
21803573 TTTTTTTACA
Statistics
Matches: 79, Mismatches: 14, Indels: 24
0.68 0.12 0.21
Matches are distributed among these distances:
22 16 0.20
23 26 0.33
24 2 0.03
25 18 0.23
26 17 0.22
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (23 bp):
TGCTGTCCAAATTAGTGCTTAAT
Found at i:21803520 original size:48 final size:48
Alignment explanation
Indices: 21803444--21803600 Score: 219
Period size: 48 Copynumber: 3.3 Consensus size: 48
21803434 TGATGATAAG
* *
21803444 ATGCTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATACTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATACTA
* * *
21803492 ATTCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTGGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATACTA
* *
21803540 ATGCTGTCCAAATTAGTGCTTAAATGATGTCCATTTTTTTA-CA-AATCA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA-TTTTTTAGCATACT-A
21803588 ATGCTGTCCAAAT
1 ATGCTGTCCAAAT
21803601 GTTGTTACTG
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
47 2 0.02
48 90 0.92
49 6 0.06
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (48 bp):
ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATACTA
Found at i:21803546 original size:25 final size:25
Alignment explanation
Indices: 21803463--21803549 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
21803453 AAATTGGTGC
*
21803463 TTAATTGCTGTCCATTTTTTAGCATA
1 TTAA-TGCTGTCCATTTTTTGGCATA
* * ** *
21803489 CTAATTCTGTCCA-AATTAGTGC-T-
1 TTAATGCTGTCCATTTTTTG-GCATA
*
21803512 TAAATGCTGTCCATTTTTTGGCATA
1 TTAATGCTGTCCATTTTTTGGCATA
21803537 TTAATGCTGTCCA
1 TTAATGCTGTCCA
21803550 AATTAGTGCT
Statistics
Matches: 44, Mismatches: 13, Indels: 9
0.67 0.20 0.14
Matches are distributed among these distances:
23 12 0.27
24 7 0.16
25 22 0.50
26 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (25 bp):
TTAATGCTGTCCATTTTTTGGCATA
Found at i:21806749 original size:16 final size:17
Alignment explanation
Indices: 21806728--21806760 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21806718 AAAACTAAAA
21806728 AAATA-TTACACTTTCC
1 AAATATTTACACTTTCC
*
21806744 AAATATTTACATTTTCC
1 AAATATTTACACTTTCC
21806761 TATTTTTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTTACACTTTCC
Found at i:21816478 original size:4 final size:4
Alignment explanation
Indices: 21816469--21816502 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
21816459 AAGTTTTATT
21816469 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
21816503 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:21816510 original size:22 final size:22
Alignment explanation
Indices: 21816452--21816511 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
21816442 AAGTGGCCCA
*
21816452 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
21816476 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
21816497 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
21816512 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:21823064 original size:6 final size:6
Alignment explanation
Indices: 21823053--21823078 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21823043 CAAACATACA
21823053 ACTCAC ACTCAC ACTCAC ACTCAC AC
1 ACTCAC ACTCAC ACTCAC ACTCAC AC
21823079 ATAACCGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (6 bp):
ACTCAC
Found at i:21842317 original size:13 final size:13
Alignment explanation
Indices: 21842301--21842326 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21842291 TACTTTGAAA
21842301 AAAAAAACACTTT
1 AAAAAAACACTTT
21842314 AAAAAAACACTTT
1 AAAAAAACACTTT
21842327 TTTTTTTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAAACACTTT
Found at i:21842722 original size:4 final size:4
Alignment explanation
Indices: 21842713--21842738 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21842703 TATATTTCTT
21842713 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
21842739 TAATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:21843410 original size:20 final size:20
Alignment explanation
Indices: 21843372--21843411 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21843362 TTTAAGGAAC
*
21843372 AATTTTCTTATTTTTTTTAA
1 AATTTTCTTATTTTATTTAA
21843392 AATTTT-TTATTTTGATTTAA
1 AATTTTCTTATTTT-ATTTAA
21843412 TATATAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
AATTTTCTTATTTTATTTAA
Found at i:21844798 original size:21 final size:21
Alignment explanation
Indices: 21844772--21844845 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
21844762 GGTTTTAGAG
21844772 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
** *** ***
21844793 TTAGGGTTAGGTTTGTAGGGT
1 TTAGGGTTTTGTTAAAATAAT
21844814 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
*
21844835 TTAAGGTTTTG
1 TTAGGGTTTTG
21844846 GGTTTTAAGA
Statistics
Matches: 36, Mismatches: 17, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (21 bp):
TTAGGGTTTTGTTAAAATAAT
Found at i:21844980 original size:35 final size:33
Alignment explanation
Indices: 21844867--21844996 Score: 138
Period size: 34 Copynumber: 3.8 Consensus size: 33
21844857 TTTTAAAAAA
* *
21844867 TAAATTAGGATTTAGTGTTCTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTAGTG---TTTTTAAAAAATTAAT
* *
21844903 TAAATTAGGGTTTAAG-GGTTTTAAATAAATAAAT
1 TAAATTAGGGTTT-AGTGTTTTTAAA-AAATTAAT
21844937 TAAATTAGGGTTTAGTGTTTTTAAGAAAATTTAAT
1 TAAATTAGGGTTTAGTGTTTTTAA-AAAA-TTAAT
*
21844972 TAGATTAGGGTTTAGT-TTTTTAAAA
1 TAAATTAGGGTTTAGTGTTTTTAAAA
21844997 TAATATTGTG
Statistics
Matches: 82, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
33 10 0.12
34 37 0.45
35 20 0.24
36 13 0.16
37 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (33 bp):
TAAATTAGGGTTTAGTGTTTTTAAAAAATTAAT
Found at i:21845195 original size:125 final size:125
Alignment explanation
Indices: 21845059--21845321 Score: 368
Period size: 125 Copynumber: 2.1 Consensus size: 125
21845049 TTTTGTTTTT
* * *
21845059 TTTTTCTACAGTAATTCCT-AAAATATAATTTTGAGAATACGGCTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAATTCCTGAAAA-ATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAAA
* * *
21845123 ACACTTCAAGCAGGATGCACTGTCAGCAAAATT-ATTGAAAAAAGCTCCCACATGGACTCTC
65 ACACTTCAAGCAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACATCGACGCTC
** **
21845184 TTTTTCTACAGTTGTTCCTGAAAAATAATTTTGAGAAGACGTTTCCGAACAAATAGTGTCAAAAA
1 TTTTTCTACAGTAATTCCTGAAAAATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAAAA
** *
21845249 TGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACGTCGACGCTC
66 CACTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACATCGACGCTC
*
21845309 TTTTTCTATAGTA
1 TTTTTCTACAGTA
21845322 GTTCATGTTT
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
125 116 0.96
126 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (125 bp):
TTTTTCTACAGTAATTCCTGAAAAATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAAAA
CACTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACATCGACGCTC
Found at i:21848439 original size:24 final size:23
Alignment explanation
Indices: 21848383--21848439 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
21848373 AAGAACTTCT
*
21848383 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
21848406 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
21848431 ATCTTTATT
1 AT-TTTATT
21848440 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 13 0.45
26 2 0.07
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:21849460 original size:7 final size:7
Alignment explanation
Indices: 21849450--21849474 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21849440 TTATATACAT
21849450 AATACTA
1 AATACTA
21849457 AATACTA
1 AATACTA
21849464 AATACTA
1 AATACTA
21849471 AATA
1 AATA
21849475 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:21852635 original size:43 final size:42
Alignment explanation
Indices: 21852588--21852712 Score: 123
Period size: 41 Copynumber: 3.0 Consensus size: 42
21852578 TCCCAAACGT
21852588 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACA-GTAATCACATATCGATGCCACTGTCCCAGACAG
** * * * *
21852631 GGTCTTACACAAATCAAATA-CGATGCCAATGTCCTAGACAT
1 GGTCTTACAGTAATCACATATCGATGCCACTGTCCCAGACAG
21852672 GGTCTTACACGT-ATACACA-ATTCGATGCCAAC-GTCCCAGAC
1 GGTCTTACA-GTAAT-CACATA-TCGATGCC-ACTGTCCCAGAC
21852713 GTGGTATTAC
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
41 30 0.45
42 11 0.17
43 24 0.36
44 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
GGTCTTACAGTAATCACATATCGATGCCACTGTCCCAGACAG
Found at i:21852723 original size:43 final size:43
Alignment explanation
Indices: 21852569--21852725 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
21852559 GGCTCGTACA
* *
21852569 ATGCCAACGTCCCAAACGTGGTCTTACATGTA-ATCAC-ATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATA-CACAAT-TCG
** *
21852612 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAT-CA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATACACAATTCG
* * *
21852653 ATGCCAATGTCCTAGACATGGTCTTACACGTATACACAATTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATTCG
*
21852696 ATGCCAACGTCCCAGACGTGGTATTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
21852726 AAAATACATA
Statistics
Matches: 91, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
41 27 0.30
42 9 0.10
43 54 0.59
44 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATTCG
Found at i:21852723 original size:84 final size:84
Alignment explanation
Indices: 21852569--21852724 Score: 194
Period size: 84 Copynumber: 1.9 Consensus size: 84
21852559 GGCTCGTACA
* *
21852569 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAGGGT
*
21852634 CTTACACAAATCAAATACG
66 ATTACACAAATCAAATACG
* * *
21852653 ATGCCAATGTCCTAGACATGGTCTTACACGT-ATACACA-ATTCGATGCCAAC-GTCCCAGAC-G
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAAT-CACATA-TCGATGCC-ACTGTCCCAGACAG
21852714 TGGTATTACAC
63 -GGTATTACAC
21852725 GAAAATACAT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
83 4 0.06
84 56 0.90
85 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAGGGT
ATTACACAAATCAAATACG
Found at i:21854139 original size:39 final size:40
Alignment explanation
Indices: 21854090--21854272 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 40
21854080 GCTACTCGTT
*
21854090 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
21854130 C-AATTCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
21854169 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
21854208 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
21854249 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
21854273 ACATCATTCA
Statistics
Matches: 118, Mismatches: 16, Indels: 18
0.78 0.11 0.12
Matches are distributed among these distances:
38 2 0.02
39 62 0.53
40 42 0.36
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21854218 original size:79 final size:81
Alignment explanation
Indices: 21854090--21854273 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
21854080 GCTACTCGTT
* * *
21854090 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCG
* * *
21854153 GATTTAGTAAC-TCGCG
65 GATATAGTAACTTAGCA
* **
21854169 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
21854232 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
21854249 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21854274 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 24 0.27
79 47 0.53
80 18 0.20
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:21857609 original size:21 final size:21
Alignment explanation
Indices: 21857585--21857628 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
21857575 AAATAATTAA
*
21857585 TTAAAGAGAACTTTGAGAAAT
1 TTAAAGAGAAATTTGAGAAAT
*
21857606 TTAAAGAGAAATTTGAGAGAT
1 TTAAAGAGAAATTTGAGAAAT
21857627 TT
1 TT
21857629 GAGAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.32
Consensus pattern (21 bp):
TTAAAGAGAAATTTGAGAAAT
Found at i:21857628 original size:9 final size:9
Alignment explanation
Indices: 21857590--21857653 Score: 56
Period size: 9 Copynumber: 6.4 Consensus size: 9
21857580 ATTAATTAAA
*
21857590 GAGAACTTT
1 GAGAAATTT
21857599 GAGAAATTT
1 GAGAAATTT
21857608 AAAGAGAAATTT
1 ---GAGAAATTT
*
21857620 GAGAGATTT
1 GAGAAATTT
21857629 GAGAAATTT
1 GAGAAATTT
21857638 AAGGAGAAATTT
1 ---GAGAAATTT
21857650 GAGA
1 GAGA
21857654 GTTTTTTGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 28 0.61
12 18 0.39
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.28
Consensus pattern (9 bp):
GAGAAATTT
Found at i:21857630 original size:30 final size:30
Alignment explanation
Indices: 21857596--21857654 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
21857586 TAAAGAGAAC
21857596 TTTGAGAAATTTAAAGAGAAATTTGAGAGA
1 TTTGAGAAATTTAAAGAGAAATTTGAGAGA
*
21857626 TTTGAGAAATTTAAGGAGAAATTTGAGAG
1 TTTGAGAAATTTAAAGAGAAATTTGAGAG
21857655 TTTTTTGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (30 bp):
TTTGAGAAATTTAAAGAGAAATTTGAGAGA
Found at i:21858519 original size:20 final size:19
Alignment explanation
Indices: 21858496--21858554 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
21858486 ACTAAAATTG
21858496 ATTAAAGTTAGATTAAGTTA
1 ATTAAA-TTAGATTAAGTTA
* *
21858516 ATTAAATCATGATTATGTTA
1 ATTAAATTA-GATTAAGTTA
*
21858536 ATTAAATTAGTTTAA-TTA
1 ATTAAATTAGATTAAGTTA
21858554 A
1 A
21858555 ACTTTAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 4 0.12
19 6 0.18
20 23 0.70
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTAAATTAGATTAAGTTA
Found at i:21859224 original size:17 final size:17
Alignment explanation
Indices: 21859202--21859234 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21859192 AATTAATCGG
21859202 GAAAAAACTAAAATTGC
1 GAAAAAACTAAAATTGC
21859219 GAAAAAACTAAAATTG
1 GAAAAAACTAAAATTG
21859235 TGAATTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (17 bp):
GAAAAAACTAAAATTGC
Found at i:21863163 original size:12 final size:13
Alignment explanation
Indices: 21863118--21863164 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
21863108 GAATTTCAAA
21863118 TAATATTATTAATT
1 TAATATTA-TAATT
*
21863132 TAATATATACAATCT
1 TAATAT-TATAAT-T
21863147 TAATATTA-AATT
1 TAATATTATAATT
21863159 TAATAT
1 TAATAT
21863165 GTATTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 11 0.37
15 9 0.30
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATATTATAATT
Found at i:21864188 original size:5 final size:5
Alignment explanation
Indices: 21864178--21864211 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
21864168 ACAATTTCAC
* *
21864178 TCGAT TCGAT TCGAT TCGAT TCGAC TCGAC TCGA
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
21864212 ATTTCATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (5 bp):
TCGAT
Found at i:21864587 original size:27 final size:28
Alignment explanation
Indices: 21864548--21864623 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
21864538 TACTAGTCAC
*
21864548 GCCAATGGAATTGGCGGCACCAAAT-GT
1 GCCAATGCAATTGGCGGCACCAAATGGT
*
21864575 GCCAATGCCATTGGCGGCACC-AATGGT
1 GCCAATGCAATTGGCGGCACCAAATGGT
*
21864602 GCC-ATACTAATTGGCGGCACCA
1 GCCAATGC-AATTGGCGGCACCA
21864624 CTCGTATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.14
27 36 0.86
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (28 bp):
GCCAATGCAATTGGCGGCACCAAATGGT
Found at i:21864791 original size:19 final size:21
Alignment explanation
Indices: 21864753--21864791 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
21864743 AATAATTGAT
*
21864753 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
21864774 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
21864792 TTATTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:21864845 original size:3 final size:3
Alignment explanation
Indices: 21864837--21864861 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21864827 AAAATAAAAG
21864837 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
21864862 GTTGTTGTTG
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:21864866 original size:3 final size:3
Alignment explanation
Indices: 21864860--21864915 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
21864850 ATTATTATTA
21864860 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
21864908 TTG TTG TT
1 TTG TTG TT
21864916 AGTATGAAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:21865172 original size:12 final size:12
Alignment explanation
Indices: 21865155--21865185 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21865145 ATAATTTTAG
21865155 TGTGTATTATTT
1 TGTGTATTATTT
21865167 TGTGTATTATTT
1 TGTGTATTATTT
*
21865179 TGAGTAT
1 TGTGTAT
21865186 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:21865781 original size:18 final size:18
Alignment explanation
Indices: 21865738--21865782 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
21865728 TTGACATGGT
*
21865738 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
**
21865756 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
21865774 TGGTGGCGA
1 TGGTGGCGA
21865783 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.49, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:21871467 original size:19 final size:20
Alignment explanation
Indices: 21871429--21871467 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
21871419 TTTAAACACA
21871429 CAAATATTACAAAAAAAATT
1 CAAATATTACAAAAAAAATT
* *
21871449 CAAAT-TTATAAATAAAATT
1 CAAATATTACAAAAAAAATT
21871468 ACCTTTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
CAAATATTACAAAAAAAATT
Found at i:21871528 original size:34 final size:34
Alignment explanation
Indices: 21871490--21871560 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
21871480 TTTTTTTTCC
*
21871490 TTCCTTCCCTCTTCTTCTTCTTTTTT-TTTCTCTT
1 TTCCTTCCCTCTTCTT-TCCTTTTTTCTTTCTCTT
* * *
21871524 TTCCTTTCCTTTTCTTTCCTTTTTTCTTTCTTTT
1 TTCCTTCCCTCTTCTTTCCTTTTTTCTTTCTCTT
21871558 TTC
1 TTC
21871561 TTCTCTTCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 8 0.25
34 24 0.75
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (34 bp):
TTCCTTCCCTCTTCTTTCCTTTTTTCTTTCTCTT
Found at i:21871531 original size:5 final size:5
Alignment explanation
Indices: 21871523--21871667 Score: 66
Period size: 5 Copynumber: 30.6 Consensus size: 5
21871513 TTTTTTCTCT
* **
21871523 TTTCC TTTCC TTTTC TTTCC TTT-- TTT-C TTT-C TTTTT TCTTCTC TTCTCC
1 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC T-TTC-C TT-TCC
* * *
21871572 TTTTC TTCTTC TTT-C TTTCC TTT-- TTTCTC TTCTCC TTTCC TTTTC
1 TTTCC TT-TCC TTTCC TTTCC TTTCC TTTC-C TT-TCC TTTCC TTTCC
*
21871617 TTT-C TTTCC TCTCC TTT-C TTT-C TTT-C TTT-C TTT-C TTT-C TTTCC
1 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC
*
21871660 TCTCC TTT
1 TTTCC TTT
21871668 GTTTCTTTCT
Statistics
Matches: 116, Mismatches: 11, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
3 6 0.05
4 39 0.34
5 50 0.43
6 16 0.14
7 5 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (5 bp):
TTTCC
Found at i:21871544 original size:49 final size:46
Alignment explanation
Indices: 21871484--21871648 Score: 133
Period size: 44 Copynumber: 3.8 Consensus size: 46
21871474 TTTCCCTTTT
* * *
21871484 TTTTCCTTCCTTCCCTCTTCTTCTTCTTTTTTTTTCTCTTTTCCTTTCC
1 TTTTCTTTCCTT-CCTCTTC-T-TTCTTTTTTCTTCTCTTCTCCTTTCC
*
21871533 TTTTCTTTCCTT--TTTTCTTTCTTTTTTCTTCTC-T-T-C--TCC
1 TTTTCTTTCCTTCCTCTTCTTTCTTTTTTCTTCTCTTCTCCTTTCC
*
21871572 TTTTC-TT-CTT-CT-TTCTTTC-CTTTT-TTCTCTTCTCCTTTCC
1 TTTTCTTTCCTTCCTCTTCTTTCTTTTTTCTTCTCTTCTCCTTTCC
* *
21871612 TTTTCTTTCTTTCCTCTCCTTTCTTTCTTTCTT-TCTT
1 TTTTCTTTCCTTCCTCTTCTTTCTTT-TTTCTTCTCTT
21871649 TCTTTCTTTC
Statistics
Matches: 96, Mismatches: 7, Indels: 29
0.73 0.05 0.22
Matches are distributed among these distances:
35 5 0.05
36 5 0.05
37 11 0.11
38 4 0.04
39 8 0.08
40 8 0.08
41 3 0.03
42 3 0.03
43 3 0.03
44 20 0.21
45 2 0.02
46 11 0.11
47 2 0.02
49 11 0.11
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (46 bp):
TTTTCTTTCCTTCCTCTTCTTTCTTTTTTCTTCTCTTCTCCTTTCC
Found at i:21871553 original size:4 final size:4
Alignment explanation
Indices: 21871534--21871680 Score: 99
Period size: 4 Copynumber: 35.0 Consensus size: 4
21871524 TTCCTTTCCT
21871534 TTTC TTTCC TTT- TTTC TTTC TTT- TTTC TTCTC TTCTCC TTT- TCTTC
1 TTTC TTT-C TTTC TTTC TTTC TTTC TTTC TT-TC TT-T-C TTTC T-TTC
*
21871580 -TTC TTTC TTTCC TTT- TTTC TCTTC -TCC TTTCC TTTTC TTTC TTTCC
1 TTTC TTTC TTT-C TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTT-C
* * *
21871626 TCTCC TTTC TTTC TTTC TTTC TTTC TTTC TTTCC TCTCC TTTG TTTC TTTC
1 T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC
21871677 TTTC
1 TTTC
21871681 CCTCCTTCTG
Statistics
Matches: 117, Mismatches: 8, Indels: 36
0.73 0.05 0.22
Matches are distributed among these distances:
3 15 0.13
4 66 0.56
5 28 0.24
6 8 0.07
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:21871623 original size:34 final size:33
Alignment explanation
Indices: 21871545--21871660 Score: 123
Period size: 34 Copynumber: 3.5 Consensus size: 33
21871535 TTCTTTCCTT
*
21871545 TTTTCTTTCTTT--TTTCTTCTCTTCTCCTTTTC
1 TTTTCTTTCTTTCCTTTTTTCTCTTCTCC-TTTC
21871577 TTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCC
1 TT-TTCTTTCTTTCCTTTTTTCTCTTCTCCTTT-C
* *
21871612 TTTTCTTTCTTTCCTCTCCTTTCT-TTCTTTCTTTC
1 TTTTCTTTCTTTCCT-T-TTTTCTCTTC-TCCTTTC
21871647 -TTTCTTTCTTTCCT
1 TTTTCTTTCTTTCCT
21871661 CTCCTTTGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 12
0.83 0.03 0.13
Matches are distributed among these distances:
32 2 0.03
33 10 0.14
34 30 0.41
35 22 0.30
36 10 0.14
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (33 bp):
TTTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTC
Found at i:21871667 original size:22 final size:22
Alignment explanation
Indices: 21871523--21871681 Score: 101
Period size: 22 Copynumber: 7.5 Consensus size: 22
21871513 TTTTTTCTCT
21871523 TTTCCTTTCCTTTTCTTTCCTTT-
1 TTTCCTTTCC-TTTCTTT-CTTTC
21871546 TTT-CTTT-CTTT-TTTCTTCTC
1 TTTCCTTTCCTTTCTTTCTT-TC
*
21871566 TTCTCCTTTTC-TTC-TTCTTTC
1 TT-TCCTTTCCTTTCTTTCTTTC
*
21871587 TTTCCTTT--TTTCTCTTC-TCC
1 TTTCCTTTCCTTTCT-TTCTTTC
* *
21871607 TTTCCTTTTCTTTCTTTCCTCTCC
1 TTTCCTTTCCTTTCTTT-CT-TTC
21871631 TTT-CTTT-CTTTCTTTCTTTC
1 TTTCCTTTCCTTTCTTTCTTTC
* *
21871651 TTT-CTTTCCTCTCCTTTGTTTC
1 TTTCCTTTCCT-TTCTTTCTTTC
21871673 TTT-CTTTCC
1 TTTCCTTTCC
21871682 CTCCTTCTGC
Statistics
Matches: 116, Mismatches: 4, Indels: 33
0.76 0.03 0.22
Matches are distributed among these distances:
18 3 0.03
19 7 0.06
20 30 0.26
21 15 0.13
22 47 0.41
23 8 0.07
24 6 0.05
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (22 bp):
TTTCCTTTCCTTTCTTTCTTTC
Found at i:21871673 original size:30 final size:30
Alignment explanation
Indices: 21871513--21871680 Score: 125
Period size: 30 Copynumber: 5.5 Consensus size: 30
21871503 CTTCTTCTTT
* * *
21871513 TTTTTTCTCTT-TTCCTTTCCTTTTCTTTCC
1 TTTTTTCT-TTCTTTCTTTCCTTTCCTCTCC
*
21871543 TTTTTTCTTTCTTT-TTT-CTTCTCTTCTCC
1 TTTTTTCTTTCTTTCTTTCCTT-TCCTCTCC
**
21871572 TTTTCTTC-TTCTTTCTTTCCTTTTTTCT-C
1 TTTT-TTCTTTCTTTCTTTCCTTTCCTCTCC
* *
21871601 -TTCTCCTTTCCTTTTCTTT-CTTTCCTCTCC
1 TTTTTTCTTT-C-TTTCTTTCCTTTCCTCTCC
21871631 TTTCTTTCTTTCTTTCTTTCTTTCTTTCCTCTCC
1 TTT-TTTCTTTCTTTCTTTC---CTTTCCTCTCC
21871665 TTTGTTTCTTTCTTTC
1 TTT-TTTCTTTCTTTC
21871681 CCTCCTTCTG
Statistics
Matches: 111, Mismatches: 12, Indels: 26
0.74 0.08 0.17
Matches are distributed among these distances:
27 2 0.02
28 7 0.06
29 29 0.26
30 36 0.32
31 6 0.05
32 5 0.05
34 26 0.23
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (30 bp):
TTTTTTCTTTCTTTCTTTCCTTTCCTCTCC
Found at i:21871680 original size:34 final size:34
Alignment explanation
Indices: 21871527--21871658 Score: 80
Period size: 34 Copynumber: 3.8 Consensus size: 34
21871517 TTCTCTTTTC
* *
21871527 CTTTCCTTTTCTTTCCTTT-TTTCTTTCTTT-TTT
1 CTTTCCTCTCCTTT-CTTTCTTTCTTTCTTTCTTT
*
21871560 CTTCTCTTCTCCTTT-TCTTC-TTCTTTCTTTCCTTT
1 CTT-TCCTCTCCTTTCT-TTCTTTCTTTCTTT-CTTT
*
21871595 -TTTCTCTTCTCCTTTCCTTTTCTTTCTTTCCTCTCCTTT
1 CTTTC-C-TCTCCTTT-C-TTTCTTTCTTT-CT-TTCTTT
*
21871634 CTTT-CT-TTCTTTCTTTCTTTCTTTC
1 CTTTCCTCTCCTTTCTTTCTTTCTTTC
21871659 CTCTCCTTTG
Statistics
Matches: 79, Mismatches: 6, Indels: 28
0.70 0.05 0.25
Matches are distributed among these distances:
32 1 0.01
33 18 0.23
34 21 0.27
35 12 0.15
36 5 0.06
37 4 0.05
38 8 0.10
39 6 0.08
40 4 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (34 bp):
CTTTCCTCTCCTTTCTTTCTTTCTTTCTTTCTTT
Found at i:21871760 original size:27 final size:27
Alignment explanation
Indices: 21871722--21871797 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
21871712 TAATACTAAC
21871722 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
21871749 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
21871776 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
21871798 GTGACCAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:21871895 original size:27 final size:28
Alignment explanation
Indices: 21871865--21871939 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 28
21871855 TTTGGTTTTT
21871865 TTTATATATTTTGGTAAAT-AAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
21871892 TTTATATATTTTGGTAAATAAAAAAAAAG
1 TTTATATATTTTGGTAAAT-AAAAAAAAG
*
21871921 TTGTA-ATATTTTGATAAAT
1 TT-TATATATTTTGGTAAAT
21871940 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 19 0.43
29 23 0.52
30 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAG
Found at i:21873851 original size:10 final size:11
Alignment explanation
Indices: 21873825--21873850 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21873815 TTTAAAAATA
21873825 AAAAATATTTT
1 AAAAATATTTT
21873836 AAAAATATTTT
1 AAAAATATTTT
21873847 AAAA
1 AAAA
21873851 TTAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:21879859 original size:18 final size:20
Alignment explanation
Indices: 21879822--21879864 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
21879812 ACTACTTCCA
*
21879822 ATTAATTAGTTCATTCTTCT
1 ATTAGTTAGTTCATTCTTCT
21879842 ATTAGTTAGTT-A-TCTTCT
1 ATTAGTTAGTTCATTCTTCT
21879860 ATTAG
1 ATTAG
21879865 GTAGCTACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 1 0.05
20 10 0.45
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTAGTTAGTTCATTCTTCT
Found at i:21886492 original size:20 final size:20
Alignment explanation
Indices: 21886455--21886494 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21886445 CGTAAAATGA
* *
21886455 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAACGATTTACT
*
21886475 TTTCTGTAAAACGATTTACT
1 TTTCTGGAAAACGATTTACT
21886495 GGAAATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAACGATTTACT
Found at i:21887150 original size:18 final size:18
Alignment explanation
Indices: 21887129--21887167 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
21887119 GTTGTATCTT
21887129 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
*
21887147 TAATTAAATTATTTTCCA
1 TAATTAAATTATTATCCA
21887165 TAA
1 TAA
21887168 AGTTGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:21887831 original size:14 final size:13
Alignment explanation
Indices: 21887802--21887828 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21887792 AGAAGGTAAG
21887802 ACAGATACTTAAA
1 ACAGATACTTAAA
21887815 ACAGATACTTAAA
1 ACAGATACTTAAA
21887828 A
1 A
21887829 ACATGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAGATACTTAAA
Found at i:21888848 original size:12 final size:12
Alignment explanation
Indices: 21888831--21888887 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
21888821 AAACCAAATC
21888831 AAGGGAGAACGA
1 AAGGGAGAACGA
21888843 AAGGGAGAACGA
1 AAGGGAGAACGA
*
21888855 AA--AAG-A-G-
1 AAGGGAGAACGA
21888862 AAGGGAGAACGA
1 AAGGGAGAACGA
*
21888874 ACGGGAGAACGA
1 AAGGGAGAACGA
21888886 AA
1 AA
21888888 CCAGATCGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
7 2 0.06
8 1 0.03
9 3 0.08
10 3 0.08
11 1 0.03
12 26 0.72
ACGTcount: A:0.53, C:0.09, G:0.39, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACGA
Found at i:21889571 original size:59 final size:61
Alignment explanation
Indices: 21889500--21889616 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 61
21889490 ATCACTTTAA
* *
21889500 TATTAAATTAATATAATATTTA-T-CAAGATAAATATT-AGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAATATTGA-ATTAAATTTAATATTAAATCT
21889559 TATTAAAATAATAGAATATTTATCTACAAGATAAATATTGAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAATATTGAATTAAATTTAATATTAA
21889617 GAAAATTACT
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
59 20 0.38
61 1 0.02
62 30 0.58
63 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAATATTGAATTAAATTTAATATTAAATCT
Found at i:21893373 original size:2 final size:2
Alignment explanation
Indices: 21893366--21893407 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
21893356 CAATGAAAGC
21893366 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21893408 TAATTCTCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21894754 original size:16 final size:16
Alignment explanation
Indices: 21894717--21894758 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21894707 TTAATCATAT
*
21894717 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
21894733 TT-AAATATATTATAA
1 TTAAAATATATTATAA
21894748 TTAAAATATAT
1 TTAAAATATAT
21894759 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:21894765 original size:14 final size:15
Alignment explanation
Indices: 21894726--21894767 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21894716 TTTAAACATA
*
21894726 ATTATTATTAAATAT
1 ATTATAATTAAATAT
21894741 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
21894755 A-TATAATTTAATA
1 ATTATAATTAAATA
21894768 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:21894858 original size:120 final size:120
Alignment explanation
Indices: 21894715--21895251 Score: 916
Period size: 120 Copynumber: 4.5 Consensus size: 120
21894705 ATTTAATCAT
21894715 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
21894780 GTCAATATTGTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
21894836 AATTAACATAATTATTATTAAATATATTATAATTAAAATCTATAATTTAATAAAATTCTTAATAG
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
21894901 TCAATATTTTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
21894956 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
21895021 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
21895076 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
21895140 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
21895195 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
21895252 TAAAATAATT
Statistics
Matches: 400, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
119 110 0.28
120 287 0.72
121 3 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:21894996 original size:16 final size:16
Alignment explanation
Indices: 21894953--21894998 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
21894943 ACTATAAAAG
*
21894953 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
21894969 ATTATT-AAATATATT
1 ATAATTAAAATATATT
21894984 ATAATTAAAATATAT
1 ATAATTAAAATATAT
21894999 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:21895005 original size:14 final size:15
Alignment explanation
Indices: 21894953--21895007 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
21894943 ACTATAAAAG
21894953 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
21894969 ATTATTAAATATATT
1 ATAATTAAATATATT
21894984 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
21894997 ATAATTTAATA
1 ATAATTAAATA
21895008 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:21895118 original size:18 final size:17
Alignment explanation
Indices: 21895097--21895131 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21895087 TTATTATTAA
*
21895097 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21895115 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21895132 TCTAATAATC
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21897656 original size:38 final size:38
Alignment explanation
Indices: 21897613--21897687 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
21897603 GGCAGAAACT
*
21897613 GAGCAAATCGACAGAAAAGAAAGGAAAAGAAACAGAGG
1 GAGCAAATCGACAGAAAAGAAAAGAAAAGAAACAGAGG
* *
21897651 GAGCAAATCGGCAGAAAAGAAAAGAAAATAAACAGAG
1 GAGCAAATCGACAGAAAAGAAAAGAAAAGAAACAGAG
21897688 TAACAAAGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.59, C:0.11, G:0.27, T:0.04
Consensus pattern (38 bp):
GAGCAAATCGACAGAAAAGAAAAGAAAAGAAACAGAGG
Found at i:21901610 original size:36 final size:36
Alignment explanation
Indices: 21901562--21901669 Score: 180
Period size: 36 Copynumber: 3.0 Consensus size: 36
21901552 TTGCTATTAT
* * *
21901562 AACATTCAATAAATCCGGAGTTTGAATTTGAACATC
1 AACATTCCATAAATCTGGAGTTTGCATTTGAACATC
21901598 AACATTCCATAAATCTGGAGTTTGCATTTGAACATC
1 AACATTCCATAAATCTGGAGTTTGCATTTGAACATC
*
21901634 AACATTCCATAAATCTGGCGTTTGCATTTGAACATC
1 AACATTCCATAAATCTGGAGTTTGCATTTGAACATC
21901670 TACAATCATA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.32
Consensus pattern (36 bp):
AACATTCCATAAATCTGGAGTTTGCATTTGAACATC
Found at i:21904490 original size:3 final size:3
Alignment explanation
Indices: 21904482--21904531 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
21904472 GAACGATGAC
21904482 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21904530 TA
1 TA
21904532 CTACTCCATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21926136 original size:22 final size:21
Alignment explanation
Indices: 21926086--21926136 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
21926076 CATGTTACTT
21926086 ATAATATTTATTATTTTATAA
1 ATAATATTTATTATTTTATAA
21926107 A-AATATTTATTATCTTGTA-AA
1 ATAATATTTATTAT-TT-TATAA
21926128 ATAATATTT
1 ATAATATTT
21926137 TTTGATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 12 0.44
21 6 0.22
22 9 0.33
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAATATTTATTATTTTATAA
Found at i:21926620 original size:21 final size:22
Alignment explanation
Indices: 21926584--21926634 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 22
21926574 TATTAATTTT
21926584 TTATATTCTATTTTTATCTCATA
1 TTATATTCTATTTTTATCT-ATA
21926607 TTATATT-T-TTTTTATCTATA
1 TTATATTCTATTTTTATCTATA
21926627 TATATATT
1 T-TATATT
21926635 GCATTCATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.15
21 15 0.56
22 1 0.04
23 7 0.26
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (22 bp):
TTATATTCTATTTTTATCTATA
Found at i:21934036 original size:16 final size:16
Alignment explanation
Indices: 21933996--21934038 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
21933986 TCTTCCCTTC
21933996 TCTCTCTCTTTTTTTTT
1 TCTCT-TCTTTTTTTTT
*
21934013 TCTGTTCTTTTATTTTT
1 TCTCTTCTTTT-TTTTT
21934030 T-TCTTCTTT
1 TCTCTTCTTT
21934039 AGTTTAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (16 bp):
TCTCTTCTTTTTTTTT
Found at i:21935310 original size:16 final size:16
Alignment explanation
Indices: 21935285--21935315 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21935275 GGTAGGAAAT
*
21935285 TTGTATTATGTATCTG
1 TTGTAATATGTATCTG
21935301 TTGTAATATGTATCT
1 TTGTAATATGTATCT
21935316 ATAACTGATA
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:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (16 bp):
TTGTAATATGTATCTG
Found at i:21938870 original size:58 final size:59
Alignment explanation
Indices: 21938773--21938934 Score: 161
Period size: 61 Copynumber: 2.7 Consensus size: 59
21938763 TTTTTATAAT
* * * *
21938773 ATTATATATTATGACTTTTATT-AATTCATATTTTAATAATAATTATGTTAAGAATGTTATT-A
1 ATTATATATT-T-ATTTTTATTAAAAT-ATA-TTTAATAATAATTATGTTAA-AATATGATTAA
* * *
21938835 ATTCATATA-TTA-TTTTATTAAATTGTATTTAATAATTATTATGTTAAAATATGATTAA
1 ATT-ATATATTTATTTTTATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
21938893 ATTATATATTTTTATTTTTATTAAAATATATTTAATAATAAT
1 ATTATATA--TTTATTTTTATTAAAATATATTTAATAATAAT
21938935 CTTATTAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
57 12 0.14
58 23 0.27
59 9 0.10
60 8 0.09
61 25 0.29
62 4 0.05
63 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (59 bp):
ATTATATATTTATTTTTATTAAAATATATTTAATAATAATTATGTTAAAATATGATTAA
Found at i:21947756 original size:19 final size:20
Alignment explanation
Indices: 21947712--21947757 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
21947702 GTGTTTATCT
21947712 ATTT-AAAATATAAATATAG
1 ATTTAAAAATATAAATATAG
*
21947731 GTTTAAAAATA-AAATATA-
1 ATTTAAAAATATAAATATAG
21947749 ATTATAAAA
1 ATT-TAAAA
21947758 TAACTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 15 0.65
20 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
ATTTAAAAATATAAATATAG
Found at i:21950218 original size:17 final size:17
Alignment explanation
Indices: 21950196--21950245 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
21950186 CCCAAAGTAA
21950196 TAATAATGTAATATTAG
1 TAATAATGTAATATTAG
*
21950213 TAATAATATAATATTAG
1 TAATAATGTAATATTAG
*
21950230 TAATAACGTAATATTA
1 TAATAATGTAATATTA
21950246 ATAGAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (17 bp):
TAATAATGTAATATTAG
Found at i:21950797 original size:95 final size:90
Alignment explanation
Indices: 21950551--21950946 Score: 602
Period size: 90 Copynumber: 4.4 Consensus size: 90
21950541 CTTCAATTAA
* *
21950551 TTAATTTATGCTGTTGTACCATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
21950616 TGT-GATTTAACAGACTTTTTTTTGT
66 TGTAG-TTTAACAGACTTTTTTTTGT
21950641 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
* *
21950706 TGCAGTTTAACATAC-TTTTTTTGT
66 TGTAGTTTAACAGACTTTTTTTTGT
21950730 TTAATTTATGCTGTTGTACTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGT
1 TTAATTTATGC-----TA-TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGT
* *
21950795 TTAAAC-GATAGCTCAACAGACTTTTTTTTGT
60 TTAAACTG-TAGTTTAACAGACTTTTTTTTGT
*
21950826 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAA
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
*
21950891 TGTAG-TTAACATACTTTTTTTTGT
66 TGTAGTTTAACAGACTTTTTTTTGT
**
21950915 TTAATTTATGCTGCTGTACTATTATATTAATT
1 TTAATTTATGCTATTGTACTATTATATTAATT
21950947 AATTTTTAAT
Statistics
Matches: 283, Mismatches: 13, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
89 67 0.24
90 128 0.45
91 4 0.01
94 3 0.01
95 61 0.22
96 20 0.07
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (90 bp):
TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
TGTAGTTTAACAGACTTTTTTTTGT
Found at i:21950857 original size:185 final size:185
Alignment explanation
Indices: 21950564--21950951 Score: 644
Period size: 185 Copynumber: 2.1 Consensus size: 185
21950554 ATTTATGCTG
* * *
21950564 TTGTACCATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTGATTTAACAG
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTGACTCAACAG
21950629 ACTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTT
66 ACTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTT
* *
21950694 TAAAGTTTAAACTGCAGTTTAACATAC-TTTTTTTGTTTAATTTATGCTGTTGTAC
131 TAAAGTTTAAAATGCAG-TTAACATACTTTTTTTTGTTTAATTTATGCTGCTGTAC
21950749 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC-GAT-AGCTCAAC
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTG-TGA-CTCAAC
21950812 AGACTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAAC
64 AGACTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAAC
*
21950877 TTTAAAGTTTAAAATGTAGTTAACATACTTTTTTTTGTTTAATTTATGCTGCTGTAC
129 TTTAAAGTTTAAAATGCAGTTAACATACTTTTTTTTGTTTAATTTATGCTGCTGTAC
21950934 TAT-TA-TATTA-ATTAATTT
1 T-TGTACTATTATATTAATTT
21950952 TTAATTTATT
Statistics
Matches: 193, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
183 8 0.04
184 16 0.08
185 168 0.87
186 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (185 bp):
TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTGTGACTCAACAG
ACTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTT
TAAAGTTTAAAATGCAGTTAACATACTTTTTTTTGTTTAATTTATGCTGCTGTAC
Found at i:21960908 original size:46 final size:46
Alignment explanation
Indices: 21960850--21960948 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
21960840 ATAATATCCT
* * *
21960850 ATAATATCCTATTAGGAATAAAATTGCTAAAATATAATATCTAATA
1 ATAATATACTATTAGGAATAAAATTGCTAAAAAATAAAATCTAATA
*
21960896 ATAATATACTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
1 ATAATATACTATTAGGAATAAAATTGCTAAAAAATAAAATCTAATA
21960942 ATAATAT
1 ATAATAT
21960949 CCTAACACCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (46 bp):
ATAATATACTATTAGGAATAAAATTGCTAAAAAATAAAATCTAATA
Found at i:21963616 original size:45 final size:45
Alignment explanation
Indices: 21963567--21963741 Score: 273
Period size: 45 Copynumber: 3.9 Consensus size: 45
21963557 AATCCTGAAG
* *
21963567 TAATGCCAT-AGTATCTTTCAA-CTATGGTCCTTTCCTTTTTGATTA
1 TAATGCCATGA-TATCTTTCAATC-ATGGTCTTTTCCTTTTCGATTA
*
21963612 TAATGCCATGATATCTTTTAATCATGGTCTTTTCCTTTTCGATTA
1 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTCGATTA
* *
21963657 TAATGTCATGATATCTTTCAATCATGGTATTTTCCTTTTCGATTA
1 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTCGATTA
21963702 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTC
1 TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTC
21963742 TTAAACAATG
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
45 118 0.98
46 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (45 bp):
TAATGCCATGATATCTTTCAATCATGGTCTTTTCCTTTTCGATTA
Found at i:21967563 original size:46 final size:46
Alignment explanation
Indices: 21967504--21967606 Score: 170
Period size: 46 Copynumber: 2.2 Consensus size: 46
21967494 ATAATATCCT
* * * *
21967504 ATAATATCGTATTATGAATCAAATTGCTAAAAGATAATATCTAATA
1 ATAATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
21967550 ATAATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
1 ATAATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
21967596 ATAATATCCTA
1 ATAATATCCTA
21967607 ACAAAACTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (46 bp):
ATAATATCCTATTAGGAATCAAATTGCTAAAAAATAAAATCTAATA
Found at i:21972308 original size:21 final size:21
Alignment explanation
Indices: 21972247--21972309 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
21972237 AGGAAATGAT
21972247 TAAGACCATAGTTGAAAGACAC
1 TAAGACCATAGTTGAAA-ACAC
* * * * *
21972269 TATGACACCATACTAGAAAAGAG
1 TA--AGACCATAGTTGAAAACAC
21972292 TAAGACCATAGTTGAAAA
1 TAAGACCATAGTTGAAAA
21972310 ATGCTATGGC
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
21 13 0.42
22 2 0.06
23 4 0.13
24 12 0.39
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (21 bp):
TAAGACCATAGTTGAAAACAC
Found at i:21972397 original size:46 final size:46
Alignment explanation
Indices: 21972240--21972457 Score: 185
Period size: 46 Copynumber: 4.8 Consensus size: 46
21972230 GGCTTGAAGG
* * * * *
21972240 AAATGATTAAGACCATAGTTGAAAGACACTATGACACCA-TACTAGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGA-A
* * ** * * *
21972286 AAA-GAGTAAGACCATAGTTGAAAAATGCTATGGCATCTCGA--ATC
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGA-A
* * * * *
21972330 AAACGAATAAGACCATAGTTGAAATACACTACT-GCAATACGATGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTA-TGGCAACACGACGAA
* *
21972376 AAATGAATACGACCATAGTTGAAAGACACTATGGTAACACGACGAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
* *
21972422 AAATGAATAAGACCATGGTTGAAAGATACTATGGCA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA
21972458 TCAATTCGAG
Statistics
Matches: 136, Mismatches: 30, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
44 4 0.03
45 58 0.43
46 74 0.54
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAA
Found at i:21972488 original size:137 final size:135
Alignment explanation
Indices: 21972240--21972490 Score: 301
Period size: 137 Copynumber: 1.8 Consensus size: 135
21972230 GGCTTGAAGG
* * * * *
21972240 AAATGATTAAGACCATAGTTGAAAGACACTATGACACCATACTAGAAAAGAGTAAGACCATAGTT
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACAACAGACGAGAAAAGAATAAGACCATAGTT
* *
21972305 GAAAAATGCTATGGCATCTCGAATCAAACGAATAAGACCATAGTTGAAATACACTACTGCAATAC
66 GAAAAATACTATGGCA-CTCGAATCAAACAAATAAGACCATAGTTGAAATACACTACTGCAATAC
21972370 GATGGA
130 GATGGA
* ** *
21972376 AAATGAATACGACCATAGTTGAAAGACACTATGGTAACACGACGA-AAAATGAATAAGACCATGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACAACA-GACGAGAAAA-GAATAAGACCATAG
* * *
21972440 TTGAAAGATACTATGGCA-TC-AATTCGAGAATAAATAAGACCATGGTTGAAA
64 TTGAAAAATACTATGGCACTCGAA-TC-A-AACAAATAAGACCATAGTTGAAA
21972491 GGCACCATGG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
134 2 0.02
135 4 0.04
136 39 0.41
137 51 0.53
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.21
Consensus pattern (135 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGACAACAGACGAGAAAAGAATAAGACCATAGTT
GAAAAATACTATGGCACTCGAATCAAACAAATAAGACCATAGTTGAAATACACTACTGCAATACG
ATGGA
Found at i:21988446 original size:12 final size:12
Alignment explanation
Indices: 21988429--21988458 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21988419 AGATCAATGT
21988429 TTTGGAGACTGA
1 TTTGGAGACTGA
*
21988441 TTTGGAGATTGA
1 TTTGGAGACTGA
21988453 TTTGGA
1 TTTGGA
21988459 AATCAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.33, T:0.40
Consensus pattern (12 bp):
TTTGGAGACTGA
Found at i:21993207 original size:47 final size:47
Alignment explanation
Indices: 21993154--21993298 Score: 149
Period size: 47 Copynumber: 3.1 Consensus size: 47
21993144 TCATATAAGA
*
21993154 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
21993201 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * * *
21993245 AAATTTATTATCAAGAATTTTATGAAATTATATATTATAATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
21993292 ATATTTA
1 ATATTTA
21993299 ATAATAATTA
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.42
48 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:21993242 original size:91 final size:91
Alignment explanation
Indices: 21993139--21993354 Score: 360
Period size: 91 Copynumber: 2.4 Consensus size: 91
21993129 ATGATTTTAG
* *
21993139 TAAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATAATTAAATTATA
*
21993204 TTTAATATTAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* *
21993230 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATAATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATAATTAAATTATA
21993295 TTTAATAATAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* * *
21993321 AAAATTCATATAAGAAAATTTATTAGTAATAATT
1 TAAATTCATATAAGAAAATTTATTATTAAGAATT
21993355 ATTTTAAATT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATAATTAAATTATA
TTTAATAATAATTATTTTAAATTATA
Found at i:21993296 original size:16 final size:17
Alignment explanation
Indices: 21993275--21993321 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
21993265 TATGAAATTA
21993275 TATATTATAATTA-AAT
1 TATATTATAATTATAAT
*
21993291 TATATT-TAATAATAAT
1 TATATTATAATTATAAT
*
21993307 TATTTTA-AATTATAA
1 TATATTATAATTATAA
21993322 AAATTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATTATAATTATAAT
Found at i:21993302 original size:18 final size:17
Alignment explanation
Indices: 21993269--21993314 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
21993259 GAATTTTATG
21993269 AAATTATATATT-ATAATT
1 AAATTATAT-TTAATAA-T
21993287 AAATTATATTTAATAAT
1 AAATTATATTTAATAAT
21993304 -AATTAT-TTTAA
1 AAATTATATTTAA
21993315 ATTATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 6 0.22
17 3 0.11
18 13 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTATATTTAATAAT
Found at i:21993312 original size:47 final size:46
Alignment explanation
Indices: 21993170--21993313 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 46
21993160 ATTATTAAGA
* *
21993170 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATTA-TATTAAATTATATTTAATAATAATT
* * **
21993217 A-TTT-T-AAATTATATAAATTCATA-TAAGA--AAATTT-ATTATCAAGA
1 ATTTTATGAAATTATAT--ATT-ATATTAA-ATTATATTTAATAAT-AATT
21993261 ATTTTATGAAATTATATATTATAATTAAATTATATTTAATAATAATT
1 ATTTTATGAAATTATATATTAT-ATTAAATTATATTTAATAATAATT
21993308 ATTTTA
1 ATTTTA
21993314 AATTATAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
43 3 0.04
44 19 0.26
45 12 0.16
46 12 0.16
47 24 0.32
48 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (46 bp):
ATTTTATGAAATTATATATTATATTAAATTATATTTAATAATAATT
Found at i:21993440 original size:59 final size:58
Alignment explanation
Indices: 21993372--21993653 Score: 193
Period size: 59 Copynumber: 4.8 Consensus size: 58
21993362 ATTTTATTAA
21993372 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTTATAGT
* * **** * * * * * * *
21993431 ATCATATATTATGATTTTTGTAAATTCATATAAGAA-TATTGATTATTAAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTA-AATT-A-TATTTTA-TAGT
21993492 ATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTTATAGT
* * * * * *
21993551 ATCATATATTATT-ATATGAAAT-TCATATAAGAAT-ATTGATTATTAA-GA-ATTTTATTA-A
1 ATCATATATT-TTAAT-TAAAATAT-ATTTAATAATAATT-ATT-TAAATTATATTTTA-TAGT
* *
21993609 ATTATATATTTTAATTAAATTATATTTAATAATAATTATGTTAAA
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAA
21993654 ATAAGATTAA
Statistics
Matches: 167, Mismatches: 38, Indels: 38
0.69 0.16 0.16
Matches are distributed among these distances:
57 19 0.11
58 25 0.15
59 53 0.32
60 34 0.20
61 32 0.19
62 4 0.02
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTTTATAGT
Found at i:21993496 original size:61 final size:60
Alignment explanation
Indices: 21993431--21993618 Score: 160
Period size: 58 Copynumber: 3.2 Consensus size: 60
21993421 ATTTTATAGT
*
21993431 ATCATATATTATGATTTTTGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTAT-ATTTATGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
* * * * * *
21993492 ATCATATATTTTAATTA---AAATAT-ATTTAATAATAATT-ATGT-TAAATTATATTTTA-TAG
1 ATCATATATTATATTTATGTAAAT-TCATATAAGAAT-ATTGAT-TATTAA-GA-ATTTTATTA-
*
21993550 T
60 A
*
21993551 ATCATATATTAT-TATATG-AAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATATTTATGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
*
21993609 ATTATATATT
1 ATCATATATT
21993619 TTAATTAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 27
0.69 0.12 0.19
Matches are distributed among these distances:
57 17 0.17
58 25 0.26
59 25 0.26
60 20 0.20
61 11 0.11
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (60 bp):
ATCATATATTATATTTATGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
Found at i:21993608 original size:117 final size:119
Alignment explanation
Indices: 21993361--21993653 Score: 511
Period size: 117 Copynumber: 2.5 Consensus size: 119
21993351 AATTATTTTA
21993361 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
* *
21993425 TATAGTATCATATATTATGATTTTTGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTAT-ATATATGTAAATTCATATAAGAATATTGATTATTAAG
21993481 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
21993546 ATAGTATCATATATTAT-TATATG-AAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATATATATGTAAATTCATATAAGAATATTGATTATTAAG
* *
21993598 AATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAATAATTATGTTAAA
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
21993654 ATAAGATTAA
Statistics
Matches: 168, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
117 83 0.49
118 4 0.02
120 79 0.47
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATATATATGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:21993627 original size:18 final size:17
Alignment explanation
Indices: 21993599--21993633 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
21993589 ATTATTAAGA
21993599 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
21993616 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
21993634 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:21993852 original size:44 final size:45
Alignment explanation
Indices: 21993797--21993884 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
21993787 CCTCCATTCC
*
21993797 ATTCAACCAAACACA-AGA-ATACTATTACGCCTTTATTCCATTAT
1 ATTCAACCAAACA-ATAGATATACTATTACGCCTCTATTCCATTAT
* * *
21993841 ATTCAACCAAACAATTGATTTGCTATTACGCCTCTATTCCATTA
1 ATTCAACCAAACAATAGATATACTATTACGCCTCTATTCCATTA
21993885 CGCCTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.03
44 15 0.39
45 22 0.58
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (45 bp):
ATTCAACCAAACAATAGATATACTATTACGCCTCTATTCCATTAT
Found at i:21993886 original size:16 final size:16
Alignment explanation
Indices: 21993865--21993901 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
21993855 TTGATTTGCT
21993865 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
21993881 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
21993897 ATTAC
1 ATTAC
21993902 AGCGAACCAA
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:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:22000552 original size:17 final size:17
Alignment explanation
Indices: 22000532--22000589 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
22000522 TGTTTGTGAA
22000532 TTCATAATTTTTGTCTG
1 TTCATAATTTTTGTCTG
* *
22000549 TTCATATATGTTTGTGC-A
1 TTCATA-ATTTTTGT-CTG
*
22000567 TTAATAATTTTTGTCTG
1 TTCATAATTTTTGTCTG
22000584 TTCATA
1 TTCATA
22000590 CATTGATGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 1 0.03
17 18 0.56
18 12 0.38
19 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.55
Consensus pattern (17 bp):
TTCATAATTTTTGTCTG
Found at i:22000557 original size:35 final size:35
Alignment explanation
Indices: 22000517--22000589 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
22000507 TTTTTTCCAT
*
22000517 ATATATGTTTGTGAATTCATAATTTTTGTCTGTTC
1 ATATATGTTTGTGAATTAATAATTTTTGTCTGTTC
*
22000552 ATATATGTTTGTGCATTAATAATTTTTGTCTGTTC
1 ATATATGTTTGTGAATTAATAATTTTTGTCTGTTC
22000587 ATA
1 ATA
22000590 CATTGATGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (35 bp):
ATATATGTTTGTGAATTAATAATTTTTGTCTGTTC
Found at i:22007084 original size:13 final size:14
Alignment explanation
Indices: 22007046--22007087 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
22007036 TATGTGAAGA
22007046 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
22007061 ATCATTTTTAAAATT
1 AT-ATTATTAAAATT
22007076 -TATTATTAAAAT
1 ATATTATTAAAAT
22007088 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:22007143 original size:16 final size:16
Alignment explanation
Indices: 22007097--22007146 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
22007087 TAAAATTGAA
22007097 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
22007114 A-A--AATAATAAATT
1 ATATTAATAATTTATT
22007127 ATATTAATAATTTATT
1 ATATTAATAATTTATT
22007143 ATAT
1 ATAT
22007147 GACTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:22007197 original size:15 final size:16
Alignment explanation
Indices: 22007166--22007198 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22007156 TAAATAATTA
*
22007166 AATATTTATGTTTAAT
1 AATATTTATGATTAAT
22007182 AATATTTAT-ATTAAT
1 AATATTTATGATTAAT
22007197 AA
1 AA
22007199 AAGTTAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
AATATTTATGATTAAT
Found at i:22012501 original size:43 final size:43
Alignment explanation
Indices: 22012452--22012579 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
22012442 CGTTGCTTCA
*
22012452 TTTTTTGTCTGAACCTGGATGTTGCTTTCCCAAGTTACTTCCT
1 TTTTTTGTCTGAACATGGATGTTGCTTTCCCAAGTTACTTCCT
* * * * *
22012495 TTTTTTGTTTGAACTTGGTTGTTGTTTTCCCAAGTTGCTTCC-
1 TTTTTTGTCTGAACATGGATGTTGCTTTCCCAAGTTACTTCCT
* *
22012537 TTTTTTGTCT-AGACATGGATGTTGCTTTCCCATGTTCCTTCCT
1 TTTTTTGTCTGA-ACATGGATGTTGCTTTCCCAAGTTACTTCCT
22012580 GAATATTATC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 34 0.47
43 37 0.51
ACGTcount: A:0.12, C:0.21, G:0.17, T:0.50
Consensus pattern (43 bp):
TTTTTTGTCTGAACATGGATGTTGCTTTCCCAAGTTACTTCCT
Found at i:22012560 original size:42 final size:42
Alignment explanation
Indices: 22012443--22012579 Score: 168
Period size: 42 Copynumber: 3.2 Consensus size: 42
22012433 TTGCTTCCAC
* *
22012443 GTTGCTTCATTTTTTGTCTGAACCTGGATGTTGCTTTCCCAA
1 GTTGCTTCCTTTTTTGTCTGAACATGGATGTTGCTTTCCCAA
* * * * *
22012485 GTTACTTCCTTTTTTTGTTTGAACTTGGTTGTTGTTTTCCCAA
1 GTTGCTTCC-TTTTTTGTCTGAACATGGATGTTGCTTTCCCAA
*
22012528 GTTGCTTCCTTTTTTGTCT-AGACATGGATGTTGCTTTCCCAT
1 GTTGCTTCCTTTTTTGTCTGA-ACATGGATGTTGCTTTCCCAA
*
22012570 GTTCCTTCCT
1 GTTGCTTCCT
22012580 GAATATTATC
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 42 0.52
43 37 0.46
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.50
Consensus pattern (42 bp):
GTTGCTTCCTTTTTTGTCTGAACATGGATGTTGCTTTCCCAA
Found at i:22013712 original size:27 final size:21
Alignment explanation
Indices: 22013657--22013701 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
22013647 TTCATTAATA
22013657 AAATTATATAATTCTGATGGT
1 AAATTATATAATTCTGATGGT
22013678 AAATTATATAATTCTGATGGT
1 AAATTATATAATTCTGATGGT
22013699 AAA
1 AAA
22013702 CTTGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (21 bp):
AAATTATATAATTCTGATGGT
Found at i:22015112 original size:17 final size:17
Alignment explanation
Indices: 22015090--22015122 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22015080 ATAAAAATAT
22015090 CACATATTTTCTCATAC
1 CACATATTTTCTCATAC
22015107 CACATATTTTCTCATA
1 CACATATTTTCTCATA
22015123 TTCGACATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (17 bp):
CACATATTTTCTCATAC
Found at i:22028816 original size:102 final size:100
Alignment explanation
Indices: 22028701--22028934 Score: 289
Period size: 102 Copynumber: 2.3 Consensus size: 100
22028691 TGTGTTTTTT
* *
22028701 ATTTTTAAAAAATAATATTTTATTTGGTGGAGCCATG-TAGAAT-GACACCTCCAATATACTGTG
1 ATTTTTAAAAAATAATATTTTATTTGGTGGAGCCA-GATAGAATAG-CACCACCAACATA-T-TG
*
22028764 TAT-GTTTTTTTCTT-AATGTGTTGTTTTTTTTAATTTAAA
62 TATGGTTTTTTT-TTAAATGTGTT-ATTTTTTTAATTTAAA
** * *
22028803 ATTTTTAAAAAATAATATTTTATTTGGTGGAGCCAGATAGAATAGCGTCACCAGCGTATTGTATG
1 ATTTTTAAAAAATAATATTTTATTTGGTGGAGCCAGATAGAATAGCACCACCAACATATTGTATG
22028868 GTTTTTTTTTAAATGTGTTATTTTTTTAATTTAAA
66 GTTTTTTTTTAAATGTGTTATTTTTTTAATTTAAA
* *
22028903 ATTTTTAAAAAA-GATACTTTATTTTGGTGGAG
1 ATTTTTAAAAAATAATATTTTA-TTTGGTGGAG
22028935 GCATTCTTTA
Statistics
Matches: 118, Mismatches: 9, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
99 7 0.06
100 44 0.37
101 18 0.15
102 48 0.41
103 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (100 bp):
ATTTTTAAAAAATAATATTTTATTTGGTGGAGCCAGATAGAATAGCACCACCAACATATTGTATG
GTTTTTTTTTAAATGTGTTATTTTTTTAATTTAAA
Found at i:22055194 original size:45 final size:43
Alignment explanation
Indices: 22055097--22055269 Score: 166
Period size: 45 Copynumber: 3.9 Consensus size: 43
22055087 CATTACATGG
* * * *
22055097 TGGATCAGCACATAGCACCACCCTTATAATTAATTATATTCGG
1 TGGATCAGCACATAGAACCACCTTTATAATTAATGATATTCGA
** *
22055140 TGGAATCAGCACATAGAAACCACCTTTATTTTTAATGATTTTCGA
1 TGG-ATCAGCACATAG-AACCACCTTTATAATTAATGATATTCGA
* * ** *
22055185 TGGAGTCAGCACATAGCAACCACCTTTATAATCAATGGTACCCGG
1 TGGA-TCAGCACATAG-AACCACCTTTATAATTAATGATATTCGA
* *
22055230 TGGAATCAACACATAGCAACCACCTTTATAATCAATGATA
1 TGG-ATCAGCACATAG-AACCACCTTTATAATTAATGATA
22055270 CTCAATACAC
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
43 3 0.03
44 13 0.12
45 91 0.84
46 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (43 bp):
TGGATCAGCACATAGAACCACCTTTATAATTAATGATATTCGA
Found at i:22055267 original size:90 final size:88
Alignment explanation
Indices: 22055097--22055268 Score: 227
Period size: 90 Copynumber: 1.9 Consensus size: 88
22055087 CATTACATGG
* * ** *
22055097 TGGATCAGCACATAGCACCACCCTTATAATTAATTATATTCGGTGGAATCAGCACATAGAAACCA
1 TGGATCAGCACATAGCACCACCCTTATAATCAATGATACCCGGTGGAATCAACACATAGAAACCA
** *
22055162 CCTTTATTTTTAATGATTTTCGA
66 CCTTTATAATCAATGATTTTCGA
* * *
22055185 TGGAGTCAGCACATAGCAACCACCTTTATAATCAATGGTACCCGGTGGAATCAACACATAGCAAC
1 TGGA-TCAGCACATAGC-ACCACCCTTATAATCAATGATACCCGGTGGAATCAACACATAGAAAC
22055250 CACCTTTATAATCAATGAT
64 CACCTTTATAATCAATGAT
22055269 ACTCAATACA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 4 0.06
89 12 0.17
90 55 0.77
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (88 bp):
TGGATCAGCACATAGCACCACCCTTATAATCAATGATACCCGGTGGAATCAACACATAGAAACCA
CCTTTATAATCAATGATTTTCGA
Found at i:22059187 original size:27 final size:26
Alignment explanation
Indices: 22059129--22059188 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
22059119 ATCCCGATAT
22059129 ATGGCTC-TTCAGAGATTTCTGATTA
1 ATGGCTCTTTCAGAGATTTCTGATTA
** *
22059154 AAAGCTCTTTCATGAGCTTTCTGATTA
1 ATGGCTCTTTCA-GAGATTTCTGATTA
22059181 ATGGCTCT
1 ATGGCTCT
22059189 CTAGATCTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 5 0.18
26 4 0.14
27 19 0.68
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (26 bp):
ATGGCTCTTTCAGAGATTTCTGATTA
Found at i:22059293 original size:25 final size:24
Alignment explanation
Indices: 22059263--22059326 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
22059253 ATTGACTCGC
* *
22059263 AAGAGCTTCTCGTTACATGGCTCAC
1 AAGAGCTT-TCGTTAAATGGCTCAA
* *
22059288 ATGAGCTTTCCATTAAATGGCTCAA
1 AAGAGCTTT-CGTTAAATGGCTCAA
22059313 AAGAGCTTTTCGTT
1 AAGAGC-TTTCGTT
22059327 TATGTGCTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
24 1 0.03
25 27 0.87
26 3 0.10
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (24 bp):
AAGAGCTTTCGTTAAATGGCTCAA
Found at i:22060549 original size:42 final size:42
Alignment explanation
Indices: 22060498--22060588 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
22060488 ATTTTAAATG
*
22060498 GCCACACGGCCTGAGACACGGGTGTGTCTCTCGACCGTGTGA
1 GCCACACGGCCTGAGACACGGGCGTGTCTCTCGACCGTGTGA
*
22060540 GCCACACGGCCTGAGACACGGGCGTGTCTCTTGACCGTGTGA
1 GCCACACGGCCTGAGACACGGGCGTGTCTCTCGACCGTGTGA
22060582 GCCACAC
1 GCCACAC
22060589 AGCTTGACCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.18
Consensus pattern (42 bp):
GCCACACGGCCTGAGACACGGGCGTGTCTCTCGACCGTGTGA
Found at i:22062021 original size:53 final size:53
Alignment explanation
Indices: 22061903--22062024 Score: 131
Period size: 53 Copynumber: 2.3 Consensus size: 53
22061893 GGGCAAGGTG
* * * * *
22061903 ACTTGGGCATGTGGGTTGTGGGCCAGGCCGTGTGGGGCACACGGACTAGGACG
1 ACTTGGGCGTGTGGGCTGTGGGCCAGGCCGTGTGGGCCACACGGACAAGGACA
* * *
22061956 ACTT-GGCTGTGTGGGCTGTGGGCCAGGCTGTGTGGGCCACACGTG-CAATGCCA
1 ACTTGGGC-GTGTGGGCTGTGGGCCAGGCCGTGTGGGCCACACG-GACAAGGACA
*
22062009 ATTTGGGCGTGTGGGC
1 ACTTGGGCGTGTGGGC
22062025 CAAAAGAGCG
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
52 3 0.05
53 50 0.88
54 4 0.07
ACGTcount: A:0.13, C:0.21, G:0.43, T:0.22
Consensus pattern (53 bp):
ACTTGGGCGTGTGGGCTGTGGGCCAGGCCGTGTGGGCCACACGGACAAGGACA
Found at i:22062113 original size:484 final size:477
Alignment explanation
Indices: 22061202--22062164 Score: 1410
Period size: 484 Copynumber: 2.0 Consensus size: 477
22061192 TGCTAAATTT
* * *
22061202 TTCGTTAGAATGCTATTTTTTAGGTTTTGGATGTCTTGAGAGTGTTGTAGCATAAAAAAGAATCA
1 TTCGTTAGAATGCTATTTCTTAGGTTTTGGATGTCTTGAGAGTGCTGTAGCATAAAAAAGAACCA
* * * * *
22061267 GGTATGTAACGAAAACACGAGAAAACGAGGTTCAGTGGAACTAAAAAAAGTGGCCTGTCAATGCC
66 GGTATGTAACGAAAACACAAGAAAACGAGGTTCAGCGAAACTAAAAAAAGTGGCCTATCAACGCC
* * ** *
22061332 ATACGGGCGTGTGCCCGGCCGTGTGGCTGGCCATGTTGGCACATGGCCATGTGATGGGCGAGTGT
131 ACACGGGCATGTGCCCGGCCGTGTGGCTGGCCATGTTGGCACATAACCATGTGACGGGCGAGTGT
* *
22061397 GTAGCCATGTGGGTTACACGGGCTAGGCTGACTTGGGCTGTGGGCCAGGCCGTGTGGGCCACATG
196 GTAGCCATGTGGGTTACACGGGCAAGGCTGACTTGGGCTGTGGGCCAGGCCGTGTGGGCCACACG
* *
22061462 GACTAGGCCAACTTGGTCGTGTGGGCAATGGACCAGGCCATTTGGGCCACACGGGCAAGGCCAAT
261 GACTAGGACAACTTGGTCGTGTGGGCAATGGACCAGGCCATGTGGGCCACACGGGCAAGGCCAAT
* * *
22061527 TTGAGCGTGTGGGCCACACGAGGGTGTGAGCCCAAAATTTTTAAATTTTCCCTAAGGTCATATAT
326 TTGAGCGTGTGGGCCAAAAGAGCGTGTGAGCCCAAAATTTTTAAATTTTCCCTAAGGTCATATAT
* * * *
22061592 GTTGTTCTGATCGACTGCGGGCCTTCCCTAGGGTCAGTAAGGACAAACAAACCCTAATGCATGAT
391 GTCGTTCTGATCGACCGCGAGCCTTCCCTAGGGTCAGTAAGGACAAACAAACCCTAATGCACGAT
22061657 ACCTTCCTAATCTGTTAGACTG
456 ACCTTCCTAATCTGTTAGACTG
* *
22061679 TTCGTTGGAATGCTGTTTCTTAGGTTTTGGATGTCTTGAGAGTGCTGTAGCATAAAAAAGAACCA
1 TTCGTTAGAATGCTATTTCTTAGGTTTTGGATGTCTTGAGAGTGCTGTAGCATAAAAAAGAACCA
*
22061744 GGTGTGTAACGAAAACACAAGAAAACGAGGTTCAGCGAAACT-AAAAAAGTGGCCTATCAACGCC
66 GGTATGTAACGAAAACACAAGAAAACGAGGTTCAGCGAAACTAAAAAAAGTGGCCTATCAACGCC
* * *
22061808 ACATGGGCATGTGCCCGGCCGTGTGGCTGGCCGTGTGTGGCACATAACCGTGTGACGGGCGAGTG
131 ACACGGGCATGTGCCCGGCCGTGTGGCTGGCCATGT-TGGCACATAACCATGTGACGGGCGAGTG
*
22061873 TGTGGCCATGTGGGTTACACGGGCAAGG-TGACTTGGGCATGTGGGTTGTGGGCCAGGCCGTGTG
195 TGTAGCCATGTGGGTTACACGGGCAAGGCTGACTTGGGC--------TGTGGGCCAGGCCGTGTG
* * ** * ** *
22061937 GGGCACACGGACTAGGACGACTTGG-CTGTGTGGGCTGTGGGCCAGGCTGTGTGGGCCACACGTG
252 GGCCACACGGACTAGGACAACTTGGTC-GTGTGGGCAATGGACCAGGCCATGTGGGCCACACGGG
* * *
22062001 CAATGCCAATTTGGGCGTGTGGGCCAAAAGAGCGTGTGAGCCCAAAATTTTTAAATTTTCCCTAG
316 CAAGGCCAATTTGAGCGTGTGGGCCAAAAGAGCGTGTGAGCCCAAAATTTTTAAATTTTCCCTAA
* **
22062066 GGTCATATATGTCGTTTTGATCGACCGCGAGCCTTCTGTAGGGTCAGTAAGGACAAACAAACCCT
381 GGTCATATATGTCGTTCTGATCGACCGCGAGCCTTCCCTAGGGTCAGTAAGGACAAACAAACCCT
22062131 AATGCACGATACCTTCCTAATCTGTTAGACTG
446 AATGCACGATACCTTCCTAATCTGTTAGACTG
22062163 TT
1 TT
22062165 TTGAGTTTAA
Statistics
Matches: 431, Mismatches: 45, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
476 62 0.14
477 148 0.34
483 1 0.00
484 220 0.51
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (477 bp):
TTCGTTAGAATGCTATTTCTTAGGTTTTGGATGTCTTGAGAGTGCTGTAGCATAAAAAAGAACCA
GGTATGTAACGAAAACACAAGAAAACGAGGTTCAGCGAAACTAAAAAAAGTGGCCTATCAACGCC
ACACGGGCATGTGCCCGGCCGTGTGGCTGGCCATGTTGGCACATAACCATGTGACGGGCGAGTGT
GTAGCCATGTGGGTTACACGGGCAAGGCTGACTTGGGCTGTGGGCCAGGCCGTGTGGGCCACACG
GACTAGGACAACTTGGTCGTGTGGGCAATGGACCAGGCCATGTGGGCCACACGGGCAAGGCCAAT
TTGAGCGTGTGGGCCAAAAGAGCGTGTGAGCCCAAAATTTTTAAATTTTCCCTAAGGTCATATAT
GTCGTTCTGATCGACCGCGAGCCTTCCCTAGGGTCAGTAAGGACAAACAAACCCTAATGCACGAT
ACCTTCCTAATCTGTTAGACTG
Found at i:22089682 original size:38 final size:38
Alignment explanation
Indices: 22089629--22089768 Score: 199
Period size: 38 Copynumber: 3.7 Consensus size: 38
22089619 TTAATACATT
* * *
22089629 GGCACTAAGCCTGCTAGGTAAAAAGCATGAATAACACT
1 GGCACTAAGCCTGCTAGGCACAAAGCATGAATAACACC
* *
22089667 GGCACTAAGCTTGCTAGGCACAAAGCCTGAATAACACC
1 GGCACTAAGCCTGCTAGGCACAAAGCATGAATAACACC
* * *
22089705 GGTACTAAGCCTGCTAGGCACAAAGCTTGAATAATACC
1 GGCACTAAGCCTGCTAGGCACAAAGCATGAATAACACC
*
22089743 AGCACTAAGCCTGCTAGGCACAAAGC
1 GGCACTAAGCCTGCTAGGCACAAAGC
22089769 CTAAATAGTG
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 91 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (38 bp):
GGCACTAAGCCTGCTAGGCACAAAGCATGAATAACACC
Found at i:22096363 original size:43 final size:42
Alignment explanation
Indices: 22096296--22096424 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 42
22096286 CATAGGATTT
* *
22096296 TCGAGATGTGTTATCGTGTAAGACCACGTTTGGGACGTTGGCA
1 TCGATATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCA
*
22096339 TCGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGCCA
1 TCGA-TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
** *
22096382 TCGATACATGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
22096425 CTATAAGAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
42 3 0.04
43 63 0.89
44 5 0.07
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (42 bp):
TCGATATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:22097342 original size:23 final size:23
Alignment explanation
Indices: 22097316--22097365 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
22097306 AAATGTTGCT
* *
22097316 CAAACTGTTTTATATATGCTGCC
1 CAAACTGATGTATATATGCTGCC
* * *
22097339 CAAATTGATGTATTTATGCTGTC
1 CAAACTGATGTATATATGCTGCC
22097362 CAAA
1 CAAA
22097366 TTTTGGTGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (23 bp):
CAAACTGATGTATATATGCTGCC
Found at i:22097395 original size:24 final size:25
Alignment explanation
Indices: 22097354--22097438 Score: 81
Period size: 24 Copynumber: 3.5 Consensus size: 25
22097344 TGATGTATTT
*
22097354 ATGCTGTCCAAATTTTGGTGTGA-AA
1 ATGCTGTCCAAATTTTGGTAT-ATAA
*
22097379 ATGCTGT-CTAATTTTGGTATATAA
1 ATGCTGTCCAAATTTTGGTATATAA
* *
22097403 ATGCTGTTCAAATTGAT-GTATA-AA
1 ATGCTGTCCAAATT-TTGGTATATAA
22097427 A-GCTGTCCAAAT
1 ATGCTGTCCAAAT
22097439 AGGGTAGATT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
23 11 0.21
24 23 0.44
25 17 0.33
26 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (25 bp):
ATGCTGTCCAAATTTTGGTATATAA
Found at i:22100241 original size:26 final size:26
Alignment explanation
Indices: 22100211--22100268 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
22100201 AGACCCTAAA
*
22100211 ATAAGAAAAATAACCAAAATACCCTT
1 ATAAGAAAAATAACCAAAATACCCTC
* * * *
22100237 ATAAGGTAAAATGATCGAAATACCCTC
1 ATAA-GAAAAATAACCAAAATACCCTC
22100264 ATAAG
1 ATAAG
22100269 GTAAAATGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.52, C:0.17, G:0.10, T:0.21
Consensus pattern (26 bp):
ATAAGAAAAATAACCAAAATACCCTC
Found at i:22100257 original size:27 final size:27
Alignment explanation
Indices: 22100227--22100520 Score: 301
Period size: 27 Copynumber: 10.9 Consensus size: 27
22100217 AAAATAACCA
**
22100227 AAATACCCTTATAAGGTAAAATGATCG
1 AAATACCCCCATAAGGTAAAATGATCG
*
22100254 AAATACCCTCATAAGGTAAAATGATCG
1 AAATACCCCCATAAGGTAAAATGATCG
* * *
22100281 AAATACCCCAATAAGGTAAAATG-GCTT
1 AAATACCCCCATAAGGTAAAATGATC-G
* *
22100308 AAATAACCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAAGGTAAAATGATCG
* ** **
22100335 AAATA-CCCTATGGGGGTAAAATGGCCG
1 AAATACCCCCAT-AAGGTAAAATGATCG
* * *
22100362 AAATACCCCCATAGGGTAAAATAACCG
1 AAATACCCCCATAAGGTAAAATGATCG
22100389 AAATACCCCCATAAGGTAAAATGATCG
1 AAATACCCCCATAAGGTAAAATGATCG
* * *
22100416 AAATACCCCCATAGGGTAAAATGGTCA
1 AAATACCCCCATAAGGTAAAATGATCG
22100443 AAATACCCCCAT-AGAGTAAAATGA-CTG
1 AAATACCCCCATAAG-GTAAAATGATC-G
* * *
22100470 AAATACCCCTAT-AGGATAAAGTGACCG
1 AAATACCCCCATAAGG-TAAAATGATCG
*
22100497 AAATACCCCCATAGGGTAAAATGA
1 AAATACCCCCATAAGGTAAAATGA
22100521 ATGTTATACC
Statistics
Matches: 226, Mismatches: 32, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
26 9 0.04
27 208 0.92
28 9 0.04
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAAGGTAAAATGATCG
Found at i:22100532 original size:81 final size:81
Alignment explanation
Indices: 22100227--22100520 Score: 353
Period size: 81 Copynumber: 3.6 Consensus size: 81
22100217 AAAATAACCA
* * * *
22100227 AAATACCCTTATAAGGTAAAATGATCGAAATACCCTCATAAGGTAAAATGATCGAAATACCCCAA
1 AAATACCCCTATAAGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCA
* *
22100292 TA-AGGTAAAATGGCTT
66 TAGA-GTAAAATGACTG
* * * **
22100308 AAATAACCCC-ATAGGGTAAAATGATCGAAATA-CCCTATGGGGGTAAAATGGCCGAAATACCCC
1 AAAT-ACCCCTATAAGGTAAAATGATCGAAATACCCCCAT-AGGGTAAAATGATCGAAATACCCC
* * *
22100371 CATAGGGTAAAATAACCG
64 CATAGAGTAAAATGACTG
* * *
22100389 AAATACCCCCATAAGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGGTCAAAATACCCCCA
1 AAATACCCCTATAAGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCA
22100454 TAGAGTAAAATGACTG
66 TAGAGTAAAATGACTG
* *
22100470 AAATACCCCTAT-AGGATAAAGTGACCGAAATACCCCCATAGGGTAAAATGA
1 AAATACCCCTATAAGG-TAAAATGATCGAAATACCCCCATAGGGTAAAATGA
22100521 ATGTTATACC
Statistics
Matches: 181, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
80 12 0.07
81 160 0.88
82 9 0.05
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.19
Consensus pattern (81 bp):
AAATACCCCTATAAGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCA
TAGAGTAAAATGACTG
Found at i:22104311 original size:24 final size:24
Alignment explanation
Indices: 22104284--22104333 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
22104274 CAAAAGGAAG
*
22104284 TCATCAATATATATCAATGCATTA
1 TCATCAATATATATCAATACATTA
22104308 TCATCAATATATATCAATACATTA
1 TCATCAATATATATCAATACATTA
22104332 TC
1 TC
22104334 TATAATGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (24 bp):
TCATCAATATATATCAATACATTA
Found at i:22107787 original size:30 final size:30
Alignment explanation
Indices: 22107715--22107800 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 30
22107705 TATTTAATTA
* *
22107715 ATTTTTTAAAATATTAAAAAATATTTTTTAT
1 ATTTTTTAAAATTTTAAAAAATA-ATTTTAT
***
22107746 AAAATTT--AATTTTAAAAAATAATTTTAT
1 ATTTTTTAAAATTTTAAAAAATAATTTTAT
22107774 ATTTTTTAAAATTTTAAAAAATTAATT
1 ATTTTTTAAAATTTTAAAAAA-TAATT
22107801 AAATAATGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 10 0.23
29 13 0.30
30 12 0.27
31 9 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
ATTTTTTAAAATTTTAAAAAATAATTTTAT
Found at i:22107966 original size:13 final size:13
Alignment explanation
Indices: 22107948--22107974 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22107938 TTTTTTTCCT
22107948 TTTTAAATTTAAG
1 TTTTAAATTTAAG
22107961 TTTTAAATTTAAG
1 TTTTAAATTTAAG
22107974 T
1 T
22107975 AAATCATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTTTAAATTTAAG
Done.