Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 35 of 216
Found at i:10037002 original size:30 final size:30
Alignment explanation
Indices: 10036966--10037027 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
10036956 AACTAAAGAC
10036966 ATATATTAATGATGTTCAAACTAAGACATA
1 ATATATTAATGATGTTCAAACTAAGACATA
10036996 ATATATTAATGATGTTCAAACTAAGACATA
1 ATATATTAATGATGTTCAAACTAAGACATA
10037026 AT
1 AT
10037028 TAATGACATA
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:0.47, C:0.10, G:0.10, T:0.34
Consensus pattern (30 bp):
ATATATTAATGATGTTCAAACTAAGACATA
Found at i:10037037 original size:12 final size:11
Alignment explanation
Indices: 10037017--10037059 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 11
10037007 ATGTTCAAAC
10037017 TAAGACATAAT
1 TAAGACATAAT
*
10037028 TAATGACATAAC
1 TAA-GACATAAT
10037040 TAAGACATAAT
1 TAAGACATAAT
10037051 TAAGGACAT
1 TAA-GACAT
10037060 GAACTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (11 bp):
TAAGACATAAT
Found at i:10037044 original size:23 final size:24
Alignment explanation
Indices: 10037014--10037066 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 24
10037004 ATGATGTTCA
*
10037014 AACTAAGACATAATTAATGACAT-
1 AACTAAGACATAATTAAGGACATG
10037037 AACTAAGACATAATTAAGGACATG
1 AACTAAGACATAATTAAGGACATG
10037061 AACTAA
1 AACTAA
10037067 AATAACTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (24 bp):
AACTAAGACATAATTAAGGACATG
Found at i:10037048 original size:11 final size:11
Alignment explanation
Indices: 10037014--10037075 Score: 65
Period size: 11 Copynumber: 5.5 Consensus size: 11
10037004 ATGATGTTCA
10037014 AACTAAGACAT
1 AACTAAGACAT
*
10037025 AATTAATGACAT
1 AACTAA-GACAT
10037037 AACTAAGACAT
1 AACTAAGACAT
*
10037048 AATTAAGGACAT
1 AACTAA-GACAT
10037060 GAACTAA-A-AT
1 -AACTAAGACAT
10037070 AACTAA
1 AACTAA
10037076 AATGGATTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.14
10 2 0.05
11 16 0.36
12 15 0.34
13 5 0.11
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.23
Consensus pattern (11 bp):
AACTAAGACAT
Found at i:10037978 original size:159 final size:159
Alignment explanation
Indices: 10037689--10038004 Score: 605
Period size: 159 Copynumber: 2.0 Consensus size: 159
10037679 GGGCTAAATA
* *
10037689 TATATCCTAACCTGAGATACCCACGAACAAGGGGATCCCTCATATGAGTATATTAGAAAACAATG
1 TATATCCCAACCCGAGATACCCACGAACAAGGGGATCCCTCATATGAGTATATTAGAAAACAATG
10037754 AACATGGGATCGAACTTTTTAATACCCTAAAGTTACTCTGAGCACTTGTCTTATCTATCCACTTG
66 AACATGGGATCGAACTTTTTAATACCCTAAAGTTACTCTGAGCACTTGTCTTATCTATCCACTTG
10037819 TCCTTGTATTGGTTCTCGGCCTCTACAGG
131 TCCTTGTATTGGTTCTCGGCCTCTACAGG
10037848 TATATCCCAACCCGAGATACCCACGAACAAGGGGATCCCTCATATGAGTATATTAGAAAACAATG
1 TATATCCCAACCCGAGATACCCACGAACAAGGGGATCCCTCATATGAGTATATTAGAAAACAATG
*
10037913 AACATGGGATCGAACTTTTTAATACCCTAAAGTTACTCTGAGCACTTGTCTTCTCTATCCACTTG
66 AACATGGGATCGAACTTTTTAATACCCTAAAGTTACTCTGAGCACTTGTCTTATCTATCCACTTG
10037978 TCCTTGTATTGGTTCTCGGCCTCTACA
131 TCCTTGTATTGGTTCTCGGCCTCTACA
10038005 AGTGAACCAG
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 154 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (159 bp):
TATATCCCAACCCGAGATACCCACGAACAAGGGGATCCCTCATATGAGTATATTAGAAAACAATG
AACATGGGATCGAACTTTTTAATACCCTAAAGTTACTCTGAGCACTTGTCTTATCTATCCACTTG
TCCTTGTATTGGTTCTCGGCCTCTACAGG
Found at i:10044356 original size:14 final size:14
Alignment explanation
Indices: 10044339--10044382 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
10044329 TCATTTAAGA
10044339 TTTAATTTTTATAT
1 TTTAATTTTTATAT
*
10044353 TTTAATTTTTA-AC
1 TTTAATTTTTATAT
* *
10044366 TTTGATTTCTATAT
1 TTTAATTTTTATAT
10044380 TTT
1 TTT
10044383 TATAATATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTAATTTTTATAT
Found at i:10048083 original size:41 final size:41
Alignment explanation
Indices: 10048020--10048215 Score: 304
Period size: 41 Copynumber: 4.8 Consensus size: 41
10048010 TTTTGGGGGC
* *
10048020 TTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTAGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
10048061 TTTAGCGGCGTTTTGT-TTTAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTT-TATTTAAGCGCCGCTAATGTTCTGGGA
10048102 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
* * *
10048143 TTTAGTGGCGTTTTTAATTAAGCGCCGCTAATGTTCTGGGC
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
* * *
10048184 TTTAGCGGCTTTTTTATTGATGCGCCGCTAAT
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAAT
10048216 TCGCAGGTCT
Statistics
Matches: 143, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 141 0.99
42 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
Found at i:10048229 original size:82 final size:79
Alignment explanation
Indices: 10048016--10048258 Score: 265
Period size: 82 Copynumber: 2.9 Consensus size: 79
10048006 GACTTTTTGG
* *
10048016 GGGCTTTAGCGGCGTTTTTA-TGTAAGCGCCGCTAATGTTCTAGGATTTAGCGGCGTTTTGTTTT
1 GGGCTTTAGCGGCGTTTTTATTG-AAGCGCCGCTAA--TTCCAGGATTTAGCGGCGTTTT-TATT
10048080 AAGCGCCGCTAATGTTCT
62 AAGCGCCGCTAATGTTCT
* * ** *
10048098 GGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGATTTAGTGGCGTTTTTAATTA
1 GGGCTTTAGCGGCGTTTTTATTGAAGCGCCGCTAA--TTCCAGGATTTAGCGGCGTTTTT-ATTA
10048163 AGCGCCGCTAATGTTCT
63 AGCGCCGCTAATGTTCT
* * *
10048180 GGGCTTTAGCGGCTTTTTTATTGATGCGCCGCTAATTCGCAGGTCTTTAGCGGCGCTTTTT-TTA
1 GGGCTTTAGCGGCGTTTTTATTGAAGCGCCGCTAATTC-CAGG-ATTTAGCGGCG-TTTTTATT-
*
10048244 AAAACGCCGCTAATG
62 -AAGCGCCGCTAATG
10048259 CTCTTCATTT
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
80 3 0.02
81 5 0.04
82 113 0.81
83 19 0.14
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (79 bp):
GGGCTTTAGCGGCGTTTTTATTGAAGCGCCGCTAATTCCAGGATTTAGCGGCGTTTTTATTAAGC
GCCGCTAATGTTCT
Found at i:10048269 original size:123 final size:123
Alignment explanation
Indices: 10048020--10048280 Score: 300
Period size: 123 Copynumber: 2.1 Consensus size: 123
10048010 TTTTGGGGGC
*
10048020 TTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTAGGATTTAGCGGCGTTTTGTTTTAAGCG
1 TTTAGTGGCGTTTTTATGTAAGCGCCGCTAATGTTCTAGGATTTAGCGGCGTTTTGTTTTAAGCG
* * * * * *
10048085 CCGCTAATGTTCTGGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
66 CCGCTAATGTGCAGGGATTTAGCGGCGTTTTTATTAAAACGCCGCTAATGCTCTGGCA
* * *
10048143 TTTAGTGGCGTTTTTAAT-TAAGCGCCGCTAATGTTCTGGGCTTTAGCGGC-TTTT-TTATTGAT
1 TTTAGTGGCGTTTTT-ATGTAAGCGCCGCTAATGTTCTAGGATTTAGCGGCGTTTTGTT-TT-AA
** *
10048205 GCGCCGCTAAT-TCGCAGGTCTTTAGCGGCGCTTTTT-TTAAAAACGCCGCTAATGCTCT-TCA
63 GCGCCGCTAATGT-GCAGGGATTTAGCGGCG-TTTTTATT-AAAACGCCGCTAATGCTCTGGCA
*
10048266 TTTAGTGGCATTTTT
1 TTTAGTGGCGTTTTT
10048281 GGAAAGAGCC
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
121 2 0.02
122 7 0.06
123 86 0.73
124 23 0.19
ACGTcount: A:0.17, C:0.18, G:0.25, T:0.39
Consensus pattern (123 bp):
TTTAGTGGCGTTTTTATGTAAGCGCCGCTAATGTTCTAGGATTTAGCGGCGTTTTGTTTTAAGCG
CCGCTAATGTGCAGGGATTTAGCGGCGTTTTTATTAAAACGCCGCTAATGCTCTGGCA
Found at i:10048680 original size:23 final size:22
Alignment explanation
Indices: 10048652--10048739 Score: 72
Period size: 23 Copynumber: 3.8 Consensus size: 22
10048642 TATAGTATGT
10048652 AGTTTAAGGGTTTTATAGTTTA
1 AGTTTAAGGGTTTTATAGTTTA
*
10048674 AGATTTAA-TGTTTACTATAGTATGT-
1 AG-TTTAAGGGTTT--TATAGT-T-TA
10048699 AGTTTAAGGGTTTTATAGTTTA
1 AGTTTAAGGGTTTTATAGTTTA
* *
10048721 TGGTTTAAGGTTTGTTATA
1 -AGTTTAAGGGTT-TTATA
10048740 TTGGGTTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
21 1 0.02
22 7 0.13
23 21 0.40
24 16 0.30
25 7 0.13
26 1 0.02
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.50
Consensus pattern (22 bp):
AGTTTAAGGGTTTTATAGTTTA
Found at i:10048728 original size:47 final size:47
Alignment explanation
Indices: 10048641--10048733 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
10048631 GGTTTAAGGG
*
10048641 CTATAGTATGTAGTTTAAGGGTTTTATAGTTTAAGATTTAATGTTTA
1 CTATAGTATGTAGTTTAAGGGTTTTATAGTTTAAGATTTAAGGTTTA
* *
10048688 CTATAGTATGTAGTTTAAGGGTTTTATAGTTTATGGTTTAAGGTTT
1 CTATAGTATGTAGTTTAAGGGTTTTATAGTTTAAGATTTAAGGTTT
10048734 GTTATATTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (47 bp):
CTATAGTATGTAGTTTAAGGGTTTTATAGTTTAAGATTTAAGGTTTA
Found at i:10048769 original size:22 final size:21
Alignment explanation
Indices: 10048744--10048784 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
10048734 GTTATATTGG
10048744 GTTTGTGA-TTTAGTGTTTTAAA
1 GTTTG-GAGTTTAGT-TTTTAAA
10048766 GTTTGGAGTTTAGTTTTTA
1 GTTTGGAGTTTAGTTTTTA
10048785 TAGTCAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (21 bp):
GTTTGGAGTTTAGTTTTTAAA
Found at i:10053353 original size:66 final size:66
Alignment explanation
Indices: 10053283--10053418 Score: 227
Period size: 66 Copynumber: 2.1 Consensus size: 66
10053273 GACTACAGTT
* * *
10053283 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAGAGCAGATGCGGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
10053348 A
66 A
* *
10053349 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
10053414 A
66 A
10053415 GAGG
1 GAGG
10053419 CTGCAGCGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.14
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
A
Found at i:10053814 original size:43 final size:43
Alignment explanation
Indices: 10053767--10054028 Score: 418
Period size: 43 Copynumber: 6.1 Consensus size: 43
10053757 AACAAAAAGT
* * *
10053767 GGCGTTTGTGAAAAAATCGCCGCTAAAGAACAT-TAGCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGT-TCTTTAGC
* * *
10053810 GGCGTTTGTGTTAGAAGCGCCGCTAAAGCACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
*
10053853 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTGCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
10053896 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
*
10053939 GGCGTTTGTGTAAAATGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
* *
10053982 GGCGTTTGTGTAAAATGTGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
10054025 GGCG
1 GGCG
10054029 CTTTTAAAAA
Statistics
Matches: 205, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
43 204 1.00
44 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
Found at i:10061357 original size:25 final size:25
Alignment explanation
Indices: 10061329--10061379 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
10061319 AAAGACTTGA
10061329 GCCTATTACAGAAGAATGTTAGGAT
1 GCCTATTACAGAAGAATGTTAGGAT
10061354 GCCTATTACAGAAGAATGTTAGGAT
1 GCCTATTACAGAAGAATGTTAGGAT
10061379 G
1 G
10061380 ACATACTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (25 bp):
GCCTATTACAGAAGAATGTTAGGAT
Found at i:10063101 original size:11 final size:11
Alignment explanation
Indices: 10063083--10063115 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
10063073 CACATATATC
10063083 TCTTTTC-TTT
1 TCTTTTCTTTT
10063093 TCTTTTTCTTTT
1 TC-TTTTCTTTT
10063105 TCTTTTCTTTT
1 TCTTTTCTTTT
10063116 ATCTCATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.10
11 14 0.67
12 5 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:10064778 original size:15 final size:16
Alignment explanation
Indices: 10064760--10064796 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10064750 TTAATCTAAT
10064760 TTAACTTAA-TAAATC
1 TTAACTTAAGTAAATC
*
10064775 TTAA-TTAAGTTAATC
1 TTAACTTAAGTAAATC
10064790 TTAACTT
1 TTAACTT
10064797 TAATTAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 13 0.68
16 2 0.11
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (16 bp):
TTAACTTAAGTAAATC
Found at i:10068497 original size:11 final size:11
Alignment explanation
Indices: 10068481--10068506 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10068471 ATTTTTTTAA
10068481 TTTTAAAATAC
1 TTTTAAAATAC
10068492 TTTTAAAATAC
1 TTTTAAAATAC
10068503 TTTT
1 TTTT
10068507 TTTAAATTTT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:10068510 original size:39 final size:40
Alignment explanation
Indices: 10068482--10068613 Score: 169
Period size: 39 Copynumber: 3.2 Consensus size: 40
10068472 TTTTTTTAAT
* * *
10068482 TTTAAAATACTTTTAAAATACTTTTTTTAAATTTTTTAAA
1 TTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTAAT
*
10068522 TTTAAAAT-TTTTTAAAAATAC-TTTTTAAATTTTTTTAAT
1 TTTAAAATATTTTT-AAAATACTTTTTTTAATTTTTTTAAT
10068561 TTTAAAATATTTTTAAAATACTTTTTTTAATTTTTGTTTTAATT
1 TTTAAAATATTTTTAAAATACTTTTTTTAA--TTT-TTTTAA-T
10068605 TTTAAAATA
1 TTTAAAATA
10068614 AATTTTTGGT
Statistics
Matches: 80, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
39 34 0.43
40 27 0.34
42 3 0.04
43 6 0.08
44 10 0.12
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (40 bp):
TTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTAAT
Found at i:10068526 original size:40 final size:40
Alignment explanation
Indices: 10068473--10068595 Score: 182
Period size: 39 Copynumber: 3.1 Consensus size: 40
10068463 ATATTTTTAT
*
10068473 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
*
10068513 TTTTTTAAATTTAAAAT-TTTTTAAAAATAC--TTTTTAAA
1 TTTTTTAATTTTAAAATATTTTT-AAAATACTTTTTTTAAA
10068551 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT-AA
1 -TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
10068591 TTTTT
1 TTTTT
10068596 GTTTTAATTT
Statistics
Matches: 75, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
38 8 0.11
39 32 0.43
40 30 0.40
41 5 0.07
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
Found at i:10068568 original size:17 final size:17
Alignment explanation
Indices: 10068543--10068576 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10068533 TTAAAAATAC
* *
10068543 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
10068560 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
10068577 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:10082100 original size:16 final size:16
Alignment explanation
Indices: 10082074--10082123 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
10082064 ACGTGAAATT
10082074 TAATCATTTTATTGAA-A
1 TAAT-ATTTTATT-AATA
10082091 TAATATTTTAATTAATA
1 TAATATTTT-ATTAATA
10082108 TAAT-TTTTATTTAATA
1 TAATATTTTA-TTAATA
10082124 AATGATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.03
16 17 0.57
17 12 0.40
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TAATATTTTATTAATA
Found at i:10085118 original size:31 final size:31
Alignment explanation
Indices: 10085083--10085151 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
10085073 AATGGAAGGG
*
10085083 ATTACATGACTTAACCAACTATTCCTCAGGA
1 ATTACATGACTTAACCAACTATTCCCCAGGA
10085114 ATTACATGACTTAACCAACTATTCCCCAGGA
1 ATTACATGACTTAACCAACTATTCCCCAGGA
10085145 ATTACAT
1 ATTACAT
10085152 AAAGCACTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (31 bp):
ATTACATGACTTAACCAACTATTCCCCAGGA
Found at i:10095368 original size:16 final size:16
Alignment explanation
Indices: 10095317--10095370 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
10095307 TTTGGTTGGT
*
10095317 TGTAATAGAATAGGGC
1 TGTAATAGAATAGAGC
* *
10095333 TGTAATTGAATAGTGC
1 TGTAATAGAATAGAGC
* *
10095349 TGTAGTAGAATAGAGT
1 TGTAATAGAATAGAGC
10095365 TGTAAT
1 TGTAAT
10095371 CAGTAATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (16 bp):
TGTAATAGAATAGAGC
Found at i:10101750 original size:19 final size:19
Alignment explanation
Indices: 10101705--10101761 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
10101695 TTAATAAACA
*
10101705 TTAAAAAATTGTTTTAAAAAT
1 TTAAAAAA-T-TTTAAAAAAT
**
10101726 AAAAAAAATTTTAAAAAAT
1 TTAAAAAATTTTAAAAAAT
*
10101745 TTAAAAGTATTTTAAAA
1 TTAAAA-AATTTTAAAA
10101762 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 13 0.45
20 10 0.34
21 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
TTAAAAAATTTTAAAAAAT
Found at i:10101768 original size:18 final size:18
Alignment explanation
Indices: 10101716--10101769 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
10101706 TAAAAAATTG
*
10101716 TTTTAAAAATAAAAAAAA
1 TTTTAAAATTAAAAAAAA
* **
10101734 TTTTAAAAAATTTAAAAGTA
1 TTTT--AAAATTAAAAAAAA
10101754 TTTTAAAATTAAAAAA
1 TTTTAAAATTAAAAAA
10101770 TAAAAATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
18 14 0.50
20 14 0.50
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TTTTAAAATTAAAAAAAA
Found at i:10101769 original size:19 final size:18
Alignment explanation
Indices: 10101699--10101771 Score: 65
Period size: 20 Copynumber: 3.8 Consensus size: 18
10101689 CATTTTTTAA
*
10101699 TAAACATTAAAAAATTGTTT
1 TAAA-ATTAAAAAA-TATTT
* *
10101719 TAAAAATAAAAAAAATTT
1 TAAAATTAAAAAATATTT
* *
10101737 TAAAAAATTTAAAAGTATTT
1 T--AAAATTAAAAAATATTT
10101757 TAAAATTAAAAAATA
1 TAAAATTAAAAAATA
10101772 AAAATAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
18 16 0.38
19 8 0.19
20 18 0.43
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (18 bp):
TAAAATTAAAAAATATTT
Found at i:10113828 original size:18 final size:18
Alignment explanation
Indices: 10113805--10113841 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10113795 TTTCTATGTT
10113805 ATGTTAATATCTAATATG
1 ATGTTAATATCTAATATG
10113823 ATGTTAATATCTAATATG
1 ATGTTAATATCTAATATG
10113841 A
1 A
10113842 GATATATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (18 bp):
ATGTTAATATCTAATATG
Found at i:10114260 original size:13 final size:13
Alignment explanation
Indices: 10114239--10114302 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
10114229 ACACTCAAAT
10114239 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
10114252 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
10114265 TTTTTC-ACAGCAC
1 -TTTTCAAAAGCAC
10114278 TTTTCAAAAGCA-
1 TTTTCAAAAGCAC
10114290 TCTTTCAAAAGCA
1 T-TTTCAAAAGCA
10114303 ATAAAGAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.14
13 32 0.76
14 4 0.10
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:10114302 original size:26 final size:27
Alignment explanation
Indices: 10114240--10114302 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
10114230 CACTCAAATT
* *
10114240 TTTCAAAAGCACTTCTCAAAAGTACTT
1 TTTCAAAAGCACTTCTCAAAAGCACTC
* *
10114267 TTTC-ACAGCACTTTTCAAAAGCA-TC
1 TTTCAAAAGCACTTCTCAAAAGCACTC
10114292 TTTCAAAAGCA
1 TTTCAAAAGCA
10114303 ATAAAGAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 5 0.17
26 21 0.70
27 4 0.13
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTCAAAAGCACTTCTCAAAAGCACTC
Found at i:10121908 original size:21 final size:21
Alignment explanation
Indices: 10121882--10121937 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
10121872 AACAGCGGTG
*
10121882 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
10121903 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
10121924 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
10121938 AATAGCGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:10123873 original size:23 final size:23
Alignment explanation
Indices: 10123846--10123890 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10123836 AAGAATATTG
10123846 TAAGAGAAGTTTGCGAAACATAT
1 TAAGAGAAGTTTGCGAAACATAT
10123869 TAAGAGAAGTTTGCGAAACATA
1 TAAGAGAAGTTTGCGAAACATA
10123891 CTTTTCAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.24
Consensus pattern (23 bp):
TAAGAGAAGTTTGCGAAACATAT
Found at i:10124972 original size:6 final size:6
Alignment explanation
Indices: 10124948--10124996 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
10124938 TTTGCAACCC
* * *
10124948 AAGGGG AAGGAG AAAGGG AAGGGG AAGGGG AAGGGG AAGGGG AAAGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG
10124996 A
1 A
10124997 GAAGAAGGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:10127159 original size:27 final size:27
Alignment explanation
Indices: 10127128--10127179 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
10127118 ACAAACAACA
*
10127128 AAATTCAAAACAAAGGAAAACAGAAGC
1 AAATTCAAAAAAAAGGAAAACAGAAGC
* *
10127155 AAATTCAAAAAAAATGATAACAGAA
1 AAATTCAAAAAAAAGGAAAACAGAA
10127180 AATTTCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (27 bp):
AAATTCAAAAAAAAGGAAAACAGAAGC
Found at i:10129466 original size:16 final size:15
Alignment explanation
Indices: 10129441--10129474 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10129431 CATAGGAAAC
*
10129441 AGAAATGGGAAAATAA
1 AGAAAAGGGAAAA-AA
10129457 AGAAAAGGGAAAAAA
1 AGAAAAGGGAAAAAA
10129472 AGA
1 AGA
10129475 GAGAGATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (15 bp):
AGAAAAGGGAAAAAA
Found at i:10130395 original size:27 final size:28
Alignment explanation
Indices: 10130329--10130399 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
10130319 AAACAAACAA
* *
10130329 CAAAATTCAAAACAAAGGAAAACAGCAG
1 CAAAATTCAAAATAAAGGAAAACACCAG
* *
10130357 C-AAATTCAAAATAAATGATAACACCAG
1 CAAAATTCAAAATAAAGGAAAACACCAG
10130384 CAAAATTC-AAATAAAG
1 CAAAATTCAAAATAAAG
10130400 AATTACACCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 30 0.81
28 7 0.19
ACGTcount: A:0.59, C:0.17, G:0.10, T:0.14
Consensus pattern (28 bp):
CAAAATTCAAAATAAAGGAAAACACCAG
Found at i:10131196 original size:27 final size:26
Alignment explanation
Indices: 10131166--10131221 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
10131156 AAAAAATTCA
* *
10131166 AAATAAATGATAACACCAGCAAATTTC
1 AAATAAAGGATAACACCAG-AAAGTTC
*
10131193 AAATAAAGGATAACCCCAGAAAGTTC
1 AAATAAAGGATAACACCAGAAAGTTC
10131219 AAA
1 AAA
10131222 CACATTCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.54, C:0.18, G:0.11, T:0.18
Consensus pattern (26 bp):
AAATAAAGGATAACACCAGAAAGTTC
Found at i:10131766 original size:2 final size:2
Alignment explanation
Indices: 10131759--10131791 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10131749 GTATATTGGA
10131759 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10131792 ATGAAGCAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10139503 original size:40 final size:43
Alignment explanation
Indices: 10139407--10139515 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 43
10139397 CTTTTCCTCT
* * *
10139407 AAATCGCGTCCACGTCAGCGCGATTT-CAAGGGATGTGTCAGC
1 AAATCGCGTCCACGTCAGCGCGGTTTGCAAGCGATGTGTCAAC
10139449 AAATCGCGTCCACGTCAGCGCGGTTTGCTAA-CG-TG-G-CAAC
1 AAATCGCGTCCACGTCAGCGCGGTTTGC-AAGCGATGTGTCAAC
* *
10139489 AAATCGCGTCCACGTAAGCGCAGTTTG
1 AAATCGCGTCCACGTCAGCGCGGTTTG
10139516 TGTCCACGTC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
40 28 0.47
41 1 0.02
42 27 0.45
43 2 0.03
44 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.21
Consensus pattern (43 bp):
AAATCGCGTCCACGTCAGCGCGGTTTGCAAGCGATGTGTCAAC
Found at i:10139708 original size:12 final size:12
Alignment explanation
Indices: 10139692--10139767 Score: 65
Period size: 11 Copynumber: 6.8 Consensus size: 12
10139682 AACTAATCCT
*
10139692 CTCTCAAATTTT
1 CTCTCAAATTTC
10139704 CTCTC-AATTTC
1 CTCTCAAATTTC
10139715 CTCT-AAATTTC
1 CTCTCAAATTTC
*
10139726 CTCTC-AATTTG
1 CTCTCAAATTTC
*
10139737 CTTTCAAA-TTC
1 CTCTCAAATTTC
*
10139748 CT-TCCAAACTT-
1 CTCT-CAAATTTC
10139759 CTCTCAAAT
1 CTCTCAAAT
10139768 CCATATTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
10 1 0.02
11 42 0.79
12 10 0.19
ACGTcount: A:0.25, C:0.30, G:0.01, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:10139749 original size:22 final size:23
Alignment explanation
Indices: 10139692--10139746 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
10139682 AACTAATCCT
*
10139692 CTCTCAAATTTTCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
10139715 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
*
10139737 CTTTCAAATT
1 CTCTCAAATT
10139747 CCTTCCAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.47
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:10139763 original size:33 final size:32
Alignment explanation
Indices: 10139691--10139765 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 32
10139681 AAACTAATCC
* * * *
10139691 TCTCTCAAATTTTCTCTCAATTTCCTCTAAATT
1 TCTCTC-AATTTGCTCTCAAATTCCTCCAAACT
*
10139724 TCCTCTCAATTTGCTTTCAAATTCCTTCCAAACT
1 T-CTCTCAATTTGCTCTCAAATTCC-TCCAAACT
10139758 TCTCTCAA
1 TCTCTCAA
10139766 ATCCATATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 23 0.66
34 12 0.34
ACGTcount: A:0.24, C:0.31, G:0.01, T:0.44
Consensus pattern (32 bp):
TCTCTCAATTTGCTCTCAAATTCCTCCAAACT
Found at i:10140983 original size:7 final size:7
Alignment explanation
Indices: 10140971--10141003 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
10140961 TAGTCGATTG
10140971 GTATTTA
1 GTATTTA
10140978 GTATTTA
1 GTATTTA
10140985 GTATTTA
1 GTATTTA
10140992 GTATTTA
1 GTATTTA
10140999 GTATT
1 GTATT
10141004 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:10142261 original size:22 final size:22
Alignment explanation
Indices: 10142236--10142905 Score: 850
Period size: 22 Copynumber: 31.0 Consensus size: 22
10142226 TTTAATTGAC
* * *
10142236 AAACCTTAAACCTTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
10142258 AAACCCT-AACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
10142278 AAACCCT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
10142299 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
*
10142321 AAACCCT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
10142342 GAACCCTAACCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
10142364 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
10142386 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
10142408 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
10142429 AAACCCTAACCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
10142451 AAACCCTAAACTCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
10142473 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
10142495 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
10142516 AAACCCTAACCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
10142538 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
10142560 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
10142582 AAACTCT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
10142603 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
**
10142625 AAACCCTAAACATTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
10142647 AAACCCT-AACCTTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
10142668 AAACCCT-AACCTCTTGACTTAA
1 AAACCCTAAACC-CTTAACTTAA
10142690 AAACCCTAAACCCTTGAA-TTAA
1 AAACCCTAAACCCTT-AACTTAA
*
10142712 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* *
10142734 AAACCCTAAACCTTTAAGTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
10142756 AAACCCT-GACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
10142777 AAACACTAAACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
10142799 AAA--CTATAACCCTTAAATTAA
1 AAACCCTA-AACCCTTAACTTAA
*
10142820 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
** * *
10142842 AAACTGT-AACCCTTAAATAAA
1 AAACCCTAAACCCTTAACTTAA
*
10142863 AAACCCT-AACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
**
10142884 AAGTCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
10142905 A
1 A
10142906 TATAATTTGA
Statistics
Matches: 574, Mismatches: 60, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
20 22 0.04
21 201 0.35
22 343 0.60
23 8 0.01
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:10142378 original size:65 final size:64
Alignment explanation
Indices: 10142236--10142905 Score: 846
Period size: 65 Copynumber: 10.4 Consensus size: 64
10142226 TTTAATTGAC
* * * *
10142236 AAACCTTAAACCTTTAACCTAAAAACCCTAACCCTTAACTT-AAAACCCTAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * *
10142299 AAACCCTAAACCCTTAACCTAAAAACCCTAACCCTTAACCTAAGAACCCTAACCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAA-CCCTTAACTTAA
* *
10142364 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * *
10142429 AAACCCTAACCCCTTAACTTAAAAACCCTAAACTCTTAAATTAAAAACCCTAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCT-AACCCTTAACTTA
10142494 A
64 A
*
10142495 AAACCCT-AACCCTTAACTTAAAAACCCTAACCCCTTAACTTAAAAACCCTAAACCCTTAAATTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAA-CCCTTAACTTAAAAACCCT-AACCCTTAACTTA
10142559 A
64 A
* * *
10142560 AAACCCTAAACCCTTAACTTAAAAACTCTAACCCTTAAATTAAAAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
** * * *
10142625 AAACCCTAAACATTTAACTTAAAAACCCTAACCTTTAACTTTAAAACCCTAACCTCTTGACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACC-CTTAACTTAA
* * *
10142690 AAACCCTAAACCCTTGAA-TTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCTTTAAGTT
1 AAACCCTAAACCCTT-AACTTAAAAACCCT-AACCCTTAACTTAAAAACCCT-AACCCTTAACTT
10142754 AA
63 AA
* * * * ** *
10142756 AAACCCT-GACCCTTAACTTTAAAACACTAAACACTTAACTTAAAAACTATAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* ** * * *
10142820 AAACCCTAAACCCTTAAATTAAAAACTGTAACCCTTAAATAAAAAACCCTAACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
**
10142884 AAGTCCT-AACCCTTAACTTAAA
1 AAACCCTAAACCCTTAACTTAAA
10142906 TATAATTTGA
Statistics
Matches: 536, Mismatches: 59, Indels: 24
0.87 0.10 0.04
Matches are distributed among these distances:
63 52 0.10
64 69 0.13
65 315 0.59
66 96 0.18
67 4 0.01
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (64 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
Found at i:10142392 original size:87 final size:87
Alignment explanation
Indices: 10142244--10142905 Score: 910
Period size: 87 Copynumber: 7.7 Consensus size: 87
10142234 ACAAACCTTA
* *
10142244 AACCTTTAACCTAAAAACCCT-AACCCTTAACTT-AAAACCCT-AACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
*
10142306 AAACCCTTAACCTAAAAACCCT
66 AAACCCTTAACTTAAAAACCCT
* * * *
10142328 AACCCTTAACCTAAGAACCCTAACCCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
*
10142393 AAACCCTTAAATTAAAAACCCT
66 AAACCCTTAACTTAAAAACCCT
* * *
10142415 AACCCTTAACTTTAAAACCCTAACCCCTTAACTTAAAAACCCTAAACTCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
10142480 AAACCCTTAACTTAAAAACCCT
66 AAACCCTTAACTTAAAAACCCT
*
10142502 AACCCTTAACTTAAAAACCCTAACCCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
*
10142567 AAACCCTTAACTTAAAAACTCT
66 AAACCCTTAACTTAAAAACCCT
* * ** *
10142589 AACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACATTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
* *
10142654 -AACCTTTAACTTTAAAACCCT
66 AAACCCTTAACTTAAAAACCCT
*
10142675 AACCTCTTGACTTAAAAACCCTAAACCCTTGAA-TTAAAAACCCTAAACCCTTAAATTAAAAACC
1 AACC-CTTAACTTAAAAACCCTAAACCCTT-AACTTAAAAACCCTAAACCCTTAAATTAAAAACC
* *
10142739 CTAAACCTTTAAGTTAAAAACCCT
64 CTAAACCCTTAACTTAAAAACCCT
* * * *
10142763 GACCCTTAACTTTAAAACACTAAACACTTAACTTAAAAA--CTATAACCCTTAAATTAAAAACCC
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTA-AACCCTTAAATTAAAAACCC
* **
10142826 TAAACCCTTAAATTAAAAACTGT
65 TAAACCCTTAACTTAAAAACCCT
* * * ** *
10142849 AACCCTTAAATAAAAAACCCT-AACACTTAACTTAAAAGTCCT-AACCCTTAACTTAAA
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAA
10142906 TATAATTTGA
Statistics
Matches: 521, Mismatches: 47, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
84 19 0.04
85 44 0.08
86 87 0.17
87 347 0.67
88 24 0.05
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (87 bp):
AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
AAACCCTTAACTTAAAAACCCT
Found at i:10146485 original size:127 final size:125
Alignment explanation
Indices: 10146058--10146522 Score: 659
Period size: 126 Copynumber: 3.7 Consensus size: 125
10146048 CCCAAACATG
10146058 CTACTGTAGCAAAAGCGCGTCCAC-ATGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTG
* * * *
10146122 CTAGAAGCG-ATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGTAC
65 CTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
* *
10146182 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * * * *
10146246 CTTGCAGTGTTGTTTTATACTACTTGCTTAGAAATGTCAAGTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
*
10146308 CTACTGTAGCAAAAGCGCGTCCACGTA-GGCGCAATTTCACAAATTCTTCTCATAAAGCATCTTG
1 CTACTGTAGCAAAAGCGCGTCCACG-AGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTG
* *
10146372 CTTGAAGCGTTTTTTTAAATTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
65 CTTGAAGCG-TTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTT-TTCCAGGAC
* * * * *
10146435 CAACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTTTTCTCATAAAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGC
10146500 TTGAAGCGTTTTTTAAACTATTT
66 TTGAAGCGTTTTTTAAACTATTT
10146523 TCCAGGACCT
Statistics
Matches: 305, Mismatches: 27, Indels: 16
0.88 0.08 0.05
Matches are distributed among these distances:
123 2 0.01
124 64 0.21
125 1 0.00
126 158 0.52
127 80 0.26
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
Found at i:10147036 original size:12 final size:13
Alignment explanation
Indices: 10147008--10147037 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10146998 TAATTGTTAA
10147008 TATTATTAAATTT
1 TATTATTAAATTT
10147021 TATTATTAAA-TT
1 TATTATTAAATTT
10147033 TATTA
1 TATTA
10147038 GATGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATTAAATTT
Found at i:10148001 original size:6 final size:6
Alignment explanation
Indices: 10147989--10148023 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10147979 CAAGTGAAAC
* *
10147989 CAAAAT TAAAAT TAAAAT CAAAAT CAAAAT CAAAA
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAA
10148024 GGAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (6 bp):
CAAAAT
Found at i:10159637 original size:17 final size:17
Alignment explanation
Indices: 10159615--10159678 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
10159605 AATCTTAGAG
10159615 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
10159632 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
10159651 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
10159668 TTTTAATTGTA
1 TTCTAATTGTA
10159679 GCCTTTGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.55
18 4 0.11
19 11 0.29
20 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:10159654 original size:36 final size:36
Alignment explanation
Indices: 10159607--10159677 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
10159597 GATTATGTAA
10159607 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
*
10159643 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
10159678 AGCCTTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
Found at i:10159656 original size:19 final size:19
Alignment explanation
Indices: 10159606--10159662 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
10159596 TGATTATGTA
10159606 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
10159625 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
10159642 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
10159661 AT
1 AT
10159663 ACAGCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.37
18 4 0.13
19 13 0.43
20 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:10159954 original size:48 final size:48
Alignment explanation
Indices: 10159883--10159977 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
10159873 TGAGGGAATT
*
10159883 CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCGTTTTTG
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTTG
10159931 CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTT
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTT
10159978 TAAGCAAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTTG
Found at i:10164793 original size:36 final size:36
Alignment explanation
Indices: 10164748--10164818 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
10164738 GATTATGTAA
* *
10164748 TCTTAGAGTTCTAATTGTATATAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
* *
10164784 TCTTGGAGTTCTAATTGTATACAACTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGT
10164819 AGCCTTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
Found at i:10169539 original size:26 final size:26
Alignment explanation
Indices: 10169463--10169544 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 26
10169453 AACTTCAAGC
* *
10169463 GAGCCA-T-ATCGGGAAGCTCCTG-A
1 GAGCCATTAATCGAGAAGCTCATGAA
**
10169486 GAGCCATTAATC-AGGAAGCTCACAAA
1 GAGCCATTAATCGA-GAAGCTCATGAA
**
10169512 GAGCTTTTAATCGAGAAGCTCATGAA
1 GAGCCATTAATCGAGAAGCTCATGAA
10169538 GAGCCAT
1 GAGCCAT
10169545 ATATTGGGAC
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
23 6 0.14
24 1 0.02
25 10 0.23
26 26 0.59
27 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (26 bp):
GAGCCATTAATCGAGAAGCTCATGAA
Found at i:10170039 original size:5 final size:5
Alignment explanation
Indices: 10170029--10170053 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10170019 CACAATTCCT
10170029 ATTCA ATTCA ATTCA ATTCA ATTCA
1 ATTCA ATTCA ATTCA ATTCA ATTCA
10170054 CATCCTAGGC
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:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCA
Found at i:10170610 original size:16 final size:13
Alignment explanation
Indices: 10170573--10170600 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10170563 TTTATTTTTA
10170573 TTATTTATCATCT
1 TTATTTATCATCT
10170586 TTATTTATCATCT
1 TTATTTATCATCT
10170599 TT
1 TT
10170601 CCAATTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:10172088 original size:57 final size:58
Alignment explanation
Indices: 10171968--10172109 Score: 191
Period size: 57 Copynumber: 2.5 Consensus size: 58
10171958 ATTAGAAAAA
* * *
10171968 AAAAAGTGTCAAGTT-TAGATACCACATTGGACCAAAAAAACTAATGTACTAAATTAAG
1 AAAAAGTGTCAAGTTCAAG-TACCAAATTGGACCAAAAAAACTAATATACTAAATTAAG
*
10172026 AAAAAGTGTCAAGTTCAAGTACCAAATTGGA-CAAAAAAACTTATATATCTAAA-TAAG
1 AAAAAGTGTCAAGTTCAAGTACCAAATTGGACCAAAAAAACTAATATA-CTAAATTAAG
* *
10172083 AAAAAGTGTCAAATTCATGTACCAAAT
1 AAAAAGTGTCAAGTTCAAGTACCAAAT
10172110 ACTATATTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
57 43 0.57
58 31 0.41
59 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (58 bp):
AAAAAGTGTCAAGTTCAAGTACCAAATTGGACCAAAAAAACTAATATACTAAATTAAG
Found at i:10172986 original size:18 final size:18
Alignment explanation
Indices: 10172948--10172983 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10172938 TTATTATTTT
*
10172948 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
10172966 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
10172984 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:10175607 original size:41 final size:41
Alignment explanation
Indices: 10175505--10175610 Score: 185
Period size: 41 Copynumber: 2.6 Consensus size: 41
10175495 ACTGGCAATT
* * *
10175505 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
10175546 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
10175587 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
10175611 TTATCTCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:10179706 original size:14 final size:14
Alignment explanation
Indices: 10179640--10179699 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
10179630 GATATTTTAG
10179640 TTAATATATATTATA
1 TTAAT-TATATTATA
*
10179655 TTTATT-TACTTA-A
1 TTAATTATA-TTATA
* *
10179668 TAAATAAGTATTATA
1 TTAATTA-TATTATA
10179683 TTAATTATATTATA
1 TTAATTATATTATA
10179697 TTA
1 TTA
10179700 TATATATGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
13 6 0.17
14 17 0.49
15 12 0.34
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (14 bp):
TTAATTATATTATA
Found at i:10180802 original size:19 final size:19
Alignment explanation
Indices: 10180778--10180827 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
10180768 AAATGCGAAA
10180778 GTGAATTGTG-AATTGATAT
1 GTGAATT-TGAAATTGATAT
10180797 GTGAATTTGAAATTGATAT
1 GTGAATTTGAAATTGATAT
*
10180816 ATGAGATTTGAA
1 GTGA-ATTTGAA
10180828 GATATGAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 2 0.07
19 19 0.68
20 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (19 bp):
GTGAATTTGAAATTGATAT
Found at i:10186993 original size:14 final size:15
Alignment explanation
Indices: 10186964--10186996 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10186954 AAATATAAAC
10186964 ATACAATTGAAACAA
1 ATACAATTGAAACAA
*
10186979 ATACAATT-CAACAA
1 ATACAATTGAAACAA
10186993 ATAC
1 ATAC
10186997 TTTAGTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.21
Consensus pattern (15 bp):
ATACAATTGAAACAA
Found at i:10188211 original size:2 final size:2
Alignment explanation
Indices: 10188204--10188236 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10188194 TAACAAAGCA
10188204 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10188237 AAATTAAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10190927 original size:40 final size:40
Alignment explanation
Indices: 10190887--10190961 Score: 104
Period size: 37 Copynumber: 2.0 Consensus size: 40
10190877 TATAATAAAT
10190887 AAAT-ATTTTTTATTC-TTTAAT-TTTAAAAT-ATTTTTA
1 AAATAATTTTTTATTCTTTTAATATTTAAAATAATTTTTA
* *
10190923 AAATACTTTTTTATTCTTTTTATATTTAAAATAATTTTT
1 AAATAATTTTTTATTCTTTTAATATTTAAAATAATTTTT
10190962 TTGGTGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 4 0.12
37 10 0.30
38 5 0.15
39 8 0.24
40 6 0.18
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (40 bp):
AAATAATTTTTTATTCTTTTAATATTTAAAATAATTTTTA
Found at i:10191202 original size:15 final size:15
Alignment explanation
Indices: 10191184--10191213 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10191174 CTCTAAACAC
*
10191184 TAAACGCTAAAACCT
1 TAAACCCTAAAACCT
10191199 TAAACCCTAAAACCT
1 TAAACCCTAAAACCT
10191214 AAAAACGAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (15 bp):
TAAACCCTAAAACCT
Found at i:10191203 original size:7 final size:7
Alignment explanation
Indices: 10191165--10191216 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
10191155 TTTAATTTTT
10191165 AACCCTA
1 AACCCTA
*
10191172 AACTCTA
1 AACCCTA
*
10191179 AACACTA
1 AACCCTA
*
10191186 AACGCTAA
1 AACCCT-A
*
10191194 AACCTTA
1 AACCCTA
10191201 AACCCTA
1 AACCCTA
*
10191208 AAACCTA
1 AACCCTA
10191215 AA
1 AA
10191217 AACGAGCAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.50, C:0.31, G:0.02, T:0.17
Consensus pattern (7 bp):
AACCCTA
Found at i:10195363 original size:32 final size:32
Alignment explanation
Indices: 10195322--10195389 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
10195312 TTTAGAAAAT
10195322 ATTAATACAAAT-CCTTAAAAAAAATAGGATTG
1 ATTAATAC-AATCCCTTAAAAAAAATAGGATTG
* * * *
10195354 ATTAATACAATCCCTTGAAGAAATTAGGTTTG
1 ATTAATACAATCCCTTAAAAAAAATAGGATTG
10195386 ATTA
1 ATTA
10195390 GAAATTTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (32 bp):
ATTAATACAATCCCTTAAAAAAAATAGGATTG
Found at i:10196922 original size:30 final size:30
Alignment explanation
Indices: 10196886--10196949 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
10196876 TGGCCAAGCT
* * *
10196886 GTGTGGCTCACACGGCCAAGAGACATGCCC
1 GTGTGGCTCACACAGCAAAGAGACACGCCC
*
10196916 GTGTGGCTCACACAGCAAAGAGATACGCCC
1 GTGTGGCTCACACAGCAAAGAGACACGCCC
10196946 GTGT
1 GTGT
10196950 CTTAGGTCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.16
Consensus pattern (30 bp):
GTGTGGCTCACACAGCAAAGAGACACGCCC
Found at i:10197962 original size:21 final size:21
Alignment explanation
Indices: 10197938--10197978 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10197928 AAGGATTAAA
10197938 CAGAAGCTCAAAAGAGCTGAG
1 CAGAAGCTCAAAAGAGCTGAG
* *
10197959 CAGAAGCTCATAGGAGCTGA
1 CAGAAGCTCAAAAGAGCTGA
10197979 ATGGAAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.12
Consensus pattern (21 bp):
CAGAAGCTCAAAAGAGCTGAG
Found at i:10198054 original size:21 final size:21
Alignment explanation
Indices: 10197918--10198054 Score: 62
Period size: 21 Copynumber: 6.5 Consensus size: 21
10197908 AGTGCTAAAT
* ** *
10197918 AGAAACCCATAAGGATTAAAC
1 AGAAACTCATAAGGGCTGAAC
* * * *
10197939 AGAAGCTCAAAAGAGCTGAGC
1 AGAAACTCATAAGGGCTGAAC
* *
10197960 AGAAGCTCAT-AGGAGCTGAAT
1 AGAAACTCATAAGG-GCTGAAC
* * * * *
10197981 GGAAACCCTTAAGGGTTCAAC
1 AGAAACTCATAAGGGCTGAAC
* * * *
10198002 AGAAGCTTAAAAGAGCTGAAC
1 AGAAACTCATAAGGGCTGAAC
*
10198023 AGAAA-TCCATAAGGGTTGAAC
1 AGAAACT-CATAAGGGCTGAAC
10198044 AGAAACTCATA
1 AGAAACTCATA
10198055 TAAGTTAACA
Statistics
Matches: 79, Mismatches: 33, Indels: 8
0.66 0.28 0.07
Matches are distributed among these distances:
20 3 0.04
21 72 0.91
22 4 0.05
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
AGAAACTCATAAGGGCTGAAC
Found at i:10199872 original size:22 final size:24
Alignment explanation
Indices: 10199840--10199893 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
10199830 ATATTAGAGA
*
10199840 TATTTTGAT-GATATTTTA-TAAT
1 TATTTTAATAGATATTTTATTAAT
*
10199862 TATTTTAATGAGATATTTTATTTAT
1 TATTTTAAT-AGATATTTTATTAAT
10199887 TATTTTA
1 TATTTTA
10199894 TTTAGTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 8 0.30
24 9 0.33
25 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (24 bp):
TATTTTAATAGATATTTTATTAAT
Found at i:10201698 original size:25 final size:26
Alignment explanation
Indices: 10201670--10201718 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10201660 ACATACCGTA
10201670 GCTC-TTATGAGCGTCCCGATATATG
1 GCTCTTTATGAGCGTCCCGATATATG
* *
10201695 GCTCTTTATGAGCTTCCTGATATA
1 GCTCTTTATGAGCGTCCCGATATA
10201719 GCTCACTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GCTCTTTATGAGCGTCCCGATATATG
Found at i:10211753 original size:12 final size:11
Alignment explanation
Indices: 10211648--10211749 Score: 60
Period size: 12 Copynumber: 8.5 Consensus size: 11
10211638 CATTTAATTC
10211648 TTTTATCAAGT
1 TTTTATCAAGT
10211659 TTTTAATTACCAAGT
1 TTTT-A-T--CAAGT
10211674 TTTCTATCAAGT
1 TTT-TATCAAGT
*
10211686 TTTGTAGCAAGT
1 TTT-TATCAAGT
* *
10211698 TTTTTTTAAGT
1 TTTTATCAAGT
10211709 TTTTCATCAAGT
1 TTTT-ATCAAGT
* * *
10211721 CTTTCATAAAAT
1 -TTTTATCAAGT
*
10211733 TTTCCATCAAGT
1 TTT-TATCAAGT
10211745 TTTTA
1 TTTTA
10211750 ATCATTTCGT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
11 17 0.24
12 38 0.54
13 4 0.06
14 1 0.01
15 9 0.13
16 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (11 bp):
TTTTATCAAGT
Found at i:10214288 original size:18 final size:18
Alignment explanation
Indices: 10214244--10214289 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
10214234 CCCGAATAAT
*
10214244 AAATATTTTTATTTTTTA
1 AAATATTTTTATATTTTA
10214262 AAA-ATTTTT-TAATTTTA
1 AAATATTTTTAT-ATTTTA
10214279 AAATACTTTTT
1 AAATA-TTTTT
10214290 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 1 0.04
17 14 0.58
18 4 0.17
19 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
AAATATTTTTATATTTTA
Found at i:10214291 original size:31 final size:31
Alignment explanation
Indices: 10214255--10214377 Score: 140
Period size: 31 Copynumber: 4.3 Consensus size: 31
10214245 AATATTTTTA
10214255 TTTTTTAAAAATTTTTTAATTTTAAAATACT
1 TTTTTTAAAAATTTTTTAATTTTAAAATACT
* *
10214286 TTTTTT-TAATTTTTTTAATTTT-AAAT--T
1 TTTTTTAAAAATTTTTTAATTTTAAAATACT
10214313 TTTGTTT-AAAA---TTT--TTTTAAAATACT
1 TTT-TTTAAAAATTTTTTAATTTTAAAATACT
*
10214339 TTTTTTAAAATTTTTTTAATTTTAAAATACT
1 TTTTTTAAAAATTTTTTAATTTTAAAATACT
10214370 TTTTTTAA
1 TTTTTTAA
10214378 TTTTAATTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
23 4 0.05
24 4 0.05
25 6 0.08
26 7 0.09
27 4 0.05
28 5 0.06
29 7 0.09
30 14 0.18
31 26 0.34
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (31 bp):
TTTTTTAAAAATTTTTTAATTTTAAAATACT
Found at i:10214298 original size:29 final size:29
Alignment explanation
Indices: 10214264--10214389 Score: 126
Period size: 26 Copynumber: 4.6 Consensus size: 29
10214254 ATTTTTTAAA
10214264 AATTTTTTAATTTTAAAATACTTTTTTTT
1 AATTTTTTAATTTTAAAATACTTTTTTTT
*
10214293 AATTTTTTTAATTTT-AAAT--TTTTGTTT
1 AA-TTTTTTAATTTTAAAATACTTTTTTTT
** *
10214320 AA-AATTT--TTTTAAAATACTTTTTTTAA
1 AATTTTTTAATTTTAAAATACTTTTTTT-T
10214347 AATTTTTTTAATTTTAAAATAC-TTTTTTT
1 AA-TTTTTTAATTTTAAAATACTTTTTTTT
10214376 AA--TTTTAATTTTAA
1 AATTTTTTAATTTTAA
10214390 TTTTTAAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 21
0.73 0.07 0.19
Matches are distributed among these distances:
23 4 0.05
24 4 0.05
25 3 0.04
26 18 0.22
27 11 0.14
29 11 0.14
30 18 0.22
31 11 0.14
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (29 bp):
AATTTTTTAATTTTAAAATACTTTTTTTT
Found at i:10214328 original size:14 final size:13
Alignment explanation
Indices: 10214255--10214355 Score: 64
Period size: 14 Copynumber: 7.4 Consensus size: 13
10214245 AATATTTTTA
*
10214255 TTTTTTAAAAATTT
1 TTTTTTTAAAA-TT
10214269 TTTAATTTTAAAATACT
1 TTT--TTTTAAAAT--T
*
10214286 TTTTTTT-AATTT
1 TTTTTTTAAAATT
*
10214298 TTTTAATTTTAAATT
1 TTTT--TTTAAAATT
*
10214313 TTTGTTTAAAA--
1 TTTTTTTAAAATT
*
10214324 TTTTTTTAAAATAC
1 TTTTTTTAAAAT-T
10214338 TTTTTTTAAAATT
1 TTTTTTTAAAATT
10214351 TTTTT
1 TTTTT
10214356 AATTTTAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 21
0.71 0.07 0.21
Matches are distributed among these distances:
11 10 0.14
12 5 0.07
13 11 0.16
14 21 0.30
15 12 0.17
16 7 0.10
17 4 0.06
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (13 bp):
TTTTTTTAAAATT
Found at i:10214333 original size:11 final size:11
Alignment explanation
Indices: 10214304--10214357 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 11
10214294 ATTTTTTTAA
*
10214304 TTTTAAATTTT
1 TTTTAAAATTT
10214315 TGTTTAAAATTT
1 T-TTTAAAATTT
10214327 TTTTAAAATACTTT
1 TTTT-AAA-A-TTT
10214341 TTTTAAAATTT
1 TTTTAAAATTT
10214352 TTTTAA
1 TTTTAA
10214358 TTTTAAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 13 0.34
12 14 0.37
13 4 0.11
14 7 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:10214377 original size:14 final size:14
Alignment explanation
Indices: 10214324--10214377 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
10214314 TTGTTTAAAA
10214324 TTTTTTTAAAATAC
1 TTTTTTTAAAATAC
**
10214338 TTTTTTTAAAATTTT
1 TTTTTTTAAAA-TAC
10214353 TTTAATTTTAAAATAC
1 TTT--TTTTAAAATAC
10214369 TTTTTTTAA
1 TTTTTTTAA
10214378 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 17 0.52
15 4 0.12
16 4 0.12
17 8 0.24
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTTAAAATAC
Found at i:10221493 original size:78 final size:78
Alignment explanation
Indices: 10221364--10221968 Score: 469
Period size: 78 Copynumber: 7.7 Consensus size: 78
10221354 TCTACGCACC
* * *
10221364 AACTTGTGGGGGAGTGTCGAGATTAAAAGAAATATGTTGTAACCTTTGACCTTAACTAATTGATA
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGATA
* *
10221429 TTAGGATCTAGTT
66 TTAAGATCCAGTT
* *
10221442 AACTTGTGGGGAAGTGTCGATATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTAATA
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGATA
*
10221507 TTAAAATCCAGTT
66 TTAAGATCCAGTT
* * * *
10221520 AACTTGTGGGGGAA-TGTCAGAGATTAGAAGAAGTCGA-GATTAAAAGAAATATGTTGTAATCTT
1 AACTTGT-GGGGAAGTGTC-GAGATTAGAAGAAAT--ATG-TT----GTAATCT-TTG--A-CCT
* * * * ** *
10221583 TGACCTTAAGT-A-ATTGATATTAATGTC
53 T-AAC-TAATTGATATTAAGATCCA-GTT
* * * *** * ** * *** * *
10221610 CAGTT-AGCTTATG-GGGGAG-TGTAG-AG-ATTA-AAAGAAATCTTTGACCTTAAGTAATTGAT
1 AACTTGTGGGGAAGTGTCGAGAT-TAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGAT
* *
10221669 ATTAGGATCTAGTT
65 ATTAAGATCCAGTT
* * *
10221683 AACTTGTGGGGGAGTGTCGAGATTAGAAGAAATTTGTTGTAATCTTTGACCTTAAGTAATTGATA
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGATA
10221748 TTAAGATCCAGTT
66 TTAAGATCCAGTT
* *
10221761 AACTTGTGGGGGAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAATTAATTGATA
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGATA
*
10221826 TTAAAATCCAGTT
66 TTAAGATCCAGTT
* * * * * * * *
10221839 AGCTTAT-GGGAGAGTATCGAGATTAAAAGAAATATGTTGTAATATTTGACCTTCAGTAATTTAT
1 AACTTGTGGGGA-AGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGAT
* *
10221903 ATTAGGATCCAATT
65 ATTAAGATCCAGTT
* * *
10221917 AACTTGTGGAGAA-TGTCGAGATTAAAAGAAATATGTTGTAATATTTGACCTT
1 AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTT
10221969 TTAAGTATTT
Statistics
Matches: 418, Mismatches: 81, Indels: 57
0.75 0.15 0.10
Matches are distributed among these distances:
72 4 0.01
73 7 0.02
74 11 0.03
75 8 0.02
76 3 0.01
77 46 0.11
78 267 0.64
79 22 0.05
80 1 0.00
81 3 0.01
83 1 0.00
85 7 0.02
86 6 0.01
87 6 0.01
88 4 0.01
89 10 0.02
90 8 0.02
91 4 0.01
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (78 bp):
AACTTGTGGGGAAGTGTCGAGATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTGATA
TTAAGATCCAGTT
Found at i:10221625 original size:95 final size:94
Alignment explanation
Indices: 10221457--10221645 Score: 279
Period size: 95 Copynumber: 2.0 Consensus size: 94
10221447 GTGGGGAAGT
* *
10221457 GTCGATATTAGAAGAAATATGTTGTAATCTTTGACCTTAACTAATTAATATTAAAATCCAGTTAA
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAACTAATTAATATTAAAATCCAGTTAA
* *
10221522 CTTGTGGGGGAATGTCAGAGATTAGAAGAA
66 CTTATGGGGGAATGT-AGAGATTAAAAGAA
* * ** *
10221552 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAAGTAATTGATATTAATGTCCAGTTAG
1 GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAACTAATTAATATTAAAATCCAGTTAA
*
10221617 CTTATGGGGGAGTGTAGAGATTAAAAGAA
66 CTTATGGGGGAATGTAGAGATTAAAAGAA
10221646 ATCTTTGACC
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 13 0.15
95 71 0.85
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (94 bp):
GTCGAGATTAAAAGAAATATGTTGTAATCTTTGACCTTAACTAATTAATATTAAAATCCAGTTAA
CTTATGGGGGAATGTAGAGATTAAAAGAA
Found at i:10236821 original size:18 final size:18
Alignment explanation
Indices: 10236800--10236838 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10236790 GAACGATGCC
* *
10236800 AAAAGAAAGAAGAAAAGG
1 AAAAGAAAAAAGAAAAAG
*
10236818 AAAATAAAAAAGAAAAAG
1 AAAAGAAAAAAGAAAAAG
10236836 AAA
1 AAA
10236839 CTGTGAGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAAAG
Found at i:10241485 original size:78 final size:78
Alignment explanation
Indices: 10241340--10241778 Score: 610
Period size: 78 Copynumber: 5.6 Consensus size: 78
10241330 AGTTAACTAG
* * * * *
10241340 ATCAAATACTTAAAGGTCAAATAATACAACAT-TTTTTTTTAATCTCGACATTCCCCCACAAGTT
1 ATCAATTACTT-AAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTT
*
10241404 AATTGGATCCTAAT
65 AATTGGATCTTAAT
* * * * * *
10241418 ATAAATTACTTAAGGTCAAATATTACAACATATTTCTTTTAATCTCGATACTCTCCCATAAGCTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
*
10241483 ATTGGATTTTAAT
66 ATTGGATCTTAAT
* * *
10241496 ATCAATTAATTAAGGTCAAAGATTATAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
*
10241561 ATTGGATCTTAAA
66 ATTGGATCTTAAT
* *
10241574 ATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
* * *
10241639 ACTAGATCCTAAT
66 ATTGGATCTTAAT
* * * *
10241652 ATCAATTACTTAAGGTCAAAGATTTCAACATATTTCTTTTAATCTCTACACTCCCCCATAAGCTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
*
10241717 ACTGGATCTTAAT
66 ATTGGATCTTAAT
*
10241730 ATCAATTACCTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGAC
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGAC
10241779 TTCTTCTAAT
Statistics
Matches: 320, Mismatches: 40, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
77 19 0.06
78 301 0.94
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (78 bp):
ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCACAAGTTA
ATTGGATCTTAAT
Found at i:10241652 original size:156 final size:156
Alignment explanation
Indices: 10241340--10241965 Score: 734
Period size: 156 Copynumber: 3.9 Consensus size: 156
10241330 AGTTAACTAG
* * * * * *
10241340 ATCAAATACTTAAAGGTCAAATAATACAACAT-TTTTTTTTAATCTCGACATTCCCCCACAAGTT
1 ATCAATTACTT-AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTT
* * * * * *
10241404 AATTGGATCCTAATATAAATTACTTAAGGTCAAATATTACAACATATTTCTTTTAATCTCGATAC
65 AACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACAC
* * * *
10241469 TCTCCCATAAGCTAATTGGATTTTAAT
130 TCCCCCACAAGTTAACTGGATTTTAAT
* *
10241496 ATCAATTAATTAAGGTCAAAGATTATAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
* * *
10241561 ATTGGATCTTAAAATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACT
66 ACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACT
* **
10241626 CCCCCACAAGTTAACTAGATCCTAAT
131 CCCCCACAAGTTAACTGGATTTTAAT
* * * * *
10241652 ATCAATTACTTAAGGTCAAAGATTTCAACATATTTCTTTTAATCTCTACACTCCCCCATAAGCTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
* *
10241717 ACTGGATCTTAATATCAATTACCTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACTTC
66 ACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAAC--A--------AA--T----TTC
*
10241782 TTCTAATCTCGACATTCCCCCACAAGTTAACTGGATTTTAAT
115 TTCTAATCTCGACACTCCCCCACAAGTTAACTGGATTTTAAT
* *
10241824 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATATCGACACTTCCCCACAAGTTA
1 ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
* * * *
10241889 ACTAGATCCTAATATCAATTAGTTAAGGTCAAATG-TTACAACATATTTCTTTTAATCTCGACAC
66 ACTGGATCCTAATATCAATTACTTAAGGTCAAA-GATTACAACAAATTTCTTCTAATCTCGACAC
10241953 TCCCCCACAAGTT
130 TCCCCCACAAGTT
10241966 GGTGCGTAGA
Statistics
Matches: 402, Mismatches: 50, Indels: 36
0.82 0.10 0.07
Matches are distributed among these distances:
155 17 0.04
156 242 0.60
158 1 0.00
160 1 0.00
162 1 0.00
166 2 0.00
168 1 0.00
170 1 0.00
172 135 0.34
173 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (156 bp):
ATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
ACTGGATCCTAATATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACT
CCCCCACAAGTTAACTGGATTTTAAT
Found at i:10241788 original size:16 final size:16
Alignment explanation
Indices: 10241763--10241794 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10241753 TACAACATAT
*
10241763 TTCTTTTAATCTCGAC
1 TTCTTCTAATCTCGAC
10241779 TTCTTCTAATCTCGAC
1 TTCTTCTAATCTCGAC
10241795 ATTCCCCCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.28, G:0.06, T:0.47
Consensus pattern (16 bp):
TTCTTCTAATCTCGAC
Found at i:10241846 original size:94 final size:94
Alignment explanation
Indices: 10241685--10241872 Score: 295
Period size: 94 Copynumber: 2.0 Consensus size: 94
10241675 TTCAACATAT
* * *
10241685 TTCTTTTAATCTCTACACTCCCCCATAAGCTAACTGGATCTTAATATCAATTACCTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAGCTAACTGGATCTTAATATCAATTACCTAAGGTCAAA
* *
10241750 GATTACAACATATTTCTTTTAATCTCGAC
66 GATTACAACATATTTCTTCTAATATCGAC
* * * *
10241779 TTCTTCTAATCTCGACATTCCCCCACAAGTTAACTGGATTTTAATATCAATTACTTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAGCTAACTGGATCTTAATATCAATTACCTAAGGTCAAA
10241844 GATTACAACATATTTCTTCTAATATCGAC
66 GATTACAACATATTTCTTCTAATATCGAC
10241873 ACTTCCCCAC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 85 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (94 bp):
TTCTTCTAATCTCGACACTCCCCCACAAGCTAACTGGATCTTAATATCAATTACCTAAGGTCAAA
GATTACAACATATTTCTTCTAATATCGAC
Found at i:10241904 original size:172 final size:172
Alignment explanation
Indices: 10241607--10241950 Score: 537
Period size: 172 Copynumber: 2.0 Consensus size: 172
10241597 TACAACAAAT
10241607 TTCTTCTAATCTCGACACTCCCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
* * * * * * *
10241672 GATTTCAACATATTTCTTTTAATCTCTACACTCCCCCATAAGCTAACTGGATCTTAATATCAATT
66 GATTACAACATATTTCTTCTAATATCGACACTCCCCCACAAGCTAACTAGATCCTAATATCAATT
10241737 ACCTAAGGTCAAA-GATTACAACATATTTCTTTTAATCTCGAC
131 ACCTAAGGTCAAATG-TTACAACATATTTCTTTTAATCTCGAC
* * **
10241779 TTCTTCTAATCTCGACATTCCCCCACAAGTTAACTGGATTTTAATATCAATTACTTAAGGTCAAA
1 TTCTTCTAATCTCGACACTCCCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
* *
10241844 GATTACAACATATTTCTTCTAATATCGACACTTCCCCACAAGTTAACTAGATCCTAATATCAATT
66 GATTACAACATATTTCTTCTAATATCGACACTCCCCCACAAGCTAACTAGATCCTAATATCAATT
**
10241909 AGTTAAGGTCAAATGTTACAACATATTTCTTTTAATCTCGAC
131 ACCTAAGGTCAAATGTTACAACATATTTCTTTTAATCTCGAC
10241951 ACTCCCCCAC
Statistics
Matches: 156, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
172 155 0.99
173 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (172 bp):
TTCTTCTAATCTCGACACTCCCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
GATTACAACATATTTCTTCTAATATCGACACTCCCCCACAAGCTAACTAGATCCTAATATCAATT
ACCTAAGGTCAAATGTTACAACATATTTCTTTTAATCTCGAC
Found at i:10241908 original size:78 final size:78
Alignment explanation
Indices: 10241779--10241965 Score: 279
Period size: 78 Copynumber: 2.4 Consensus size: 78
10241769 TAATCTCGAC
* **
10241779 TTCTTCTAATCTCGACA-TTCCCCCACAAGTTAACTGGATTTTAATATCAATTACTTAAGGTCAA
1 TTCTTCTAATCTCGACACTT-CCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAA
10241843 A-GATTACAACATAT
65 ATG-TTACAACATAT
* *
10241857 TTCTTCTAATATCGACACTTCCCCACAAGTTAACTAGATCCTAATATCAATTAGTTAAGGTCAAA
1 TTCTTCTAATCTCGACACTTCCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
10241922 TGTTACAACATAT
66 TGTTACAACATAT
* *
10241935 TTCTTTTAATCTCGACACTCCCCCACAAGTT
1 TTCTTCTAATCTCGACACTTCCCCACAAGTT
10241966 GGTGCGTAGA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 96 0.97
79 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (78 bp):
TTCTTCTAATCTCGACACTTCCCCACAAGTTAACTAGATCCTAATATCAATTACTTAAGGTCAAA
TGTTACAACATAT
Found at i:10246675 original size:42 final size:41
Alignment explanation
Indices: 10246622--10246728 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 41
10246612 AGAGGACATA
* *
10246622 GGCGTGCATCCAGGCCATGTGGCTCACACGGGCAAGGACACG
1 GGCGTGTATCCAGGCCGTGTGGC-CACACGGGCAAGGACACG
* * * * *
10246664 GGCGTGTATCCAGGTCGTGTAAGCCATACGGGCAAGTACATG
1 GGCGTGTATCCAGGCCGTGT-GGCCACACGGGCAAGGACACG
*
10246706 GGCGTGTGTCCAGGCCGTGTGGC
1 GGCGTGTATCCAGGCCGTGTGGC
10246729 ATATAAATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 2 0.04
42 50 0.93
43 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.37, T:0.18
Consensus pattern (41 bp):
GGCGTGTATCCAGGCCGTGTGGCCACACGGGCAAGGACACG
Found at i:10247233 original size:22 final size:22
Alignment explanation
Indices: 10247208--10247277 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
10247198 GAATAATTGC
10247208 ATATGGATA-TGATATGTTCTGT
1 ATATGGA-ACTGATATGTTCTGT
* * *
10247230 ATATGAAATTGAAATTGCTTCTGT
1 ATATGGAACTGATA-TG-TTCTGT
* *
10247254 ATATGTAACTGATCTGTTCTGT
1 ATATGGAACTGATATGTTCTGT
10247276 AT
1 AT
10247278 CTGAGCTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 18 0.46
23 4 0.10
24 16 0.41
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.44
Consensus pattern (22 bp):
ATATGGAACTGATATGTTCTGT
Found at i:10266932 original size:10 final size:10
Alignment explanation
Indices: 10266915--10266977 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
10266905 AAGATAACTT
10266915 TATTTTATTA
1 TATTTTATTA
* *
10266925 TGTTTTATCA
1 TATTTTATTA
10266935 TATTTTATT-
1 TATTTTATTA
10266944 TA-TTTATT-
1 TATTTTATTA
10266952 TATTATTATTA
1 TATT-TTATTA
* *
10266963 -GTTTTATCA
1 TATTTTATTA
10266972 TATTTT
1 TATTTT
10266978 TATCTTAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 8 0.19
9 8 0.19
10 26 0.62
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
TATTTTATTA
Found at i:10266980 original size:20 final size:20
Alignment explanation
Indices: 10266917--10266980 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
10266907 GATAACTTTA
10266917 TTTTATTATGTTTTATCATA-
1 TTTTATTA-GTTTTATCATAT
*
10266937 TTTTATT--TATTTAT-TTAT
1 TTTTATTAGT-TTTATCATAT
*
10266955 TATTATTAGTTTTATCATAT
1 TTTTATTAGTTTTATCATAT
10266975 TTTTAT
1 TTTTAT
10266981 CTTAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 3 0.09
18 11 0.31
19 5 0.14
20 16 0.46
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTATTAGTTTTATCATAT
Found at i:10269218 original size:24 final size:24
Alignment explanation
Indices: 10269186--10269231 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
10269176 CTTGATTCTT
10269186 AAAAATTT-AAAATTAATTTTTTA
1 AAAAATTTAAAAATTAATTTTTTA
*
10269209 AAAAATTTTAAAAATTTATTTTT
1 AAAAA-TTTAAAAATTAATTTTT
10269232 CAATTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AAAAATTTAAAAATTAATTTTTTA
Found at i:10269360 original size:20 final size:20
Alignment explanation
Indices: 10269337--10269385 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
10269327 ATTTATTTAT
*
10269337 TAAAATAATAATTTTATAAA
1 TAAAATAATAATCTTATAAA
10269357 TAAAATAATAATCTTATAAA
1 TAAAATAATAATCTTATAAA
*
10269377 CAAAATAAT
1 TAAAATAAT
10269386 TCAAGGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:10275561 original size:10 final size:10
Alignment explanation
Indices: 10275524--10275566 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
10275514 AATAAGGCGC
*
10275524 ATACATATAT
1 ATACACATAT
*
10275534 ATACACACAT
1 ATACACATAT
*
10275544 ACACACATAT
1 ATACACATAT
10275554 ATACACATAT
1 ATACACATAT
10275564 ATA
1 ATA
10275567 TTACATTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (10 bp):
ATACACATAT
Found at i:10278935 original size:20 final size:20
Alignment explanation
Indices: 10278910--10278950 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
10278900 TGGTTGTTTA
10278910 TAGTCATCATAAGTAGCAAG
1 TAGTCATCATAAGTAGCAAG
10278930 TAGTCATCATAAGTAGCAAG
1 TAGTCATCATAAGTAGCAAG
10278950 T
1 T
10278951 TGTACTGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (20 bp):
TAGTCATCATAAGTAGCAAG
Found at i:10285439 original size:26 final size:26
Alignment explanation
Indices: 10285392--10285444 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
10285382 TTAAAATTTT
* *
10285392 TTCGAATCGAGTCGAGTGGAATAGAA
1 TTCGAATCGAGTCGAATCGAATAGAA
* * *
10285418 TTCGATTCGATTCGAATCGAATTGAA
1 TTCGAATCGAGTCGAATCGAATAGAA
10285444 T
1 T
10285445 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (26 bp):
TTCGAATCGAGTCGAATCGAATAGAA
Found at i:10285610 original size:9 final size:9
Alignment explanation
Indices: 10285596--10285620 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10285586 AGTCCAAGTA
10285596 AACAACAAT
1 AACAACAAT
10285605 AACAACAAT
1 AACAACAAT
10285614 AACAACA
1 AACAACA
10285621 CAACAAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (9 bp):
AACAACAAT
Found at i:10288173 original size:70 final size:70
Alignment explanation
Indices: 10288060--10288200 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
10288050 AAGTAAACAA
10288060 AGAAATTTAACAATAGTAAAGTATTTAATCATGTCACGTATGAAAAGGTGAATCCTATCATCGAC
1 AGAAATTTAACAATAGTAAAGTATTTAATCATGTCACGTATGAAAAGGTGAATCCTATCATCGAC
10288125 CTTAG
66 CTTAG
10288130 AGAAATTTAACAATAGTAAAGTATTTAATCATGTCACGTATGAAAAGGTGAATCCTATCATCGAC
1 AGAAATTTAACAATAGTAAAGTATTTAATCATGTCACGTATGAAAAGGTGAATCCTATCATCGAC
10288195 CTTAG
66 CTTAG
10288200 A
1 A
10288201 AATCTTGATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (70 bp):
AGAAATTTAACAATAGTAAAGTATTTAATCATGTCACGTATGAAAAGGTGAATCCTATCATCGAC
CTTAG
Found at i:10290769 original size:22 final size:23
Alignment explanation
Indices: 10290744--10290789 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10290734 AGGGTATCTA
*
10290744 AAAATTAAATC-TCTAAGATTGC
1 AAAATCAAATCTTCTAAGATTGC
*
10290766 AAAATCATATCTTCTAAGATTGC
1 AAAATCAAATCTTCTAAGATTGC
10290789 A
1 A
10290790 TTTCATATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (23 bp):
AAAATCAAATCTTCTAAGATTGC
Found at i:10291649 original size:132 final size:132
Alignment explanation
Indices: 10291237--10291649 Score: 616
Period size: 131 Copynumber: 3.1 Consensus size: 132
10291227 AATTGGTAAT
* * *
10291237 TTCAACCTGCTCCACTG-TAACTTCAGGGAGATAAGG-TTGGTGGCTTAAATCTGCTTCTCTACT
1 TTCAACCTACTCCACTGCT-AC-TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACT
* * *
10291300 TCCTCGGGAAGATAAGACTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATATA
63 ACCTCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTA
10291365 CAATC
128 CAATC
* * * *
10291370 TTCAACCTACTCCACTACTGCTCAGGGAGATAGAACTGGTGGCTTAAATCTGCTTCCC-ACTATC
1 TTCAACCTACTCCACTGCTACTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
* * * *
10291434 TCGGGAAGATAAGATTCGCCGTCTTCGATCTGATCCACTATTGCTTAAGGAGACAGGATCTACAA
66 TCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
*
10291499 TT
131 TC
10291501 TTCAACCTACTCCACTGCTACTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACCTACTCCACTGCTACTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
* * *
10291566 TTGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTACTTAGGGAGACAGAATCTACAA
66 TCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
10291631 TC
131 TC
10291633 TTCAACCTACTCCACTG
1 TTCAACCTACTCCACTG
10291650 TAAACTCAGA
Statistics
Matches: 250, Mismatches: 27, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
131 121 0.48
132 112 0.45
133 16 0.06
134 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (132 bp):
TTCAACCTACTCCACTGCTACTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
TCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
TC
Found at i:10291832 original size:89 final size:89
Alignment explanation
Indices: 10291642--10291846 Score: 230
Period size: 89 Copynumber: 2.3 Consensus size: 89
10291632 CTTCAACCTA
* * * * * *
10291642 CTCCACTGTAAACTCAGAGAGGCAAGGCTGGTGTTTTCGATCTGCTTCACTGCTAGTACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCTAATACAAGAAG
* * * *
10291707 ACAAGATCTGCTGTTTTCAGTCTG
66 ACAAGATCTGCTATCTTCAATATG
*** * * * ** *
10291731 CTTTGCTACAAACTCAGGGGGGCAAGGTTGGTGTCTTCGATCTACTTCGTTGTTAATACAAGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCTAATACAAGAAG
*
10291796 ACAAGATCTGTTATCTTCAATATG
66 ACAAGATCTGCTATCTTCAATATG
10291820 CTCCACTGCAAACTCAGGGAGGCAAGG
1 CTCCACTGCAAACTCAGGGAGGCAAGG
10291847 ATTTGTAGCT
Statistics
Matches: 91, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (89 bp):
CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCTAATACAAGAAG
ACAAGATCTGCTATCTTCAATATG
Found at i:10291884 original size:45 final size:44
Alignment explanation
Indices: 10291810--10292396 Score: 278
Period size: 44 Copynumber: 13.1 Consensus size: 44
10291800 GATCTGTTAT
* * * **
10291810 CTTCAATATGCTCCACTGCAAAC-TCAGGGAGGCAAGGATTTGTAG
1 CTTCAATCTGCTCTACTGC-AACTTTAGGGAGATAA-GATTTGTAG
* * *
10291855 CTTCAATCTGTTCTACTGCAACTTTAGGGAGATAAGATTCGCTAT
1 CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTG-TAG
* * * *
10291900 CTTCAGTTTGCTCTACTGCAACTTCAGGGAGATAAGATTAT-TGG
1 CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATT-TGTAG
* * *
10291944 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG--C
1 CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAG
* * * * *
10291986 CAT-GATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGATTTATAG
1 CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGAT-T-TG-----TAG
* * * * * *
10292036 CTTTAATCTG-TTTCACTGCAA-TTTCAGGGAAATAAGAATCGCTAT
1 CTTCAATCTGCTCT-ACTGCAACTTT-AGGGAGATAAGATTTG-TAG
* * * * *
10292081 CTTCAGA-CTGCTCCACTACAACTTTAGAGAGATAAGACTTGTAA
1 CTTCA-ATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAG
* * * * *** * *
10292125 CTTTAATCTGCTCCACTGCAACCTCAAAAAGATAGGATTAT-TGG
1 CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATT-TGTAG
* * * * *
10292169 CTTTAATCTGCTCTACTACAACTTCAGGGAGATAAGATTTGCCAT
1 CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTG-TAG
* * * * * * **
10292214 CTTCAGTCTGCCCTACTGCAACTTCAGGGGGATAATACTTGTTTT
1 CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTG-TAG
* * * * * *
10292259 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAG
* * * * * *
10292303 CTTCAAT-TCGCTCCATTGCAACTTCAGAGAGATAGGATTAT-TGG
1 CTTCAATCT-GCTCTACTGCAACTTTAGGGAGATAAGATT-TGTAG
* * * * *
10292347 CTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCAG
1 CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTG-TAG
10292392 CTTCA
1 CTTCA
10292397 GTTTGTCCCA
Statistics
Matches: 415, Mismatches: 99, Indels: 56
0.73 0.17 0.10
Matches are distributed among these distances:
41 29 0.07
42 3 0.01
43 7 0.02
44 174 0.42
45 168 0.40
46 5 0.01
49 1 0.00
50 7 0.02
51 21 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
CTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAG
Found at i:10291973 original size:44 final size:43
Alignment explanation
Indices: 10291818--10292598 Score: 349
Period size: 45 Copynumber: 17.7 Consensus size: 43
10291808 ATCTTCAATA
** *
10291818 TGCTCCACTGCAAAC-TCAGGGAGGCAAGGATTTGTAGCTTCAATC
1 TGCTCCACTGC-AACTTCAGGGAGATAA-GATTT-TAGCTTTAATC
* * * * * * * *
10291863 TGTTCTACTGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT--TTAGCTTTAATC
* *
10291908 TGCTCTACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT-TTAGCTTTAATC
* ** *
10291952 TGCTCCACTGCAACTTTAGGGAGATAAGA-TTT-GCCATGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTTAGCTTTAATC
* * *
10291993 TGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGAT-A-A-----GATTT-TAGCTTTAATC
* * * * ** * *
10292044 TGTTTCACTGCAATTTCAGGGAAATAAGAATCGCTATCTTCAGA-C
1 TGCTCCACTGCAACTTCAGGGAGATAAG-AT-TTTAGCTTTA-ATC
* * * * *
10292089 TGCTCCACTACAACTTTAGAGAGATAAGACTTGTAACTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTTTAGCTTTAATC
* *** * *
10292133 TGCTCCACTGCAACCTCAAAAAGATAGGATTATTGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT-TTAGCTTTAATC
* * * * * *
10292177 TGCTCTACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTT--TAGCTTTAATC
* * ** * *
10292222 TGC-CCTACTGCAACTTCAGGGGGATAATACTTGTTTTCTTCAGTC
1 TGCTCC-ACTGCAACTTCAGGGAGATAAGA-TT-TTAGCTTTAATC
* * * *
10292267 TACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAT-
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTTTAGCTTTAATC
* * * *
10292310 TCGCTCCATTGCAACTTCAGAGAGATAGGATTATTGGCTTTAATC
1 T-GCTCCACTGCAACTTCAGGGAGATAAGATT-TTAGCTTTAATC
* * * * *
10292355 TGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCAGCTTCAGTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTT--TAGCTTTAATC
* * * * * *
10292400 TG-TCCCACTGCAACTTCAGGGGGATAATAGTTGCTT-TCTTCAGTA
1 TGCT-CCACTGCAACTTCAGGGAGATAAGA-TT--TTAGCTTTAATC
* ** * * * * *
10292445 TGCTTCACTATAACTTCAGGGGGATAAGACTTGCTT-TCTTCAGTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TT--TTAGCTTTAATC
10292490 TGCTCCACTGCAACTTCAGGGAGATAAG-----A-C--T--TC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTTAGCTTTAATC
* * * *
10292523 CGCTCCACTGCAACTTCAGGAAGATAGGATTATTGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT-TTAGCTTTAATC
*
10292567 TGCTCCACTACAACTTCAGGGAGATAAGATTT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTT
10292599 GCCATCTTCT
Statistics
Matches: 562, Mismatches: 127, Indels: 96
0.72 0.16 0.12
Matches are distributed among these distances:
33 26 0.05
37 1 0.00
40 1 0.00
41 27 0.05
42 4 0.01
43 11 0.02
44 202 0.36
45 249 0.44
46 8 0.01
47 1 0.00
48 3 0.01
49 3 0.01
50 2 0.00
51 24 0.04
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (43 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTTAGCTTTAATC
Found at i:10292293 original size:178 final size:178
Alignment explanation
Indices: 10292080--10292503 Score: 582
Period size: 178 Copynumber: 2.4 Consensus size: 178
10292070 AGAATCGCTA
* * * *
10292080 TCTTCAGACTGCTCCACTACAACTTTAGAGAGATAAGACTTGTAACTTTAA-TCTGCTCCACTGC
1 TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAATTC-GCTCCACTGC
*
10292144 AACCTCAAAAAGATAGGATTATTGGCTTTAATCTGCTCTACTACAACTTCAGGGAGATAAGATTT
65 AACCTCAAAAAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTT
* *
10292209 GCCATCTTCAGTCTG-CCCTACTGCAACTTCAGGGGGATAATACTTGTTT
130 GCCAGCTTCAGTCTGTCCC-ACTGCAACTTCAGGGGGATAATACTTGCTT
* * *
10292258 TCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATTCGCTCCATTGCA
1 TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAATTCGCTCCACTGCA
* * * * *
10292323 ACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTG
66 ACCTCAAAAAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG
* *
10292388 CCAGCTTCAGTTTGTCCCACTGCAACTTCAGGGGGATAATAGTTGCTT
131 CCAGCTTCAGTCTGTCCCACTGCAACTTCAGGGGGATAATACTTGCTT
* * * * ** * *
10292436 TCTTCAGTATGCTTCACTATAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTTTGCTCCACTGC
1 TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTG-TAACTTCAATTCGCTCCACTGC
10292501 AAC
65 AAC
10292504 TTCAGGGAGA
Statistics
Matches: 215, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
178 190 0.88
179 25 0.12
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (178 bp):
TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAATTCGCTCCACTGCA
ACCTCAAAAAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG
CCAGCTTCAGTCTGTCCCACTGCAACTTCAGGGGGATAATACTTGCTT
Found at i:10292441 original size:45 final size:45
Alignment explanation
Indices: 10291855--10292521 Score: 394
Period size: 45 Copynumber: 14.9 Consensus size: 45
10291845 GGATTTGTAG
* * * * *
10291855 CTTCAATCTGTTCTACTGCAACTTTAGGGAGATAAGA-TTCGCTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTT
* * * *
10291900 CTTCAGTTTGCTCTACTGCAACTTCAGGGAGATAAGA-TT-ATTGG
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTT-T
* * * *
10291944 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGC---
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTT
* * * * * *
10291986 CATGA-TCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGATTTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TG-CTT-T
* * * * * * * * *
10292034 AGCTTTAATCTGTTTCACTGCAATTTCAGGGAAATAAGAATCGCTAT
1 --CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTT
* * * * **
10292081 CTTCAGACTGCTCCACTACAACTTTAGAGAGATAAGACTTG-TAA
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTT
* * * *** * * *
10292125 CTTTAATCTGCTCCACTGCAACCTCAAAAAGATAGGA-TT-ATTGG
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTT-T
* * * * * **
10292169 CTTTAATCTGCTCTACTACAACTTCAGGGAGATAAGATTTGCCAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTT
* * *
10292214 CTTCAGTCTGC-CCTACTGCAACTTCAGGGGGATAATACTTGTTTT
1 CTTCAGTCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTTGCTTT
* **
10292259 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTG-TAA
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTT
* * * * * *
10292303 CTTCAAT-TCGCTCCATTGCAACTTCAGAGAGATAGGA-TT-ATTGG
1 CTTCAGTCT-GCTCCACTGCAACTTCAGGGAGATAAGACTTGCTT-T
* * * * ***
10292347 CTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCAG
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTT
* * * *
10292392 CTTCAGTTTG-TCCCACTGCAACTTCAGGGGGATAATAGTTGCTTT
1 CTTCAGTCTGCT-CCACTGCAACTTCAGGGAGATAAGACTTGCTTT
* * ** *
10292437 CTTCAGTATGCTTCACTATAACTTCAGGGGGATAAGACTTGCTTT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTT
*
10292482 CTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
10292522 CCGCTCCACT
Statistics
Matches: 477, Mismatches: 118, Indels: 54
0.73 0.18 0.08
Matches are distributed among these distances:
41 27 0.06
42 4 0.01
43 10 0.02
44 157 0.33
45 245 0.51
46 3 0.01
47 1 0.00
48 1 0.00
49 1 0.00
50 4 0.01
51 24 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTT
Found at i:10292953 original size:24 final size:24
Alignment explanation
Indices: 10292926--10293004 Score: 131
Period size: 24 Copynumber: 3.3 Consensus size: 24
10292916 AGATTGCCCA
*
10292926 CACTGTAATCTTTAAGGTTCAATC
1 CACTGTAATCTTCAAGGTTCAATC
*
10292950 CACTGTAATCTTCAAGGATCAATC
1 CACTGTAATCTTCAAGGTTCAATC
*
10292974 TACTGTAATCTTCAAGGTTCAATC
1 CACTGTAATCTTCAAGGTTCAATC
10292998 CACTGTA
1 CACTGTA
10293005 CTTTTGGGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (24 bp):
CACTGTAATCTTCAAGGTTCAATC
Found at i:10293950 original size:14 final size:14
Alignment explanation
Indices: 10293930--10293963 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
10293920 TTCTTTCTTC
10293930 TTTTTTTTTA-TTA
1 TTTTTTTTTATTTA
*
10293943 TTTATTTTTATTTA
1 TTTTTTTTTATTTA
10293957 TTTTTTT
1 TTTTTTT
10293964 GTCTTAAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTATTTA
Found at i:10299208 original size:16 final size:16
Alignment explanation
Indices: 10299186--10299223 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10299176 AAAACATCTT
10299186 AAAAATAAATAGTATA
1 AAAAATAAATAGTATA
* *
10299202 TAAAATAGATAGTATA
1 AAAAATAAATAGTATA
10299218 AAAAAT
1 AAAAAT
10299224 TTGCAATTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (16 bp):
AAAAATAAATAGTATA
Found at i:10299847 original size:23 final size:22
Alignment explanation
Indices: 10299804--10299861 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10299794 AAAGGGTATC
* *
10299804 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
10299825 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
10299848 TGCATATCATATCT
1 TACAAATCATATCT
10299862 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:10301643 original size:25 final size:26
Alignment explanation
Indices: 10301596--10301647 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
10301586 TAATTTTACC
* *
10301596 TATGACAATTTTACCTCTGGTAAAAT
1 TATGACAATTTTACCCCTAGTAAAAT
10301622 TATGACAA-TTTACCCCTAGTAAAAT
1 TATGACAATTTTACCCCTAGTAAAAT
10301647 T
1 T
10301648 TCAAGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (26 bp):
TATGACAATTTTACCCCTAGTAAAAT
Found at i:10301794 original size:6 final size:6
Alignment explanation
Indices: 10301780--10301814 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10301770 AATCCATGTT
* *
10301780 CATTAC CATTTC CATTTT CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
10301815 TGAGAAAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.20, C:0.29, G:0.00, T:0.51
Consensus pattern (6 bp):
CATTTC
Found at i:10301799 original size:18 final size:18
Alignment explanation
Indices: 10301772--10301815 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
10301762 TTTTGAGAAA
*
10301772 TCCATGTTCATTACCATT
1 TCCATTTTCATTACCATT
*
10301790 TCCATTTTCATTTCCATT
1 TCCATTTTCATTACCATT
10301808 TCCATTTT
1 TCCATTTT
10301816 GAGAAAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.18, C:0.27, G:0.02, T:0.52
Consensus pattern (18 bp):
TCCATTTTCATTACCATT
Found at i:10304092 original size:35 final size:35
Alignment explanation
Indices: 10304000--10304101 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 35
10303990 GCCAAAGAGT
* * * * *
10304000 TTGCGCCTAGCTCTAGTCGGATAAATCGACAAATG
1 TTGCGCCTAGCACTAGCCGGATAAATTGACGAAGG
* *
10304035 TGTGC-CC-AGCACTAGCCAGATAAATTGACGGAGG
1 T-TGCGCCTAGCACTAGCCGGATAAATTGACGAAGG
*
10304069 TTGCGCCTAGCGCTAGCCGGATAAATTGACGAA
1 TTGCGCCTAGCACTAGCCGGATAAATTGACGAA
10304102 TAATTAGTGA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
33 3 0.06
34 23 0.43
35 25 0.46
36 3 0.06
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (35 bp):
TTGCGCCTAGCACTAGCCGGATAAATTGACGAAGG
Found at i:10304148 original size:74 final size:74
Alignment explanation
Indices: 10304069--10304305 Score: 259
Period size: 74 Copynumber: 3.3 Consensus size: 74
10304059 TTGACGGAGG
* * **
10304069 TTGCGCCTAGCGCTAGCCGGATAAATTGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
1 TTGCGCCCAGCGCTAGTCGGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
10304134 CAACGATAT
66 CAACGATAT
* * * * * * * **
10304143 TTGCGCCTAGTGCTAGTTGGATAGACCGACG---AA-T-GTGTGCCCAACACTAGTCAGATAAAC
1 TTGCGCCCAGCGCTAGTCGGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
** * *
10304203 TGACGAAAG
66 CAACGATAT
* * *
10304212 TTGCGCCCAGCGCTAATCGAATAAACCGACGAATAATTAGTGAGCCCAGCTCTAATTGGATAAAC
1 TTGCGCCCAGCGCTAGTCGGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
10304277 CAACGATAT
66 CAACGATAT
10304286 TTGCGCCCAGCGCTAGTCGG
1 TTGCGCCCAGCGCTAGTCGG
10304306 GCGAATCAAC
Statistics
Matches: 125, Mismatches: 33, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
69 51 0.41
70 1 0.01
71 2 0.02
72 2 0.02
73 1 0.01
74 68 0.54
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (74 bp):
TTGCGCCCAGCGCTAGTCGGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
CAACGATAT
Found at i:10304240 original size:69 final size:69
Alignment explanation
Indices: 10304000--10304245 Score: 222
Period size: 69 Copynumber: 3.5 Consensus size: 69
10303990 GCCAAAGAGT
* * * * *
10304000 TTGCGCCTAGCTCTAGTCGGATAAATCGACAAATGTGTGCCCAGCACTAGCCAGATAAATTGACG
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTGACG
* *
10304065 GAGG
66 AAAG
* ** * * **
10304069 TTGCGCCTAGCGCTAGCCGGATAAATTGACGAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACG---AA-T-GTGTGCCCAGCACTAGTCAGATAAAC
** * *
10304134 CAACGATAT
61 TGACGAAAG
* * * *
10304143 TTGCGCCTAGTGCTAGTTGGATAGACCGACGAATGTGTGCCCAACACTAGTCAGATAAACTGACG
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTGACG
10304208 AAAG
66 AAAG
* * *
10304212 TTGCGCCCAGCGCTAATCGAATAAACCGACGAAT
1 TTGCGCCTAGCGCTAGTCGGATAAACCGACGAAT
10304246 AATTAGTGAG
Statistics
Matches: 135, Mismatches: 37, Indels: 10
0.74 0.20 0.05
Matches are distributed among these distances:
69 81 0.60
70 1 0.01
71 2 0.01
72 2 0.01
73 1 0.01
74 48 0.36
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (69 bp):
TTGCGCCTAGCGCTAGTCGGATAAACCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTGACG
AAAG
Found at i:10304257 original size:143 final size:143
Alignment explanation
Indices: 10303999--10304305 Score: 436
Period size: 143 Copynumber: 2.1 Consensus size: 143
10303989 CGCCAAAGAG
* * *
10303999 TTTGCGCCTAGCT-CTAGTCGGATAAATCGACAAATGTGTGCCCAGCACTAGCCAGATAAATTGA
1 TTTGCGCCTAG-TGCTAGTCGGATAAACCGACAAATGTGTGCCCAACACTAGCCAGATAAACTGA
* * * * * ** *
10304063 CGGAGGTTGCGCCTAGCGCTAGCCGGATAAATTGACGAATAATTAGTGAGCCCAGCTCTAGTTGG
65 CGAAAGTTGCGCCCAGCGCTAACCGAATAAACCGACGAATAATTAGTGAGCCCAGCTCTAATTGG
10304128 ATAAACCAACGATA
130 ATAAACCAACGATA
* * * *
10304142 TTTGCGCCTAGTGCTAGTTGGATAGACCGACGAATGTGTGCCCAACACTAGTCAGATAAACTGAC
1 TTTGCGCCTAGTGCTAGTCGGATAAACCGACAAATGTGTGCCCAACACTAGCCAGATAAACTGAC
*
10304207 GAAAGTTGCGCCCAGCGCTAATCGAATAAACCGACGAATAATTAGTGAGCCCAGCTCTAATTGGA
66 GAAAGTTGCGCCCAGCGCTAACCGAATAAACCGACGAATAATTAGTGAGCCCAGCTCTAATTGGA
10304272 TAAACCAACGATA
131 TAAACCAACGATA
* *
10304285 TTTGCGCCCAGCGCTAGTCGG
1 TTTGCGCCTAGTGCTAGTCGG
10304306 GCGAATCAAC
Statistics
Matches: 144, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
142 1 0.01
143 143 0.99
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (143 bp):
TTTGCGCCTAGTGCTAGTCGGATAAACCGACAAATGTGTGCCCAACACTAGCCAGATAAACTGAC
GAAAGTTGCGCCCAGCGCTAACCGAATAAACCGACGAATAATTAGTGAGCCCAGCTCTAATTGGA
TAAACCAACGATA
Found at i:10307118 original size:11 final size:11
Alignment explanation
Indices: 10307102--10307126 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10307092 AACATACTTA
10307102 ATTGGTACCAC
1 ATTGGTACCAC
10307113 ATTGGTACCAC
1 ATTGGTACCAC
10307124 ATT
1 ATT
10307127 TTATAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (11 bp):
ATTGGTACCAC
Found at i:10309418 original size:372 final size:371
Alignment explanation
Indices: 10308733--10309477 Score: 882
Period size: 372 Copynumber: 2.0 Consensus size: 371
10308723 AGCATTCTCA
* **
10308733 ATGTAACACCCCAAGTTTTGAGCCTAGAAGAAATAGGTTTTGAACAAGGGAGGAGTTAGGAGACT
1 ATGTAACACCCCAAGTTTTGAGCCTAGAAGAAATAGATTTTGAACAAGGGAACAGTTAGGAGACT
* * * *
10308798 GCACATAAATATTTAGTTGTGCAAGGAAGTGAGATAAATGAATGTCTGCTTCAATGGTTAAGTGA
66 ACACATAAATACTTAGTTGTGCAAGGAAGTGACATAAAGGAATGTCTGCTTCAATGGTTAAGTGA
* * *
10308863 TTTAGGAGTGTTTAGAAGTGTCTGAGAAGCCTAGGTTCAAGTCTTGGCTTCTGCAGAATTTTTAG
131 TTTAGGAGTGTTTAGAAGTGTCTGAGAAGCCTAGGTTCAAGCCTTGGCTTATGCAAAATTTTTAG
* * * ****
10308928 TTTTGCTCTTAAATGAATTTGGACACTGGCATATAGGCCTTATCAATAATAGTGGTTGTTTTATG
196 TTTTGCTATAAAATGAATTTGGACACTAGCATATAGGCCTTA-CAATAATAGTGGTTAAAATATG
* * *
10308993 ACAAAAAGAGCTTGTGGCCTAGTGGCAAGGTGGCGTGTTGTGTAACTGTGAGGTTTGAGGTTTAA
260 ACAAAAAGAACTTGTGGCCTAGTGGCAAGGTGGCGTGTTGTGTAACTGTGAGGTCTGAGGTTCAA
* *
10309058 GTCCTGGGTTGAGCAACAAATTATTTATTTTGCTGCTTGAGCTATGT
325 GTCCTGGGTTGAGCAACAAAGTATTTATTTTACTGCTTGAGCTATGT
* *
10309105 ATGTAACACCCCGAA-TTTTGGGCCTAGAAGAAATAGATTTTGAGCAAGGGAACAGTTAGGA-AC
1 ATGTAACACCCC-AAGTTTTGAGCCTAGAAGAAATAGATTTTGAACAAGGGAACAGTTAGGAGAC
* *
10309168 TACACATAAATACTTAGTTGT-CAAAGGAAGTGACATAAAGGAATGTTTGCTTCAGTGGTTAAGT
65 TACACATAAATACTTAGTTGTGC-AAGGAAGTGACATAAAGGAATGTCTGCTTCAATGGTTAAGT
* * * *
10309232 GATTTAGGAGTGTTTGGAGGTGTCTGAGAAGTC-AGGGGTTTAAGCCTTGGCTTATGCAAAATTT
129 GATTTAGGAGTGTTTAGAAGTGTCTGAGAAGCCTA--GGTTCAAGCCTTGGCTTATGCAAAATTT
* * * * **
10309296 TTA-TTTTAAG-TGAATAAAAT-CA-TTGGA-TCTAG-ATAGTAGGTTCTTA-AATTATTTTGGT
192 TTAGTTTT--GCT--ATAAAATGAATTTGGACACTAGCATA-TAGG-CCTTACAATAATAGTGGT
* * *
10309354 TAAAATATGACACAAAAATAACTTGTGGTCTAGTGGCAAGGTGGCGTGTTGTGTAATTGTGAGGT
251 TAAAATATG--ACAAAAAGAACTTGTGGCCTAGTGGCAAGGTGGCGTGTTGTGTAACTGTGAGGT
* ** * ** *
10309419 CTGGGGTTCAAGTTTTGGGTTGCGCAATGAAGTATTTATTTTACTGCTTGAGCTGTGT
314 CTGAGGTTCAAGTCCTGGGTTGAGCAACAAAGTATTTATTTTACTGCTTGAGCTATGT
10309477 A
1 A
10309478 GGTAGTGGAG
Statistics
Matches: 315, Mismatches: 46, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
370 19 0.06
371 99 0.31
372 188 0.60
373 4 0.01
374 5 0.02
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (371 bp):
ATGTAACACCCCAAGTTTTGAGCCTAGAAGAAATAGATTTTGAACAAGGGAACAGTTAGGAGACT
ACACATAAATACTTAGTTGTGCAAGGAAGTGACATAAAGGAATGTCTGCTTCAATGGTTAAGTGA
TTTAGGAGTGTTTAGAAGTGTCTGAGAAGCCTAGGTTCAAGCCTTGGCTTATGCAAAATTTTTAG
TTTTGCTATAAAATGAATTTGGACACTAGCATATAGGCCTTACAATAATAGTGGTTAAAATATGA
CAAAAAGAACTTGTGGCCTAGTGGCAAGGTGGCGTGTTGTGTAACTGTGAGGTCTGAGGTTCAAG
TCCTGGGTTGAGCAACAAAGTATTTATTTTACTGCTTGAGCTATGT
Done.