Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 437 of 438
Found at i:134906908 original size:35 final size:35
Alignment explanation
Indices: 134906744--134906910 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
134906734 TCCTCATTGA
*** *
134906744 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
134906779 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
134906819 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
134906854 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
134906889 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
134906911 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:134914305 original size:35 final size:35
Alignment explanation
Indices: 134914238--134914405 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
134914228 TCCTCATTGA
*** *
134914238 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
134914274 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
134914314 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
134914349 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
134914384 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
134914406 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:134914364 original size:75 final size:73
Alignment explanation
Indices: 134914233--134914405 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
134914223 GGTTTTCCTC
*** * * **
134914233 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
134914298 TCAGTATGG
65 TCAGTATGG
*
134914307 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
134914371 ACTCAGTATGG
63 ACTCAGTATGG
134914382 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
134914406 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:134917719 original size:41 final size:41
Alignment explanation
Indices: 134917674--134917758 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
134917664 TGACACATAG
134917674 TGGCTATTCAATAATTATTTTAGTGGTAAATTACTATTTGT
1 TGGCTATTCAATAATTATTTTAGTGGTAAATTACTATTTGT
*
134917715 TGGCTATTCAATTATTATTTTAGTGGTAAATTACTATTTGT
1 TGGCTATTCAATAATTATTTTAGTGGTAAATTACTATTTGT
134917756 TGG
1 TGG
134917759 ACACATTTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.49
Consensus pattern (41 bp):
TGGCTATTCAATAATTATTTTAGTGGTAAATTACTATTTGT
Found at i:134917746 original size:19 final size:19
Alignment explanation
Indices: 134917689--134917753 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
134917679 ATTCAATAAT
134917689 TATTTTAGTGGTAAATTAC
1 TATTTTAGTGGTAAATTAC
*
134917708 TA-TTT-GTTGGCTATTCAATTAT
1 TATTTTAG-TGG-TA---AATTAC
134917730 TATTTTAGTGGTAAATTAC
1 TATTTTAGTGGTAAATTAC
134917749 TATTT
1 TATTT
134917754 GTTGGACACA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
17 1 0.03
18 6 0.16
19 14 0.38
22 9 0.24
23 6 0.16
24 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (19 bp):
TATTTTAGTGGTAAATTAC
Found at i:134917752 original size:22 final size:22
Alignment explanation
Indices: 134917687--134917752 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
134917677 CTATTCAATA
134917687 ATTATTTTAGTGGTAAATTACT
1 ATTATTTTAGTGGTAAATTACT
* * *
134917709 ATT-TGTT-G-GCT--ATTCAATT
1 ATTATTTTAGTGGTAAATT--ACT
134917728 ATTATTTTAGTGGTAAATTACT
1 ATTATTTTAGTGGTAAATTACT
134917750 ATT
1 ATT
134917753 TGTTGGACAC
Statistics
Matches: 31, Mismatches: 6, Indels: 14
0.61 0.12 0.27
Matches are distributed among these distances:
17 3 0.10
19 7 0.23
20 4 0.13
21 4 0.13
22 10 0.32
24 3 0.10
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.52
Consensus pattern (22 bp):
ATTATTTTAGTGGTAAATTACT
Found at i:134917795 original size:103 final size:103
Alignment explanation
Indices: 134917613--134917816 Score: 293
Period size: 103 Copynumber: 2.0 Consensus size: 103
134917603 ACATGTGGGC
* *
134917613 GGCTATCCAATAATTATTTTTTGTGGTAACTTACTATTTGTTGGACACACTTGACACATAGTGGC
1 GGCTATCCAATAATTATTTTTAGTGGTAAATTACTATTTGTTGGACACACTTGACACATAGTGGC
*
134917678 TATTCAATAATTATTTTAGTGGTAAATTACTATTTGTT
66 TATTCAATAATTATTATAGTGGTAAATTACTATTTGTT
* * * * *
134917716 GGCTATTCAATTATTA-TTTTAGTGGTAAATTACTATTTGTTGGACACATTTGACACGTGGGTGG
1 GGCTATCCAATAATTATTTTTAGTGGTAAATTACTATTTGTTGGACACACTTGACACAT-AGTGG
* * *
134917780 CTATTCAATAGTTATTATAGTGGTAACTTACTTTTTG
65 CTATTCAATAATTATTATAGTGGTAAATTACTATTTG
134917817 CGCTTAAATT
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 38 0.43
103 51 0.57
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.44
Consensus pattern (103 bp):
GGCTATCCAATAATTATTTTTAGTGGTAAATTACTATTTGTTGGACACACTTGACACATAGTGGC
TATTCAATAATTATTATAGTGGTAAATTACTATTTGTT
Found at i:134927689 original size:62 final size:62
Alignment explanation
Indices: 134927592--134927709 Score: 209
Period size: 62 Copynumber: 1.9 Consensus size: 62
134927582 AAAGTGGGAC
**
134927592 ACATTTGACACGTGGGCGGCTATTCAATAATTATTTTAGTGCTAAATTACTATTTGTTGGAA
1 ACATTTGACACGTGGGCGGAAATTCAATAATTATTTTAGTGCTAAATTACTATTTGTTGGAA
*
134927654 ACATTTGACACGTGGGTGGAAATTCAATAATTATTTTAGTGCTAAATTACTATTTG
1 ACATTTGACACGTGGGCGGAAATTCAATAATTATTTTAGTGCTAAATTACTATTTG
134927710 GGCTTCAACT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.39
Consensus pattern (62 bp):
ACATTTGACACGTGGGCGGAAATTCAATAATTATTTTAGTGCTAAATTACTATTTGTTGGAA
Found at i:134927922 original size:31 final size:31
Alignment explanation
Indices: 134927854--134927922 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
134927844 AGTTAATTAT
* * *
134927854 TAAACTTGATTATTGTTTTTATATTAAGGTC
1 TAAACTTGATAATTGTTTATATATTAAGGCC
* *
134927885 TGAACTTGATAATTGTTTATATATTAGGGCC
1 TAAACTTGATAATTGTTTATATATTAAGGCC
134927916 TAAACTT
1 TAAACTT
134927923 TAAAGCTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TAAACTTGATAATTGTTTATATATTAAGGCC
Found at i:134938804 original size:18 final size:20
Alignment explanation
Indices: 134938785--134938821 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
134938775 AATAAAATTA
134938785 TTATTTTC-ATTAAAAATAT
1 TTATTTTCTATTAAAAATAT
*
134938804 TTTTTTTCTATTAAAAAT
1 TTATTTTCTATTAAAAAT
134938822 TGATGTGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTTTCTATTAAAAATAT
Found at i:134942000 original size:6 final size:6
Alignment explanation
Indices: 134941989--134942019 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
134941979 TAGAAAAGTG
134941989 AGTCAC AGTCAC AGTCAC AGTCAC AGTCAC A
1 AGTCAC AGTCAC AGTCAC AGTCAC AGTCAC A
134942020 ACAATCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.16
Consensus pattern (6 bp):
AGTCAC
Found at i:134950845 original size:264 final size:263
Alignment explanation
Indices: 134950363--134950864 Score: 710
Period size: 264 Copynumber: 1.9 Consensus size: 263
134950353 CGGGGAAGAT
* * * *
134950363 TGTCATATTTCAAATTTTGTGCTTGTTTCAAGCCCAAATAGACCATTATAGTTACTTTTAACATA
1 TGTCAGATTTCAAATATTATGCTTGTTTCAAGCCCAAATAGACCATCATAGTTACTTTTAACATA
* *
134950428 TGAAAAAATAGATCAATGATCATCCTTCAACATATGACATAATACTATATGTCCAGAAAGGCCCC
66 TGAAAAAATAGATCAAAGATCATCCTTCAACATATGACATAATACTATATGTCCAGAAAGGCCAC
*
134950493 TGAAGCCTTGTAAATCAATGCCTGGTCTTTATGGATACTGGTTTTCTAACATTATGCCCCTCTCC
131 TGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGATACTGGTTTTCTAACATTATGCCCCTCTCC
*
134950558 ACAATTGCAACTTACTGATATGTTATGTTTTTTCTGCCAAAACATATATAATACATAAGTGGAAC
196 ACAATTGCAACTTACTGATATGTTATG-TTTTTCTACCAAAACATATATAATACATAAGTGGAAC
134950623 TTAG
260 TTAG
*
134950627 TGTCAGATTTCAAATATTATGCTTGTTTCAAGTCCAAATAGACCATCATAGTTACTTTTAACATA
1 TGTCAGATTTCAAATATTATGCTTGTTTCAAGCCCAAATAGACCATCATAGTTACTTTTAACATA
* * *
134950692 TGAAAAGAA-AGATCAAAGATCATCCTTCAACATATGACATTAATACTATATGTCTA-CAA-TCC
66 TGAAAA-AATAGATCAAAGATCATCCTTCAACATATGACA-TAATACTATATGTCCAGAAAGGCC
* * ***
134950754 ACTGAAGCCTTTTAAACCAAT-CCTTGTCTTTATGGATTACTGGTTTTCTAACATTAATGTTTGC
129 ACTGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGA-TACTGGTTTTCTAACATT-ATG-CCCC
* * * *
134950818 -CTCCATAATTGCAAC-TCCGTTATATGTTCTGTTTTTCTACCAAAACA
191 TCTCCACAATTGCAACTTAC-TGATATGTTATGTTTTTCTACCAAAACA
134950865 GGAAATTTAG
Statistics
Matches: 211, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
262 14 0.07
263 55 0.26
264 124 0.59
265 18 0.09
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (263 bp):
TGTCAGATTTCAAATATTATGCTTGTTTCAAGCCCAAATAGACCATCATAGTTACTTTTAACATA
TGAAAAAATAGATCAAAGATCATCCTTCAACATATGACATAATACTATATGTCCAGAAAGGCCAC
TGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGATACTGGTTTTCTAACATTATGCCCCTCTCC
ACAATTGCAACTTACTGATATGTTATGTTTTTCTACCAAAACATATATAATACATAAGTGGAACT
TAG
Found at i:134954478 original size:16 final size:18
Alignment explanation
Indices: 134954459--134954498 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
134954449 ATTTTTTTGA
*
134954459 ATTTA-AATTTTTTAA-T
1 ATTTATAATTTTTAAATT
134954475 ATTTATAATTTTTAAATT
1 ATTTATAATTTTTAAATT
134954493 ATTTAT
1 ATTTAT
134954499 TGATGTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATAATTTTTAAATT
Found at i:134963762 original size:188 final size:190
Alignment explanation
Indices: 134963433--134963785 Score: 516
Period size: 188 Copynumber: 1.9 Consensus size: 190
134963423 TCCCGAACCG
* * ** *
134963433 TGGAACTGGAATGTGTATTTGTTTCCTCTTTGGTGGTGTGGTGTGGTAATCCGATACTTGATTTT
1 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGGTGTGGTGTGGTAACCCGATACTTGATTTT
*
134963498 ATTCCCTGTGAGGTTAGCTATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
66 ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
*
134963563 TAATGTTTGAATGAAAGTTTTACTTTATGTTAGTTTTTGAGGTTAGTTAGGTATTGTATTA
131 TAATCTTTGAATGAAAG-TTTACTTTATGTTAGTTTTTGAGGTTAGTTAGGTATTGTATTA
**
134963624 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGT-GT-T-GTGTGGTAACCCTTTACTTGATTTT
1 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGGTGTGGTGTGGTAACCCGATACTTGATTTT
* * * * *
134963686 ATTCCCTGTGAGGTTAGCCATTGAACTTTTC-ATAAGTAACATTGCATTTTTTTATGCATGTTGG
66 ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGA-AAGTAACATTGAATTGTTTGATGCATGATGG
* *
134963750 TTCATCTTTGAATGAAAGTTTACTTTATGTTTGTTT
130 TTAATCTTTGAATGAAAGTTTACTTTATGTTAGTTT
134963786 CAAGGTTAAT
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
187 18 0.12
188 94 0.65
189 1 0.01
190 2 0.01
191 30 0.21
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.45
Consensus pattern (190 bp):
TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGGTGTGGTGTGGTAACCCGATACTTGATTTT
ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
TAATCTTTGAATGAAAGTTTACTTTATGTTAGTTTTTGAGGTTAGTTAGGTATTGTATTA
Found at i:134963892 original size:158 final size:158
Alignment explanation
Indices: 134963661--134963974 Score: 443
Period size: 158 Copynumber: 2.0 Consensus size: 158
134963651 CTCCGGTGTT
** * * *
134963661 GTGTGGTAACCCTTTACTTGATTTTATTCCCTGTGAGGTTAGCCATTGAACTTTTCATAAGTAAC
1 GTGTGGTAACCCGGTACTTGATTTTATTCCCTGTGAGGTCAGCCATTGAACTTCTCAAAAGTAAC
* * **
134963726 ATTGCATTTTTTTATGCATGTTGGTTCATCTTTGAATGAAAGTTTACTTTATGTTTGTTTCA-AG
66 ATTGCATTTTTTAATGCATGATGGTTCATCTTTGAATG-AAGTTTACTTTATGTTCATTTCAGAG
*
134963790 GTTAATTAGGTAGTGTCTCATA-GTTGTG
130 GTTAATTAGGTAGTGTATCATATGTTGTG
* *
134963818 GTGTGGTAATCCGGTACTTGATTTTATTCTCTGTGAGGGTCAGCCATTGAACTTCTCAAAAGTAA
1 GTGTGGTAACCCGGTACTTGATTTTATTCCCTGTGA-GGTCAGCCATTGAACTTCTCAAAAGTAA
* * * *
134963883 CATTTCATTTTTTAATGCATGATGTTTCATGTTTGAATGAAGTTTACTTTATGTTCATTTTAGAG
65 CATTGCATTTTTTAATGCATGATGGTTCATCTTTGAATGAAGTTTACTTTATGTTCATTTCAGAG
*
134963948 GTTAGTTAGGTAGTGTATCATATGTTG
130 GTTAATTAGGTAGTGTATCATATGTTG
134963975 AAATACTCAT
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
157 52 0.38
158 81 0.59
159 4 0.03
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.44
Consensus pattern (158 bp):
GTGTGGTAACCCGGTACTTGATTTTATTCCCTGTGAGGTCAGCCATTGAACTTCTCAAAAGTAAC
ATTGCATTTTTTAATGCATGATGGTTCATCTTTGAATGAAGTTTACTTTATGTTCATTTCAGAGG
TTAATTAGGTAGTGTATCATATGTTGTG
Found at i:134970676 original size:31 final size:31
Alignment explanation
Indices: 134970618--134970701 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
134970608 AAGTTGTGGA
*
134970618 TTTAGTCTTTGTAC-TTT-AATTTGGTCAAT
1 TTTAGTCTTTGTACTTTTCAAATTGGTCAAT
*
134970647 TTTAATCTTTGTACTTTTCAAATTGGTCAAT
1 TTTAGTCTTTGTACTTTTCAAATTGGTCAAT
*
134970678 TTTAGTCATTGTACTTTTCAAATT
1 TTTAGTCTTTGTACTTTTCAAATT
134970702 CGTTTAGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.27
30 3 0.06
31 33 0.67
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.54
Consensus pattern (31 bp):
TTTAGTCTTTGTACTTTTCAAATTGGTCAAT
Found at i:134976031 original size:15 final size:16
Alignment explanation
Indices: 134976011--134976043 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
134976001 CTTTCTTTGT
134976011 TCTTTTTTT-CTTC-A
1 TCTTTTTTTGCTTCTA
134976025 TCTTTTTTTGCTTCTA
1 TCTTTTTTTGCTTCTA
134976041 TCT
1 TCT
134976044 GGTTTCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 4 0.24
16 4 0.24
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.70
Consensus pattern (16 bp):
TCTTTTTTTGCTTCTA
Found at i:134976395 original size:13 final size:13
Alignment explanation
Indices: 134976377--134976403 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
134976367 AAATTATGCG
134976377 CGGAATCTGTTAA
1 CGGAATCTGTTAA
134976390 CGGAATCTGTTAA
1 CGGAATCTGTTAA
134976403 C
1 C
134976404 TGAACTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (13 bp):
CGGAATCTGTTAA
Found at i:134979426 original size:9 final size:9
Alignment explanation
Indices: 134979412--134979500 Score: 124
Period size: 9 Copynumber: 9.6 Consensus size: 9
134979402 ATAAGTATAA
134979412 AATTAACCG
1 AATTAACCG
*
134979421 AATTAATCG
1 AATTAACCG
134979430 AATTAACCG
1 AATTAACCG
134979439 AATTAACCG
1 AATTAACCG
*
134979448 AATTAATCG
1 AATTAACCG
134979457 AATTAACCG
1 AATTAACCG
134979466 AATTAACCGCCG
1 AATTAA---CCG
*
134979478 AATTACCCG
1 AATTAACCG
134979487 AATTAACCG
1 AATTAACCG
134979496 AATTA
1 AATTA
134979501 TTTGTATAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
9 63 0.89
12 8 0.11
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:134979537 original size:14 final size:14
Alignment explanation
Indices: 134979512--134979558 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
134979502 TTGTATAAAA
134979512 TTATATTTTTTATATT
1 TTATA-TTTTTAT-TT
134979528 TT-TATTTTTATTT
1 TTATATTTTTATTT
*
134979541 TTACATTTTTATTT
1 TTATATTTTTATTT
134979555 TTAT
1 TTAT
134979559 TTATTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 4 0.14
14 20 0.71
15 2 0.07
16 2 0.07
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATATTTTTATTT
Found at i:134979541 original size:5 final size:6
Alignment explanation
Indices: 134979519--134979560 Score: 57
Period size: 6 Copynumber: 6.5 Consensus size: 6
134979509 AAATTATATT
134979519 TTTTATA TTTTTA TTTTTA TTTTTACA TTTTTA TTTTTA TTT
1 TTTT-TA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
134979561 ATTACATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 23 0.70
7 4 0.12
8 6 0.18
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:134979543 original size:20 final size:20
Alignment explanation
Indices: 134979518--134979568 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
134979508 AAAATTATAT
*
134979518 TTTTTATATTTTTATTTTTA
1 TTTTTACATTTTTATTTTTA
134979538 TTTTTACATTTTTATTTTTA
1 TTTTTACATTTTTATTTTTA
134979558 TTTATTACATT
1 TTT-TTACATT
134979569 ATTTGTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTACATTTTTATTTTTA
Found at i:134981281 original size:53 final size:54
Alignment explanation
Indices: 134981220--134981332 Score: 203
Period size: 54 Copynumber: 2.1 Consensus size: 54
134981210 TAGAAAAAAA
*
134981220 AAAT-TTCTTTATGA-TTTTTTTGGGTTTATTTTTTAATCTTTGGTATTTAGAG
1 AAATATTCTTGATGATTTTTTTTGGGTTTATTTTTTAATCTTTGGTATTTAGAG
134981272 AAATATTCTTGATGATTTTTTTTGGGTTTATTTTTTAATCTTTGGTATTTAGAG
1 AAATATTCTTGATGATTTTTTTTGGGTTTATTTTTTAATCTTTGGTATTTAGAG
134981326 AAATATT
1 AAATATT
134981333 GAAAAAGGTG
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 4 0.07
53 9 0.16
54 45 0.78
ACGTcount: A:0.24, C:0.04, G:0.15, T:0.58
Consensus pattern (54 bp):
AAATATTCTTGATGATTTTTTTTGGGTTTATTTTTTAATCTTTGGTATTTAGAG
Found at i:134984601 original size:7 final size:7
Alignment explanation
Indices: 134984589--134984618 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
134984579 CATGTTATTT
134984589 TTTTGAA
1 TTTTGAA
134984596 TTTTGAA
1 TTTTGAA
134984603 TTTTGAA
1 TTTTGAA
134984610 TTTTTGAA
1 -TTTTGAA
134984618 T
1 T
134984619 ATTTATCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (7 bp):
TTTTGAA
Found at i:134984608 original size:14 final size:15
Alignment explanation
Indices: 134984589--134984618 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
134984579 CATGTTATTT
134984589 TTTTGAA-TTTTGAA
1 TTTTGAATTTTTGAA
134984603 TTTTGAATTTTTGAA
1 TTTTGAATTTTTGAA
134984618 T
1 T
134984619 ATTTATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTTGAATTTTTGAA
Found at i:134987368 original size:16 final size:16
Alignment explanation
Indices: 134987349--134987383 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
134987339 TTTATCTTTG
*
134987349 ATTGATATAATCTTCA
1 ATTGAAATAATCTTCA
134987365 ATTGAAATAATCTTCA
1 ATTGAAATAATCTTCA
134987381 ATT
1 ATT
134987384 CTGAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTGAAATAATCTTCA
Found at i:134994815 original size:2 final size:2
Alignment explanation
Indices: 134994808--134994852 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
134994798 ATGACTTAAA
134994808 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
134994850 AT A
1 AT A
134994853 ACATTAAGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:134999178 original size:46 final size:46
Alignment explanation
Indices: 134999111--134999292 Score: 235
Period size: 46 Copynumber: 4.0 Consensus size: 46
134999101 AGTGTGCTCT
*
134999111 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
134999157 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
134999203 GTGATATGAAATGA-ACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
134999249 ATGACA-GAAA-ATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATGAAATAT--GTAAGACCATGGTTGAAAGATACCATGGCA
134999293 TCATGTCAAA
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.01
45 4 0.03
46 115 0.95
47 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:135001706 original size:2 final size:2
Alignment explanation
Indices: 135001699--135001725 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
135001689 CAAATAATTC
135001699 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 A
135001726 CACCTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:135005057 original size:106 final size:106
Alignment explanation
Indices: 135004872--135005245 Score: 412
Period size: 106 Copynumber: 3.5 Consensus size: 106
135004862 CGTTTACCAT
*
135004872 ATGAGACATTGTAACATTGTAGTATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
* * *
135004937 AAAAGTTCTCGAACCCAACCGAAGCAATCGGAATGAACATC
66 AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACATC
* * * *
135004978 ATGAGACATTGTAACATTGTAGTATGCACTTTGCATATTGAATTTTAGGGCATGTTTTTATTGAT
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
* * ** *
135005043 AGAAGTCCTGGAACCGAAAGGAAACAATCGGAATAAAC-TGC
66 AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACAT-C
** * * * * * * * * *
135005084 ATGATTCATCGTAACATCGAAGCATGCACTCTGCATATTG-A-TTTGGGATATCTTTTCATCCAC
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
* * * *
135005147 AAAAGTCCTCGAACGGAACCGAAACAATAGTAAAGAACATC
66 AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACATC
* * ** * *
135005188 ATGAGTCATAGTAACATTACAGCCTGCAATCTGCATATTGAATTTTAGGACATGTTTT
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTT
135005246 GGATTCTGTA
Statistics
Matches: 219, Mismatches: 45, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
104 77 0.35
105 4 0.02
106 138 0.63
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (106 bp):
ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACATC
Found at i:135008372 original size:31 final size:31
Alignment explanation
Indices: 135008337--135008404 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
135008327 TTTAACAATC
135008337 TAGTGATTTAAATAAAAACATCCAAATAGTT
1 TAGTGATTTAAATAAAAACATCCAAATAGTT
* * * **
135008368 TAGTG-CTTAAATGAAAACTTTTAAATAGTT
1 TAGTGATTTAAATAAAAACATCCAAATAGTT
135008398 TAGTGAT
1 TAGTGAT
135008405 AGTTTTATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (31 bp):
TAGTGATTTAAATAAAAACATCCAAATAGTT
Found at i:135015278 original size:31 final size:31
Alignment explanation
Indices: 135015238--135015320 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 31
135015228 ATAAATATCA
*
135015238 AATTT-ATACATAAACTTTGATCTAATTTAC
1 AATTTGATACATGAACTTTGATCTAATTTAC
**
135015268 AATTTGATACATGAACTTTGATCTAATTTGT
1 AATTTGATACATGAACTTTGATCTAATTTAC
*
135015299 AATTTGACACATGAACTTTGAT
1 AATTTGATACATGAACTTTGAT
135015321 TTGGTACAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (31 bp):
AATTTGATACATGAACTTTGATCTAATTTAC
Found at i:135021917 original size:15 final size:17
Alignment explanation
Indices: 135021880--135021923 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
135021870 AATTTAGAAC
135021880 TTACATTTTAGT-TTGA
1 TTACATTTTAGTCTTGA
135021896 TTA-ATTTTAGTCTT-A
1 TTACATTTTAGTCTTGA
135021911 -TACATTTTGAGTC
1 TTACATTTT-AGTC
135021924 GGTCAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.08
15 14 0.56
16 9 0.36
ACGTcount: A:0.25, C:0.09, G:0.11, T:0.55
Consensus pattern (17 bp):
TTACATTTTAGTCTTGA
Found at i:135036546 original size:16 final size:16
Alignment explanation
Indices: 135036525--135036557 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
135036515 GTGTTACATG
135036525 TCTCTCGTATAAAAAT
1 TCTCTCGTATAAAAAT
135036541 TCTCTCGTATAAAAAT
1 TCTCTCGTATAAAAAT
135036557 T
1 T
135036558 AATTTTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (16 bp):
TCTCTCGTATAAAAAT
Found at i:135039532 original size:2 final size:2
Alignment explanation
Indices: 135039525--135039553 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
135039515 TTCCTATTTT
135039525 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
135039554 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:135041279 original size:46 final size:44
Alignment explanation
Indices: 135041220--135041334 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
135041210 ACAGGACAGA
* *
135041220 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
135041266 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
135041310 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
135041335 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:135041315 original size:44 final size:45
Alignment explanation
Indices: 135041220--135041353 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
135041210 ACAGGACAGA
* *
135041220 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
135041266 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
135041310 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
135041354 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:135043411 original size:29 final size:30
Alignment explanation
Indices: 135043368--135043444 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
135043358 TAATCGAAGT
* *
135043368 AAAATTTCATGTATAA-AATTATACA-AAATC
1 AAAA-TTCATATATAATAA-TACACATAAATC
*
135043398 AAAATTCATATATAATAATACACATTATATC
1 AAAATTCATATATAATAATACACA-TAAATC
*
135043429 AAAGTTCATATATAAT
1 AAAATTCATATATAAT
135043445 GTTGATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 15 0.38
30 6 0.15
31 19 0.47
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTCATATATAATAATACACATAAATC
Found at i:135044162 original size:23 final size:23
Alignment explanation
Indices: 135044127--135044172 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
135044117 TTTTAAATTA
* *
135044127 TTTTAAATTAAATTTAATAAAAT
1 TTTTAAATAAAATTCAATAAAAT
* *
135044150 TTTTAAGTAAAATTCAATCAAAT
1 TTTTAAATAAAATTCAATAAAAT
135044173 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTTAAATAAAATTCAATAAAAT
Found at i:135072228 original size:25 final size:25
Alignment explanation
Indices: 135072200--135072247 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
135072190 ATACACGCCA
*
135072200 GTTTTTAACTATACAAATAGATGGC
1 GTTTTTAAATATACAAATAGATGGC
*
135072225 GTTTTTAAATATACAAATGGATG
1 GTTTTTAAATATACAAATAGATG
135072248 AAAGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (25 bp):
GTTTTTAAATATACAAATAGATGGC
Found at i:135072254 original size:26 final size:25
Alignment explanation
Indices: 135072199--135072255 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
135072189 CATACACGCC
* *
135072199 AGTTTTTAACTATACAAATAGATGG
1 AGTTTTTAAATATACAAATAGATGA
* *
135072224 CGTTTTTAAATATACAAATGGATGAA
1 AGTTTTTAAATATACAAATAGATG-A
135072250 AGTTTT
1 AGTTTT
135072256 AACAGAAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (25 bp):
AGTTTTTAAATATACAAATAGATGA
Found at i:135074844 original size:13 final size:13
Alignment explanation
Indices: 135074826--135074855 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
135074816 ATAAAAGGAA
*
135074826 AAATTTAGATACC
1 AAATTTAAATACC
135074839 AAATTTAAATACC
1 AAATTTAAATACC
135074852 AAAT
1 AAAT
135074856 GATATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.30
Consensus pattern (13 bp):
AAATTTAAATACC
Found at i:135078330 original size:2 final size:2
Alignment explanation
Indices: 135078323--135078351 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
135078313 TTATTCATAC
135078323 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 A
135078352 AAGATTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:135091744 original size:4 final size:4
Alignment explanation
Indices: 135091737--135091776 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
135091727 CAGTCAGTCA
* * *
135091737 GTAT GTAT GTAT GTAT GTAT ATAT GCAT GTAC GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
135091777 TACCTTGTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (4 bp):
GTAT
Found at i:135095975 original size:15 final size:15
Alignment explanation
Indices: 135095957--135096000 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
135095947 CATCAAAATA
*
135095957 ATCATCATCATCTCC
1 ATCATCATCACCTCC
135095972 ATCATCATCACCTCC
1 ATCATCATCACCTCC
135095987 ATC-TC--CACCTCC
1 ATCATCATCACCTCC
135095999 AT
1 AT
135096001 GATTAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.32
14 2 0.07
15 17 0.61
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (15 bp):
ATCATCATCACCTCC
Found at i:135098556 original size:21 final size:21
Alignment explanation
Indices: 135098532--135098573 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
135098522 CCATTTAAAA
135098532 AACTGCAATTTCACTAAATTT
1 AACTGCAATTTCACTAAATTT
135098553 AACTGCAATTTCACTAAATTT
1 AACTGCAATTTCACTAAATTT
135098574 TGGAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
AACTGCAATTTCACTAAATTT
Found at i:135106161 original size:29 final size:29
Alignment explanation
Indices: 135106129--135106187 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
135106119 AATACATTAA
* *
135106129 ACTATTT-AAATTTTTATTTAAGTCACTAG
1 ACTATTTGAAATTTGTATATAAGTCA-TAG
135106158 ACTATTTGAAATTTGTATATAAGTCATAG
1 ACTATTTGAAATTTGTATATAAGTCATAG
135106187 A
1 A
135106188 GTTGTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (29 bp):
ACTATTTGAAATTTGTATATAAGTCATAG
Found at i:135114018 original size:109 final size:109
Alignment explanation
Indices: 135113881--135114142 Score: 454
Period size: 109 Copynumber: 2.4 Consensus size: 109
135113871 GGAATTAGTG
* *
135113881 GCCGACCAATACACATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATAC
1 GCCGACCAATATACATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
* *
135113946 TTTAATATATGTTAATATATTATATTTAATAAAAGATGAAAGTA
66 TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
*
135113990 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
1 GCCGACCAATATACATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
135114055 TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
66 TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
* *
135114099 GCCGA-GAATATACATGGATTAATGACTTGAATTGTTTATTATAT
1 GCCGACCAATATACATGGATTAATGACTTGAATTATTTATTATAT
135114143 ATGTTAATAT
Statistics
Matches: 145, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
108 36 0.25
109 109 0.75
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (109 bp):
GCCGACCAATATACATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
Found at i:135114433 original size:2 final size:2
Alignment explanation
Indices: 135114426--135114453 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
135114416 GAATTGAATG
135114426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
135114454 GCATGTAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:135116161 original size:16 final size:16
Alignment explanation
Indices: 135116140--135116212 Score: 69
Period size: 16 Copynumber: 4.5 Consensus size: 16
135116130 TTTGGTTCAC
135116140 TGTAATAGAATA-AGGT
1 TGTAATAGAATAGA-GT
*
135116156 TGTAATTGAATAGAGT
1 TGTAATAGAATAGAGT
**
135116172 TGTAAT-GTAATAGAAC
1 TGTAATAG-AATAGAGT
*
135116188 TGTAATGGAATAGATGT
1 TGTAATAGAATAGA-GT
135116205 TGTAATAG
1 TGTAATAG
135116213 CATAAGAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
15 1 0.02
16 37 0.79
17 9 0.19
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.34
Consensus pattern (16 bp):
TGTAATAGAATAGAGT
Found at i:135116176 original size:32 final size:34
Alignment explanation
Indices: 135116140--135116220 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 34
135116130 TTTGGTTCAC
** *
135116140 TGTAATAGAATAAG-GTTGTAATTGAATAGA-GT
1 TGTAATAGAATAAGAACTGTAATGGAATAGATGT
135116172 TGTAAT-GTAAT-AGAACTGTAATGGAATAGATGT
1 TGTAATAG-AATAAGAACTGTAATGGAATAGATGT
*
135116205 TGTAATAGCATAAGAA
1 TGTAATAGAATAAGAA
135116221 AAAATACTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
31 3 0.08
32 22 0.55
33 10 0.25
34 5 0.12
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.32
Consensus pattern (34 bp):
TGTAATAGAATAAGAACTGTAATGGAATAGATGT
Found at i:135116431 original size:36 final size:36
Alignment explanation
Indices: 135116391--135116465 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
135116381 TTTAATAAAA
* * *
135116391 TATTATAT-AATGTAATAAAATTCTTAATATA-ATTAT
1 TATTATATGAAT-TAA-AAAAATCATAATATATAATAT
135116427 TATTATATGAATTAAAAAAATCATAATATATAATAT
1 TATTATATGAATTAAAAAAATCATAATATATAATAT
135116463 TAT
1 TAT
135116466 AAAAATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 13 0.38
36 18 0.53
37 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (36 bp):
TATTATATGAATTAAAAAAATCATAATATATAATAT
Found at i:135116464 original size:33 final size:36
Alignment explanation
Indices: 135116389--135116466 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 36
135116379 AATTTAATAA
* *
135116389 AATATTATATAATGTAATAAAATTCTTAATATAATT
1 AATATTATATAATGTAATAAAAATCATAATATAATT
*
135116425 ATTATTATATGAAT-TAA-AAAAATCATAATAT-A-T
1 AATATTATAT-AATGTAATAAAAATCATAATATAATT
135116458 AATATTATA
1 AATATTATA
135116467 AAAATAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 9 0.24
34 1 0.03
35 12 0.32
36 12 0.32
37 3 0.08
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (36 bp):
AATATTATATAATGTAATAAAAATCATAATATAATT
Found at i:135116778 original size:51 final size:51
Alignment explanation
Indices: 135116702--135116805 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
135116692 TACATATAAC
135116702 AAACATTATAATGTTACATTTCACATTCTCATTTCATTTAAATTATGAGAG
1 AAACATTATAATGTTACATTTCACATTCTCATTTCATTTAAATTATGAGAG
135116753 AAACATTATAATGTTACATTTCACATTCTCATTTCATTTAAATTATGAGAG
1 AAACATTATAATGTTACATTTCACATTCTCATTTCATTTAAATTATGAGAG
135116804 AA
1 AA
135116806 GGAAAGAGCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (51 bp):
AAACATTATAATGTTACATTTCACATTCTCATTTCATTTAAATTATGAGAG
Found at i:135121062 original size:14 final size:14
Alignment explanation
Indices: 135121041--135121094 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
135121031 TCTGGCATAT
135121041 GCCCGTGTGTCTAA
1 GCCCGTGTGTCTAA
* *
135121055 GTCCGTGTGGCTCACA
1 GCCCGTGTGTCT-A-A
*
135121071 TGGCCGTGTGTCTAA
1 -GCCCGTGTGTCTAA
135121086 GCCCGTGTG
1 GCCCGTGTG
135121095 GCTCCAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 18 0.56
15 2 0.06
16 2 0.06
17 10 0.31
ACGTcount: A:0.11, C:0.28, G:0.33, T:0.28
Consensus pattern (14 bp):
GCCCGTGTGTCTAA
Found at i:135123601 original size:31 final size:31
Alignment explanation
Indices: 135123566--135123627 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
135123556 GTAAAATAAT
* *
135123566 TATGAAAAATACTAAAAATTTTATATATATA
1 TATGAAAAATAATAAAAATTTAATATATATA
* * *
135123597 TATGAACAATAATTAAAATTTAATGTATATA
1 TATGAAAAATAATAAAAATTTAATATATATA
135123628 ATTATATCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (31 bp):
TATGAAAAATAATAAAAATTTAATATATATA
Found at i:135123643 original size:30 final size:27
Alignment explanation
Indices: 135123607--135123666 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 27
135123597 TATGAACAAT
*
135123607 AATTAAAATTTAATGTATATAATTATATCA
1 AATTAAAA-TTAATGT-TATAATT-TATAA
*
135123637 AATTAAAATTATTGTTATAATTTATAA
1 AATTAAAATTAATGTTATAATTTATAA
135123664 AAT
1 AAT
135123667 GAAGGTTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.25
28 7 0.25
29 6 0.21
30 8 0.29
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (27 bp):
AATTAAAATTAATGTTATAATTTATAA
Found at i:135124295 original size:31 final size:31
Alignment explanation
Indices: 135124242--135124304 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
135124232 GCAATTTGAT
* * *
135124242 TCTTTTTGAAAGATTGATAGTTAAATATAAC
1 TCTTTTTAAAAGATCGAGAGTTAAATATAAC
* *
135124273 TCTTTTTAAAATATCGAGAGTTAAATTTAAC
1 TCTTTTTAAAAGATCGAGAGTTAAATATAAC
135124304 T
1 T
135124305 AAAAAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (31 bp):
TCTTTTTAAAAGATCGAGAGTTAAATATAAC
Found at i:135125688 original size:13 final size:13
Alignment explanation
Indices: 135125670--135125696 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
135125660 AATATTCACA
135125670 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
135125683 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
135125696 A
1 A
135125697 GGAAACTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:135131721 original size:42 final size:42
Alignment explanation
Indices: 135131658--135131821 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
135131648 CTTTGTTTTC
** *
135131658 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
135131701 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
135131742 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
*
135131791 TCGATGCCATAGCCCAGCTATGGTCGTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
135131822 GAATCACATA
Statistics
Matches: 104, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 63 0.61
43 1 0.01
45 2 0.02
48 1 0.01
49 35 0.34
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:135131801 original size:49 final size:49
Alignment explanation
Indices: 135131741--135131911 Score: 183
Period size: 49 Copynumber: 3.6 Consensus size: 49
135131731 ATATTCATAT
*
135131741 ATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACAC
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAC
* * *
135131790 ATCGATGCCATAGCCCAGCTATGGTCGTACACG-AATCACATAT--CTC
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAC
* * * * *
135131836 ATTGATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCACAC
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACAC
* * *
135131885 --CGACGCCATATCCCAAATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
135131912 TACGGAAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 29 0.28
47 32 0.30
48 10 0.10
49 34 0.32
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (49 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACAC
Found at i:135131968 original size:31 final size:31
Alignment explanation
Indices: 135131933--135132112 Score: 279
Period size: 31 Copynumber: 5.8 Consensus size: 31
135131923 CTTGTCACTT
*
135131933 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
135131964 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
135131995 GTAACCGGAGCTACCACTTTTCATTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
135132026 GTAGAAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
135132057 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
135132088 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
135132113 TGTCATTTGT
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 134 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:135132193 original size:50 final size:51
Alignment explanation
Indices: 135132088--135132216 Score: 215
Period size: 50 Copynumber: 2.5 Consensus size: 51
135132078 CACTGATCAG
* * *
135132088 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
135132139 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
135132189 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
135132217 TGCCATGGTC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 48 0.66
51 25 0.34
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:135135500 original size:26 final size:26
Alignment explanation
Indices: 135135462--135135511 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
135135452 TATTTTTTAA
*
135135462 TAATATAAAGATTAA-ATTAATTCATT
1 TAATAGAAAGATTAATA-TAATTCATT
*
135135488 TAATAGAATGATTAATATAATTCA
1 TAATAGAAAGATTAATATAATTCA
135135512 ATCCCGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
TAATAGAAAGATTAATATAATTCATT
Found at i:135136224 original size:31 final size:30
Alignment explanation
Indices: 135136168--135136226 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
135136158 ACAGTTCAAA
*
135136168 AAAAAAATTAATCTAACCTCCAATTTTTCT
1 AAAAAAATTAATCTAAACTCCAATTTTTCT
*
135136198 AAAAAAATCTCAT-TAAACTCCTAATTTTT
1 AAAAAAAT-TAATCTAAACTCC-AATTTTT
135136227 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAAAAATTAATCTAAACTCCAATTTTTCT
Found at i:135136271 original size:2 final size:2
Alignment explanation
Indices: 135136264--135136294 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
135136254 CCTGCAATTG
135136264 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
135136295 TTATTCAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:135140975 original size:22 final size:20
Alignment explanation
Indices: 135140937--135140977 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
135140927 CCTTAAATTG
*
135140937 ATATAATTAAATTAAATAAT
1 ATATAATTAAATAAAATAAT
135140957 ATATAATTTGAAATAAAATAA
1 ATATAA-TT-AAATAAAATAA
135140978 ATTACTGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
ATATAATTAAATAAAATAAT
Found at i:135144155 original size:14 final size:15
Alignment explanation
Indices: 135144132--135144166 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
135144122 TAACAAACAC
*
135144132 AAAGATAAAA-AAAA
1 AAAGAAAAAAGAAAA
135144146 AAAGAAAAAAGAAAA
1 AAAGAAAAAAGAAAA
135144161 AAAGAA
1 AAAGAA
135144167 GAGATGCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAGAAAA
Found at i:135144871 original size:12 final size:12
Alignment explanation
Indices: 135144850--135144895 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
135144840 TTGCTGTATA
*
135144850 TACATACATAGG
1 TACATACATACG
*
135144862 TACGTACATACG
1 TACATACATACG
*
135144874 TACATACATACA
1 TACATACATACG
*
135144886 TATATACATA
1 TACATACATA
135144896 TGTGTCTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (12 bp):
TACATACATACG
Found at i:135154987 original size:21 final size:20
Alignment explanation
Indices: 135154963--135155014 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
135154953 TTATGCCACA
*
135154963 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTCAATT
*
135154984 TCAGGATTTTATCCTCAATT
1 TCAGTATTTTATCCTCAATT
135155004 TCAGTATTTTA
1 TCAGTATTTTA
135155015 ATTTGGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (20 bp):
TCAGTATTTTATCCTCAATT
Found at i:135162549 original size:32 final size:32
Alignment explanation
Indices: 135162513--135162577 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
135162503 ACAACATAAA
135162513 AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
1 AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
135162545 AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
1 AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
135162577 A
1 A
135162578 TCTTTATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (32 bp):
AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
Found at i:135166782 original size:21 final size:21
Alignment explanation
Indices: 135166757--135166797 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
135166747 AAATAAAAAC
135166757 TTTTG-AATAGTTTAATAATTA
1 TTTTGTAATAGTTTAA-AATTA
*
135166778 TTTTGTAATATTTTAAAATT
1 TTTTGTAATAGTTTAAAATT
135166798 GAGTGACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTGTAATAGTTTAAAATTA
Found at i:135197339 original size:21 final size:21
Alignment explanation
Indices: 135197298--135197343 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
135197288 ATTATTGAAA
135197298 TAAAACATTATTATCAAAAAAT
1 TAAAACATTATTAT-AAAAAAT
*
135197320 TAAAACATTCATTAT-GAAAAT
1 TAAAACATT-ATTATAAAAAAT
135197341 TAA
1 TAA
135197344 TTAGTGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 9 0.41
23 5 0.23
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAAACATTATTATAAAAAAT
Found at i:135201449 original size:20 final size:20
Alignment explanation
Indices: 135201425--135201464 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
135201415 ATCAATTCAA
*
135201425 TTTTTATTAAGTTTTTAATAT
1 TTTTTA-TAAATTTTTAATAT
135201446 TTTTTATAAATTTTTAATA
1 TTTTTATAAATTTTTAATA
135201465 ATTATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTTTATAAATTTTTAATAT
Found at i:135201465 original size:11 final size:11
Alignment explanation
Indices: 135201423--135201480 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
135201413 AAATCAATTC
*
135201423 AATTTTTATTA
1 AATTTTTAATA
*
135201434 AGTTTTTAAT-
1 AATTTTTAATA
*
135201444 -ATTTTTTATA
1 AATTTTTAATA
135201454 AATTTTTAAT-
1 AATTTTTAATA
135201464 AATTATTTAATCA
1 AATT-TTTAAT-A
135201477 AATT
1 AATT
135201481 AGATAAACCG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 7 0.19
10 4 0.11
11 22 0.59
13 4 0.11
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
AATTTTTAATA
Found at i:135205386 original size:99 final size:99
Alignment explanation
Indices: 135205215--135205405 Score: 328
Period size: 99 Copynumber: 1.9 Consensus size: 99
135205205 TCGTGTTATG
* *
135205215 TGTTGGGATTTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGGCAACGAGACCC
1 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAACGAGACCC
135205280 ATGCACTAACAAACCTTTGAGCTTTTTAACACGA
66 ATGCACTAACAAACCTTTGAGCTTTTTAACACGA
* * *
135205314 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCTAAGGGACAATGAGGCCC
1 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAACGAGACCC
*
135205379 ATGCACTAACAAACCTTTGAGTTTTTT
66 ATGCACTAACAAACCTTTGAGCTTTTT
135205406 TTATAGCTTC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 86 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (99 bp):
TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAACGAGACCC
ATGCACTAACAAACCTTTGAGCTTTTTAACACGA
Found at i:135207946 original size:2 final size:2
Alignment explanation
Indices: 135207939--135207968 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
135207929 CTTTACCTCA
135207939 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
135207969 ACACACACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:135210088 original size:33 final size:33
Alignment explanation
Indices: 135209978--135210097 Score: 116
Period size: 33 Copynumber: 3.6 Consensus size: 33
135209968 TAAGAGGCAA
* * * *
135209978 GAAGCAGAGGAGCATGAAGGAGCAA-TAAAACAC
1 GAAGAAGAGGAGCAGGAAGAAGGAAGT-AAACAC
* * * * * *
135210011 GTAGAAGAGGAACGGGTAGAAGGAAGCAAACAT
1 GAAGAAGAGGAGCAGGAAGAAGGAAGTAAACAC
135210044 GAAGAAGAGGAGCAGGAAGAAGGAAGTAAACAC
1 GAAGAAGAGGAGCAGGAAGAAGGAAGTAAACAC
* *
135210077 GAAGAAGAGGAGGAAGAAGAA
1 GAAGAAGAGGAGCAGGAAGAA
135210098 ACAAACAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.50, C:0.09, G:0.36, T:0.05
Consensus pattern (33 bp):
GAAGAAGAGGAGCAGGAAGAAGGAAGTAAACAC
Found at i:135210108 original size:33 final size:33
Alignment explanation
Indices: 135210037--135210117 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
135210027 TAGAAGGAAG
* ** *
135210037 CAAACATGAAGAAGAGGAGCAGGAAGAAGGAAG
1 CAAACATGAAGAAGAGGAGCAAGAAGAAACAAA
* * *
135210070 TAAACACGAAGAAGAGGAGGAAGAAGAAACAAA
1 CAAACATGAAGAAGAGGAGCAAGAAGAAACAAA
135210103 CAAACATGAAGAAGA
1 CAAACATGAAGAAGA
135210118 TGAAGAGGCT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.57, C:0.10, G:0.30, T:0.04
Consensus pattern (33 bp):
CAAACATGAAGAAGAGGAGCAAGAAGAAACAAA
Found at i:135210613 original size:15 final size:16
Alignment explanation
Indices: 135210586--135210616 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
135210576 ATGGTGATGA
135210586 AAACAAGTCTGAAGGT
1 AAACAAGTCTGAAGGT
135210602 AAACAA-TCTGAAGGT
1 AAACAAGTCTGAAGGT
135210617 GGTAGCTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (16 bp):
AAACAAGTCTGAAGGT
Found at i:135213808 original size:15 final size:15
Alignment explanation
Indices: 135213788--135213821 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
135213778 AAGGTAGTAA
135213788 GGACACAAGTCATAG
1 GGACACAAGTCATAG
135213803 GGACACAAGTCATAG
1 GGACACAAGTCATAG
135213818 GGAC
1 GGAC
135213822 TTTGATGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.29, T:0.12
Consensus pattern (15 bp):
GGACACAAGTCATAG
Found at i:135215496 original size:18 final size:18
Alignment explanation
Indices: 135215450--135215499 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
135215440 AACCCGAAAT
* *
135215450 CTGATCCTGATCCGGATC
1 CTGATCCTGACCCGGAAC
* *
135215468 CTGGTCTTGACCCGGAAC
1 CTGATCCTGACCCGGAAC
*
135215486 GTGATCCTGACCCG
1 CTGATCCTGACCCG
135215500 AAATCACCAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.34, G:0.26, T:0.24
Consensus pattern (18 bp):
CTGATCCTGACCCGGAAC
Found at i:135221470 original size:8 final size:8
Alignment explanation
Indices: 135221450--135221488 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
135221440 TTTAATTAGT
135221450 TTTTCTATG
1 TTTTCT-TG
135221459 TTTTCTTG
1 TTTTCTTG
135221467 TTTTCTTG
1 TTTTCTTG
*
135221475 TTTTCTTC
1 TTTTCTTG
135221483 TTTTCT
1 TTTTCT
135221489 CCGTCACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 23 0.79
9 6 0.21
ACGTcount: A:0.03, C:0.15, G:0.08, T:0.74
Consensus pattern (8 bp):
TTTTCTTG
Found at i:135228492 original size:16 final size:15
Alignment explanation
Indices: 135228459--135228488 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
135228449 TATAGATCAC
*
135228459 ATTTTTATTGGTTAG
1 ATTTTTATTAGTTAG
135228474 ATTTTTATTAGTTAG
1 ATTTTTATTAGTTAG
135228489 GATTGTGTTT
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:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (15 bp):
ATTTTTATTAGTTAG
Found at i:135228802 original size:28 final size:28
Alignment explanation
Indices: 135228739--135228802 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
135228729 ATTTTAACTT
***
135228739 TTTTTAAAAATAATAAAATTTAATTTAA
1 TTTTTAAAAATAATAAAAAAAAATTTAA
*
135228767 TTCTTTAAAAATTATAAAAAAAAA-TTATA
1 TT-TTTAAAAATAATAAAAAAAAATTTA-A
135228796 TTTTTAA
1 TTTTTAA
135228803 TATCGTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTTTAAAAATAATAAAAAAAAATTTAA
Found at i:135232782 original size:31 final size:31
Alignment explanation
Indices: 135232747--135232810 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
135232737 TTAACATAAT
*
135232747 ATGCAAATTAATCCTTTTATATTTGATAAAA
1 ATGCAAATCAATCCTTTTATATTTGATAAAA
135232778 ATGCAAATCAATCCTTTTATATTTGATAAAA
1 ATGCAAATCAATCCTTTTATATTTGATAAAA
135232809 AT
1 AT
135232811 TTCATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (31 bp):
ATGCAAATCAATCCTTTTATATTTGATAAAA
Found at i:135234250 original size:29 final size:31
Alignment explanation
Indices: 135234218--135234276 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
135234208 AATTGAGGCT
135234218 AAACCTT-TT-AAAATAG-TCAAATAAGGGTC
1 AAACCTTATTGAAAAT-GCTCAAATAAGGGTC
*
135234247 AAACCTTATTGAAGATGCTCAAATAAGGGT
1 AAACCTTATTGAAAATGCTCAAATAAGGGT
135234277 TTTCCAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 7 0.27
30 3 0.12
31 16 0.62
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (31 bp):
AAACCTTATTGAAAATGCTCAAATAAGGGTC
Found at i:135236547 original size:13 final size:13
Alignment explanation
Indices: 135236529--135236555 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
135236519 GTCTCTACTA
135236529 GACGTGTGCATGG
1 GACGTGTGCATGG
135236542 GACGTGTGCATGG
1 GACGTGTGCATGG
135236555 G
1 G
135236556 CCGAGTCGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.48, T:0.22
Consensus pattern (13 bp):
GACGTGTGCATGG
Found at i:135237337 original size:13 final size:12
Alignment explanation
Indices: 135237319--135237356 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 12
135237309 TTTAAAATTT
135237319 AAAATTTATAAA
1 AAAATTTATAAA
135237331 CAAAATTTATAAA
1 -AAAATTTATAAA
135237344 AAAA-TTATAAA
1 AAAATTTATAAA
135237355 AA
1 AA
135237357 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 9 0.36
12 4 0.16
13 12 0.48
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATTTATAAA
Found at i:135239275 original size:2 final size:2
Alignment explanation
Indices: 135239268--135239304 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
135239258 GAATGAGATA
135239268 AT AT 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 AT AT A
135239305 ATGCTAGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:135240573 original size:28 final size:29
Alignment explanation
Indices: 135240499--135240592 Score: 95
Period size: 28 Copynumber: 3.3 Consensus size: 29
135240489 CCAAATTAGG
* * *
135240499 AAAAAAAATTAAGTTC-AAGTATCAAATT
1 AAAAAAAATAAAGATCTAAGTACCAAATT
* *
135240527 AAAAAAAA-AAAGATTTAAGTACTAAATT
1 AAAAAAAATAAAGATCTAAGTACCAAATT
*
135240555 AAAAAAAATCAA-ATCTAAGTACCAAATT
1 AAAAAAAATAAAGATCTAAGTACCAAATT
*
135240583 AGAAAGAAAT
1 A-AAAAAAAT
135240593 GTAAAGTTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
27 4 0.07
28 41 0.76
29 9 0.17
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.23
Consensus pattern (29 bp):
AAAAAAAATAAAGATCTAAGTACCAAATT
Found at i:135241094 original size:2 final size:2
Alignment explanation
Indices: 135241087--135241123 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
135241077 TTGAAACAGG
135241087 AT AT 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 AT AT A
135241124 ACAATCATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:135247417 original size:47 final size:47
Alignment explanation
Indices: 135247378--135247510 Score: 239
Period size: 47 Copynumber: 2.8 Consensus size: 47
135247368 TGTCGACTAC
135247378 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
*
135247425 TGTTAAAGTTCCGGATTTGTTCCGATGAAATACTTTGTGTACTATAA
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
* *
135247472 TGTTAAAGTTCCGGATTTGTTCCGATGAAGCACTATGTG
1 TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTG
135247511 CTTATCCCGG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.39
Consensus pattern (47 bp):
TGTTAAAGTTCCGGATTTGTTCCGATGAAGTACTTTGTGTACTATAA
Found at i:135254802 original size:23 final size:21
Alignment explanation
Indices: 135254762--135254805 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
135254752 TATATAATAA
135254762 ATATTTTTATAATATATTATT
1 ATATTTTTATAATATATTATT
*
135254783 ATATTTTTTTAATAAGTATTATT
1 ATATTTTTATAAT-A-TATTATT
135254806 TTGTGATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATATTTTTATAATATATTATT
Found at i:135255786 original size:2 final size:2
Alignment explanation
Indices: 135255779--135255813 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
135255769 AAATTTGAAT
135255779 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
135255814 GAAACTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:135257166 original size:11 final size:11
Alignment explanation
Indices: 135257150--135257186 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
135257140 TGTAGGAAGT
135257150 TTTTATTTTTA
1 TTTTATTTTTA
*
135257161 TTTTATTTCTA
1 TTTTATTTTTA
135257172 -TTTATTTTTA
1 TTTTATTTTTA
135257182 TTTTA
1 TTTTA
135257187 ATTCATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:135257177 original size:10 final size:10
Alignment explanation
Indices: 135257151--135257184 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
135257141 GTAGGAAGTT
135257151 TTTATTTTTA
1 TTTATTTTTA
*
135257161 TTTTATTTCTA
1 -TTTATTTTTA
135257172 TTTATTTTTA
1 TTTATTTTTA
135257182 TTT
1 TTT
135257185 TAATTCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:135268542 original size:24 final size:24
Alignment explanation
Indices: 135268513--135268563 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
135268503 TTTTTACTTG
135268513 TTTCTTTGTTT-CTTTTATT-TTTTA
1 TTTC-TTGTTTACTTTT-TTGTTTTA
135268537 TTTCTTGTTTACTTTTTTGTTTTA
1 TTTCTTGTTTACTTTTTTGTTTTA
135268561 TTT
1 TTT
135268564 TATTGTTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.78
Consensus pattern (24 bp):
TTTCTTGTTTACTTTTTTGTTTTA
Found at i:135270144 original size:16 final size:16
Alignment explanation
Indices: 135270123--135270155 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
135270113 CAGCAATACA
135270123 AAAACTGTAGGGTTCG
1 AAAACTGTAGGGTTCG
135270139 AAAACTGTAGGGTTCG
1 AAAACTGTAGGGTTCG
135270155 A
1 A
135270156 TATGAGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.24
Consensus pattern (16 bp):
AAAACTGTAGGGTTCG
Found at i:135281430 original size:2 final size:2
Alignment explanation
Indices: 135281423--135281450 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
135281413 GAATTACAAG
135281423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
135281451 TATCTACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:135283327 original size:18 final size:18
Alignment explanation
Indices: 135283304--135283355 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
135283294 GGTTTATATT
135283304 TTTTAAATATTTTTTAAA
1 TTTTAAATATTTTTTAAA
* *
135283322 TTTTAAAGAGTTTTTAATA
1 TTTTAAATATTTTTTAA-A
135283341 TTTT---TATTTTTTAAA
1 TTTTAAATATTTTTTAAA
135283356 AAATTATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 1 0.03
16 8 0.28
18 15 0.52
19 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTAAATATTTTTTAAA
Found at i:135283351 original size:26 final size:25
Alignment explanation
Indices: 135283303--135283378 Score: 62
Period size: 26 Copynumber: 2.8 Consensus size: 25
135283293 TGGTTTATAT
* *
135283303 TTTTTAAATATTTTTTAAATTTTAAAGAG
1 TTTTT-AATA-TTTTT-ATTTTTAAA-AA
135283332 TTTTTAATATTTTTATTTTTTAAAAA
1 TTTTTAATATTTTTA-TTTTTAAAAA
* * *
135283358 ATTATAATTTTTTTATTTTTA
1 TTTTTAATATTTTTATTTTTA
135283379 TTTAAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
25 6 0.15
26 14 0.34
27 12 0.29
28 4 0.10
29 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (25 bp):
TTTTTAATATTTTTATTTTTAAAAA
Found at i:135283894 original size:19 final size:20
Alignment explanation
Indices: 135283862--135283901 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
135283852 AGTTTATAAT
135283862 AAACGAATTAATGTCTAAAA
1 AAACGAATTAATGTCTAAAA
* *
135283882 AAAC-AATTGATGTGTAAAA
1 AAACGAATTAATGTCTAAAA
135283901 A
1 A
135283902 TTTGAAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (20 bp):
AAACGAATTAATGTCTAAAA
Found at i:135286915 original size:2 final size:2
Alignment explanation
Indices: 135286908--135286937 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
135286898 ATGAATTGCA
135286908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
135286938 TATGCTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:135287999 original size:4 final size:4
Alignment explanation
Indices: 135287990--135288016 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
135287980 AGTCCAATAT
135287990 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
135288017 TTCCAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:135288736 original size:5 final size:5
Alignment explanation
Indices: 135288726--135288754 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
135288716 CTCAATATTC
135288726 ATAAT ATAAT ATAAT ATAAT AT-AT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
135288755 GAAGTTGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:135294543 original size:43 final size:43
Alignment explanation
Indices: 135294406--135294520 Score: 194
Period size: 43 Copynumber: 2.7 Consensus size: 43
135294396 GAAAAAAAAT
* * *
135294406 GCCGCTAAAAGTCAAGGCGTTTAGCGGCGTTTGTAGTAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTATAGTAAAAGC
*
135294449 GCCGCTAAAGGTAAAGGCTTTTAGCGGCGTTTATAGTAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTATAGTAAAAGC
135294492 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
135294521 CTTTTTTTAC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTATAGTAAAAGC
Found at i:135294629 original size:31 final size:31
Alignment explanation
Indices: 135294594--135294660 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
135294584 CTTCCTGTAT
* *
135294594 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
135294625 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
135294656 TAAAA
1 TAAAA
135294661 AATACAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:135294672 original size:33 final size:31
Alignment explanation
Indices: 135294595--135294673 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
135294585 TTCCTGTATT
* * *
135294595 AAAATCCAACCAAATACAACAAATATAATAT
1 AAAATACAACCAAAAACAACAAATATAATAA
* * * *
135294626 AAAATGCAGCCAAAAACAGCAAATTTAACATAA
1 AAAATACAACCAAAAACAACAAATAT-A-ATAA
135294659 AAAATACAACCAAAA
1 AAAATACAACCAAAA
135294674 TATTAATTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 21 0.55
32 1 0.03
33 16 0.42
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (31 bp):
AAAATACAACCAAAAACAACAAATATAATAA
Found at i:135294942 original size:21 final size:21
Alignment explanation
Indices: 135294918--135294963 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
135294908 GCTCGTGCCT
*
135294918 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
135294939 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
135294960 CTGC
1 CTGC
135294964 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:135300624 original size:9 final size:9
Alignment explanation
Indices: 135300610--135300835 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
135300600 TATTTAAGTA
135300610 TTATGTAAG
1 TTATGTAAG
*
135300619 TTATGTAAT
1 TTATGTAAG
*
135300628 TTATGATATG
1 TTATG-TAAG
* * *
135300638 ATATAT-AT
1 TTATGTAAG
*
135300646 TTATGTAAA
1 TTATGTAAG
* *
135300655 TTATAT-AT
1 TTATGTAAG
*
135300663 TTATCTAAG
1 TTATGTAAG
*
135300672 TTATATAAG
1 TTATGTAAG
135300681 TTATGTAAG
1 TTATGTAAG
*
135300690 TTATGTAAA
1 TTATGTAAG
*
135300699 TTATGATATAAAA
1 TTATG---T-AAG
*
135300712 TATATTTAAG
1 T-TATGTAAG
135300722 TATTATGTAAG
1 --TTATGTAAG
135300733 TTATGTAAG
1 TTATGTAAG
* *
135300742 TTATAT-AT
1 TTATGTAAG
*
135300750 TTATCTAAG
1 TTATGTAAG
*
135300759 TTATATAAG
1 TTATGTAAG
*
135300768 TTATATAAG
1 TTATGTAAG
*
135300777 TTATGTATG
1 TTATGTAAG
*
135300786 TTATATAAG
1 TTATGTAAG
135300795 TTATGTAAG
1 TTATGTAAG
* *
135300804 TTATATATG
1 TTATGTAAG
*
135300813 TTATATAAG
1 TTATGTAAG
*
135300822 TTATGTAAA
1 TTATGTAAG
135300831 TTATG
1 TTATG
135300836 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:135300689 original size:18 final size:18
Alignment explanation
Indices: 135300610--135300835 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
135300600 TATTTAAGTA
* *
135300610 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
135300628 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
135300646 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
135300663 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
135300681 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
135300699 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
135300722 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
135300742 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
135300759 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
135300777 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
135300795 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
135300813 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
135300831 TTATG
1 TTATG
135300836 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:135300702 original size:27 final size:27
Alignment explanation
Indices: 135300663--135300835 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
135300653 AATTATATAT
*
135300663 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
135300690 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
135300722 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
135300750 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
135300777 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
135300804 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
135300831 TTATG
1 TTATG
135300836 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:135300720 original size:114 final size:114
Alignment explanation
Indices: 135300586--135300807 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
135300576 ACTAGTTATG
* * * *
135300586 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
135300650 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
135300700 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
135300765 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
135300808 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:135300960 original size:15 final size:15
Alignment explanation
Indices: 135300940--135300995 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
135300930 AAGTAGCGGG
135300940 ATTAAATAATATTTA
1 ATTAAATAATATTTA
135300955 ATTAAATAATATTT-
1 ATTAAATAATATTTA
135300969 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
135300984 ATTAAATAATAT
1 ATTAAATAATAT
135300996 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:135301200 original size:24 final size:24
Alignment explanation
Indices: 135301172--135301239 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
135301162 ACTTAAATGG
135301172 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
135301196 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
135301220 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
135301240 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:135302492 original size:373 final size:373
Alignment explanation
Indices: 135301327--135303358 Score: 3937
Period size: 373 Copynumber: 5.5 Consensus size: 373
135301317 AATTGAAACA
135301327 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
135301392 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
* *
135301457 AATAAGGTTAGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
131 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
135301522 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
196 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
135301587 TAATAATATCA-AAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
261 TAATAATATCAGAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
135301651 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
326 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
135301699 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
135301764 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
135301829 AATAAGGTTGGAGAG-AAGTCAGCTATTGTTGTAA-TTTTGATAAAAAGTAGTTATAACTTTTAA
131 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
135301892 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAAT
196 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATAT-AAAAAATAGTAATTTGAAT
*
135301957 ATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTA
260 ATAATAATATCAGAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTA
135302022 TATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
325 TATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
*
135302071 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGTTCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
135302136 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
135302201 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
131 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
135302266 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
196 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
135302331 TAATAATATCAGAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
261 TAATAATATCAGAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
*
135302396 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTTCAAGTCTT
326 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
135302444 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
*
135302509 CAGCTCGATATAAGGCAACTCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
135302574 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
131 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
135302639 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
196 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
135302704 TAATAATATCAGAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
261 TAATAATATCAGAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
*
135302769 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTTCAAGTCTT
326 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
135302817 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
135302882 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
*
135302947 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
131 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
135303012 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
196 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
135303077 TAATAATATCAGAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
261 TAATAATATCAGAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
*
135303142 ATAAATATTCAATATTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
326 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
*
135303190 TTTGAATTTTTTAAGATTAATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
135303255 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
135303320 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAA-TTTT
131 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAAGTTTT
135303359 AATGGACAAG
Statistics
Matches: 1643, Mismatches: 13, Indels: 8
0.99 0.01 0.00
Matches are distributed among these distances:
370 74 0.05
371 49 0.03
372 393 0.24
373 1053 0.64
374 74 0.05
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (373 bp):
TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
TAATAATATCAGAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
Found at i:135307229 original size:3 final size:3
Alignment explanation
Indices: 135307223--135307272 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
135307213 TTTTTCTCTT
135307223 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
135307271 TT
1 TT
135307273 TCCTATTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:135307365 original size:28 final size:27
Alignment explanation
Indices: 135307313--135307365 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
135307303 GGTCTCTCTA
*
135307313 ATATATTTAAATTTTAGATTTATTTGC
1 ATATATTTAAATTTTAGATTCATTTGC
*
135307340 ATATACTTTAATTTTTA-ATATCATTT
1 ATATA-TTTAAATTTTAGAT-TCATTT
135307366 AGTCTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (27 bp):
ATATATTTAAATTTTAGATTCATTTGC
Found at i:135307547 original size:12 final size:12
Alignment explanation
Indices: 135307530--135307562 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
135307520 CATTAATATC
135307530 TATATATATCAA
1 TATATATATCAA
*
135307542 TATATATATCCA
1 TATATATATCAA
135307554 TATATATAT
1 TATATATAT
135307563 TATTTATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATATATCAA
Done.