Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 19 of 82
Found at i:6507178 original size:68 final size:68
Alignment explanation
Indices: 6507067--6507316 Score: 265
Period size: 68 Copynumber: 3.7 Consensus size: 68
6507057 ATGAGGAATG
6507067 CCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATCAAGTATGCATGATGT
1 CCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATCAAGTATGCATGAT-T
6507132 -ATA
65 AATA
* * * *
6507135 CTATAAGATTGTGTATATGATGTAAATTCCATATACCATATGAGGTGATTAAGTATGCATGATTA
1 CCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATCAAGTATGCATGATTA
*
6507200 ATG
66 ATA
* * * * * * ** * * *
6507203 CCATGAGATTATGCATATGATGTATATTCCATATACTACATGACATGATTGAGCAAGC-TAGATA
1 CCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATCAAGTATGCAT-GATT
*
6507267 AATG
65 AATA
* * * *
6507271 CCATGAGAATATGTATATGATG--AATTTCATATACCTTATGAGATGA
1 CCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGA
6507317 GTAAGCAAGT
Statistics
Matches: 154, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
66 18 0.12
67 2 0.01
68 134 0.87
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.34
Consensus pattern (68 bp):
CCATAAGATTATGTATATGATGTAAATTCCATATACCATATGAGATGATCAAGTATGCATGATTA
ATA
Found at i:6507863 original size:20 final size:19
Alignment explanation
Indices: 6507796--6507864 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
6507786 TTTTATGTGA
**
6507796 AATGTATCGATACATTTTACT
1 AATGTATCGATACA--TTAAG
* *
6507817 AATGTATCGATAAATGTATG
1 AATGTATCGATACAT-TAAG
*
6507837 AAAGTATCGATACATTCAAG
1 AATGTATCGATACATT-AAG
6507857 AATGTATC
1 AATGTATC
6507865 AATAGTTTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.05
20 24 0.62
21 13 0.33
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACATTAAG
Found at i:6510534 original size:43 final size:43
Alignment explanation
Indices: 6510458--6510574 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
6510448 TCACCAGCTC
* * * * *
6510458 ATGCACACTCCCTACTCACACATGGCTGGGTCATCACT-GGGTT
1 ATGCGCACTCCCTACTCACACATAGCCGAGTCATC-CTCGGCTT
* *
6510501 ATGCGCACTCCCTACTCATACATAACCGAGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCACACATAGCCGAGTCATCCTCGGCTT
* *
6510544 ATGCGCACTCCTTACTCGCACATAGCCGAGT
1 ATGCGCACTCCCTACTCACACATAGCCGAGT
6510575 TAATGTCATT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
42 2 0.03
43 60 0.97
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCACACATAGCCGAGTCATCCTCGGCTT
Found at i:6517303 original size:35 final size:35
Alignment explanation
Indices: 6517241--6517485 Score: 271
Period size: 35 Copynumber: 7.0 Consensus size: 35
6517231 TGATTAAAAA
* *
6517241 TGTTTAATTAAG---TTGTGCCTAACTAATTAAAT
1 TGTTTAATTAAGTCATTGGGCCTAATTAATTAAAT
*
6517273 TGTTTAATTAAATCATTGGGCCTAATTAATTAAAT
1 TGTTTAATTAAGTCATTGGGCCTAATTAATTAAAT
6517308 TGTTTAATTAAGTCATTGGGCCTAATTAATTAAAT
1 TGTTTAATTAAGTCATTGGGCCTAATTAATTAAAT
**** * * *
6517343 TAAACAATTAAGTTATTGGACCTAATTGATTAAATT
1 TGTTTAATTAAGTCATTGGGCCTAATTAATTAAA-T
*
6517379 TGTTTAATTAAGTCATTGGGCCTAATTGATTAAAAT
1 TGTTTAATTAAGTCATTGGGCCTAATTAATT-AAAT
* * * * *
6517415 TTTTTAATTAAATTACTGGGCTTAATTAATTAAAT
1 TGTTTAATTAAGTCATTGGGCCTAATTAATTAAAT
* * * *
6517450 TATTTAATTAAGTTATTAGGCCTAATTGATTAAAT
1 TGTTTAATTAAGTCATTGGGCCTAATTAATTAAAT
6517485 T
1 T
6517486 AAATAATTAA
Statistics
Matches: 179, Mismatches: 29, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.06
35 113 0.63
36 52 0.29
37 3 0.02
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (35 bp):
TGTTTAATTAAGTCATTGGGCCTAATTAATTAAAT
Found at i:6517456 original size:71 final size:71
Alignment explanation
Indices: 6517241--6517483 Score: 280
Period size: 71 Copynumber: 3.5 Consensus size: 71
6517231 TGATTAAAAA
* * * * *
6517241 TGTTTAATTAAG---TTGTGCCTAACTAATT-AAATTGTTTAATTAAATCATTGGGCCTAATTAA
1 TGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTATTTAATTAAATTATTGGGCCTAATTAA
6517302 TTAAAT
66 TTAAAT
* *** * * *
6517308 TGTTTAATTAAGTCATTGGGCCTAATTAATT-AAATTAAACAATTAAGTTATTGGACCTAATTGA
1 TGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTATTTAATTAAATTATTGGGCCTAATTAA
6517372 TTAAATT
66 TTAAA-T
* * *
6517379 TGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTTTTTAATTAAATTACTGGGCTTAATTAA
1 TGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTATTTAATTAAATTATTGGGCCTAATTAA
6517444 TTAAAT
66 TTAAAT
* * *
6517450 TATTTAATTAAGTTATTAGGCCTAATTGATTAAA
1 TGTTTAATTAAGTCATTGGGCCTAATTGATTAAA
6517484 TTAAATAATT
Statistics
Matches: 148, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
67 12 0.08
70 44 0.30
71 63 0.43
72 29 0.20
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (71 bp):
TGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTATTTAATTAAATTATTGGGCCTAATTAA
TTAAAT
Found at i:6517457 original size:142 final size:138
Alignment explanation
Indices: 6517230--6517499 Score: 378
Period size: 142 Copynumber: 1.9 Consensus size: 138
6517220 TTTCAAACAT
* *
6517230 TTGATTAAAAATGTTTAATTAAGTTGTGCCTAACTAATTAAATTGTTTAATTAAATCATTGGGCC
1 TTGATTAAAAATGTTTAATTAAGTTGGGCCTAACTAATTAAATTGTTTAATTAAATCACTGGGCC
* *
6517295 TAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTAATTAAATTAAACAATTAAGTTATT
66 TAATTAATTAAATTATTTAATTAAGTCATTAGGCCTAATTAATTAAATTAAACAATTAAGTTATT
6517360 GGACCTAA
131 GGACCTAA
** * * * *
6517368 TTGATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTTTTTAATTAAATTACTG
1 TTGATTAAAAATGTTTAATTAAG---TTGGGCCTAACTAATT-AAATTGTTTAATTAAATCACTG
* * * *
6517433 GGCTTAATTAATTAAATTATTTAATTAAGTTATTAGGCCTAATTGATTAAATTAAATAATTAAGT
62 GGCCTAATTAATTAAATTATTTAATTAAGTCATTAGGCCTAATTAATTAAATTAAACAATTAAGT
6517498 TA
127 TA
6517500 ATTGAGCTTC
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
138 21 0.18
141 13 0.11
142 80 0.70
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (138 bp):
TTGATTAAAAATGTTTAATTAAGTTGGGCCTAACTAATTAAATTGTTTAATTAAATCACTGGGCC
TAATTAATTAAATTATTTAATTAAGTCATTAGGCCTAATTAATTAAATTAAACAATTAAGTTATT
GGACCTAA
Found at i:6522531 original size:5 final size:5
Alignment explanation
Indices: 6522508--6522569 Score: 56
Period size: 5 Copynumber: 12.2 Consensus size: 5
6522498 ACGTTGTAAT
* * *
6522508 TAAAA TAAAA -AATAT TAAAA T-AAA TAATA TAATA TAAAA TAAAAA TTAAAA
1 TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA -TAAAA
6522559 TAAAA TAAAA T
1 TAAAA TAAAA T
6522570 NNNNNNNNNN
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
4 6 0.12
5 31 0.65
6 10 0.21
7 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (5 bp):
TAAAA
Found at i:6522534 original size:19 final size:19
Alignment explanation
Indices: 6522510--6522567 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
6522500 GTTGTAATTA
6522510 AAATAA-AAAATATTAAAAT
1 AAATAATAAAATA-TAAAAT
*
6522529 AAATAATATAATATAAAAT
1 AAATAATAAAATATAAAAT
*
6522548 AAA-AATTAAA-ATAAAAT
1 AAATAATAAAATATAAAAT
6522565 AAA
1 AAA
6522568 ATNNNNNNNN
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.29
18 5 0.14
19 15 0.43
20 5 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAATAAAATATAAAAT
Found at i:6522702 original size:27 final size:26
Alignment explanation
Indices: 6522656--6522715 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
6522646 NNNNNNNNNN
* *
6522656 AAAAAATTATATTAAAAAATAAAAAAT
1 AAAATATTATAATAAAAAAT-AAAAAT
*
6522683 AAAATATTATAATAAGAAATAAAAAT
1 AAAATATTATAATAAAAAATAAAAAT
6522709 AAAATAT
1 AAAATAT
6522716 ATGACATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAATATTATAATAAAAAATAAAAAT
Found at i:6522953 original size:15 final size:15
Alignment explanation
Indices: 6522933--6522976 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
6522923 TTATTTTCCC
*
6522933 TACAATCACATTGCT
1 TACAATCACATTACT
*
6522948 TACAATAACATTACT
1 TACAATCACATTACT
*
6522963 TGCAATCACATTAC
1 TACAATCACATTAC
6522977 ATTGTAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.32
Consensus pattern (15 bp):
TACAATCACATTACT
Found at i:6529103 original size:20 final size:23
Alignment explanation
Indices: 6529066--6529110 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
6529056 TATTTAACTA
6529066 TTTATATTTTATATATTAT-AGT
1 TTTATATTTTATATATTATAAGT
6529088 TTTATA-TTTA-ATATTATAAGT
1 TTTATATTTTATATATTATAAGT
6529109 TT
1 TT
6529111 AAATAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 9 0.41
22 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTATATTTTATATATTATAAGT
Found at i:6537218 original size:26 final size:25
Alignment explanation
Indices: 6537170--6537218 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
6537160 AAATTTATAA
*
6537170 AAAAATTACAAAAATAAACTAACCT
1 AAAAATTACAAAAACAAACTAACCT
6537195 AAAAATGTCACAAAAACAAA-TAAC
1 AAAAAT-T-ACAAAAACAAACTAAC
6537219 AATAAAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 5 0.24
27 10 0.48
ACGTcount: A:0.65, C:0.16, G:0.02, T:0.16
Consensus pattern (25 bp):
AAAAATTACAAAAACAAACTAACCT
Found at i:6537224 original size:27 final size:25
Alignment explanation
Indices: 6537170--6537225 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
6537160 AAATTTATAA
* *
6537170 AAAAATTACAAAAATAAACTAACCT
1 AAAAATTACAAAAACAAACTAACAT
6537195 AAAAATGTCACAAAAACAAA-TAACAAT
1 AAAAAT-T-ACAAAAACAAACTAAC-AT
6537222 AAAA
1 AAAA
6537226 CCCTCCAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 6 0.23
26 5 0.19
27 15 0.58
ACGTcount: A:0.68, C:0.14, G:0.02, T:0.16
Consensus pattern (25 bp):
AAAAATTACAAAAACAAACTAACAT
Found at i:6538093 original size:175 final size:175
Alignment explanation
Indices: 6537792--6538177 Score: 576
Period size: 175 Copynumber: 2.2 Consensus size: 175
6537782 TTGAGATTGT
* * * * * **
6537792 TGCTGGTATTTTGGTTATTCAAAGTGTTAATTCATGGCTGTTCTTTATATGTTGGGAATAATGTG
1 TGCTGGTATTTTGGCTGTTGAATGTGTTGATTCATGGCTGTTCTTTATATGTTGGGAATAATGCA
* * *
6537857 TTGATTCATGGTTGGATTGATTGATTGCTGGCATTTTGTATTAATTTTAGTTGTATATGTGATTC
66 TTGATTCATGGTTGGATTGATTGATTACTAGCATTTTGTATTAATTCTAGTTGTATATGTGATTC
* * *
6537922 ATTGTTGTTGGTTTTTTAATTGGGAATAATGTGTTGGTTCGTGGA
131 ATTGTTGCTGGTATTTTAATTGGGAATAATGTGTTGGTTCATGGA
* * * *
6537967 TGCTAGTATTTTGGCTGTTGAATGTGTTGATTCATGGTTGTTGTTTATATTTTGGGAATAATGCA
1 TGCTGGTATTTTGGCTGTTGAATGTGTTGATTCATGGCTGTTCTTTATATGTTGGGAATAATGCA
*
6538032 TTGATTCATGGTTGGATTGATTGATTACTAGCATTTTGTATTAATTCTAGTTGTTTATGTGATTC
66 TTGATTCATGGTTGGATTGATTGATTACTAGCATTTTGTATTAATTCTAGTTGTATATGTGATTC
6538097 ATTGTTGCTGGTATTTTAATTGGGAATAATGTGTTGGTTCATGGA
131 ATTGTTGCTGGTATTTTAATTGGGAATAATGTGTTGGTTCATGGA
* * *
6538142 AGCTGGTA-TTTAGCTGTTGAATATGTTGATTCATGG
1 TGCTGGTATTTTGGCTGTTGAATGTGTTGATTCATGG
6538178 GCATAAGTGA
Statistics
Matches: 189, Mismatches: 22, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
174 26 0.14
175 163 0.86
ACGTcount: A:0.21, C:0.06, G:0.25, T:0.48
Consensus pattern (175 bp):
TGCTGGTATTTTGGCTGTTGAATGTGTTGATTCATGGCTGTTCTTTATATGTTGGGAATAATGCA
TTGATTCATGGTTGGATTGATTGATTACTAGCATTTTGTATTAATTCTAGTTGTATATGTGATTC
ATTGTTGCTGGTATTTTAATTGGGAATAATGTGTTGGTTCATGGA
Found at i:6538966 original size:202 final size:199
Alignment explanation
Indices: 6538627--6538997 Score: 459
Period size: 202 Copynumber: 1.8 Consensus size: 199
6538617 ATTAATTAAA
*
6538627 TGTTTAGTAATTAAGCAATTAACTGAATTAGTAATATTATTTTATTTTAAAATATTTAAATAAAT
1 TGTTTAGTAATTAAGCAATTAACTAAATTAGTAATATTATTTTATTTTAAAATATTTAAATAAAT
* *
6538692 TAAGATGTTAATTAATGGGTTAATTAAATCATTTATTTAATTAAGTAATGTAATGTGTTTGAGTA
66 TAAGATGTT-ATTAATGAGTTAATTAAATCATTTATTTAATTAAGTAATGTAATATGTTTGAGTA
* * **
6538757 ATTAGTAATTAAGCAATTACTTAAATTTGTAATATTATAAATAAATAATTAAATTAATGAAATGA
130 ATTAGTAATTAAACAATTAATTAAATAAGTAATATTATAAATAAATAATTAAATTAATGAAATGA
6538822 AAAAG
195 AAAAG
* * *
6538827 TGTTTGAGTACTTAAGCAGTTAACTAAATTAGTAATATTA-TTTAGTTTTAAAAATGTTTAAATA
1 TGTTT-AGTAATTAAGCAATTAACTAAATTAGTAATATTATTTTA-TTTT-AAAATATTTAAATA
* * * *
6538891 AATTAAGGTG-T-TTAGTGAGTT-ATTGTAATCATTTATTTAAGGTTTAGGGTTTAATGTAATAT
63 AATTAAGATGTTATTAATGAGTTAATT-AAATCATTTATTTAA---TTA-AG--TAATGTAATAT
*
6538953 G-TT-A-TAATTAGTAATTAAATAATTAATTAAATAAGTAATATTATA
121 GTTTGAGTAATTAGTAATTAAACAATTAATTAAATAAGTAATATTATA
6538998 TAACATTAAA
Statistics
Matches: 146, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
198 3 0.02
199 22 0.15
200 9 0.06
201 36 0.25
202 61 0.42
203 2 0.01
204 2 0.01
205 11 0.08
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.43
Consensus pattern (199 bp):
TGTTTAGTAATTAAGCAATTAACTAAATTAGTAATATTATTTTATTTTAAAATATTTAAATAAAT
TAAGATGTTATTAATGAGTTAATTAAATCATTTATTTAATTAAGTAATGTAATATGTTTGAGTAA
TTAGTAATTAAACAATTAATTAAATAAGTAATATTATAAATAAATAATTAAATTAATGAAATGAA
AAAG
Found at i:6538981 original size:12 final size:12
Alignment explanation
Indices: 6538962--6538991 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6538952 TGTTATAATT
6538962 AGTAATTAAATA
1 AGTAATTAAATA
*
6538974 ATTAATTAAATA
1 AGTAATTAAATA
6538986 AGTAAT
1 AGTAAT
6538992 ATTATATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AGTAATTAAATA
Found at i:6540776 original size:55 final size:55
Alignment explanation
Indices: 6540712--6540816 Score: 174
Period size: 55 Copynumber: 1.9 Consensus size: 55
6540702 TAGTTACACC
* *
6540712 AATATCACATGAGAATATATTTCATAAACACTTAAGTGAAATACCAAATGGAACG
1 AATATCACATGAGAACATATTCCATAAACACTTAAGTGAAATACCAAATGGAACG
* *
6540767 AATATCACATGAGAACATATTCCATAAACATTTAAGTGAAGTACCAAATG
1 AATATCACATGAGAACATATTCCATAAACACTTAAGTGAAATACCAAATG
6540817 AAGTTCTCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (55 bp):
AATATCACATGAGAACATATTCCATAAACACTTAAGTGAAATACCAAATGGAACG
Found at i:6550748 original size:2 final size:2
Alignment explanation
Indices: 6550736--6550770 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
6550726 CGCATTTCAC
6550736 AT AT AT CAT 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
6550771 TGAAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6551824 original size:184 final size:179
Alignment explanation
Indices: 6551515--6551877 Score: 602
Period size: 184 Copynumber: 2.0 Consensus size: 179
6551505 ATTTTAATTT
* *
6551515 CTAACATTAAGAACATGGATTAGTTTCCTAAATTGTATCTTGTTTATGTTACCTAAATGGTGACT
1 CTAACATTAAGAACATGGATTAGTTTCCTAAATTGTATCTTGTTTAAGTTACCTAAATGGTGAAT
* *
6551580 TAACAAATTTTGGAAACTTCTAGTCAAACCAAAATTTTAAGGAAAGTTCAATGCTATCACATAAT
66 TAACAAATTTTGGAAACTTCTAGTCAAACCAAAATTTTAAGAAAAGTTCAATGCTATCACATAAC
* *
6551645 TTTAGGGATTTCTTTTA-ATGTAAGAAACTATTTCCTATGAATTTCCCAAATTAA
131 TTTAGGAATTTCTTTTATA-GT-AG----GATTTCCTATGAATTTCCCAAATTAA
*
6551699 CTAACATTTAGAACATGGATTAGTTTCCTAAATTGTATCTTGTTTAAGTTACCTAAATGGTGAAT
1 CTAACATTAAGAACATGGATTAGTTTCCTAAATTGTATCTTGTTTAAGTTACCTAAATGGTGAAT
6551764 TAACAAATTTTGGAAACTTCTAGTCAAACCAAAATTTTAAGAAAAGTTCAATGCTATCACATAAC
66 TAACAAATTTTGGAAACTTCTAGTCAAACCAAAATTTTAAGAAAAGTTCAATGCTATCACATAAC
6551829 TTTAGGAATTTCTTTTATAGTAGGATTTCCTATGAATTTCCCAAATTAA
131 TTTAGGAATTTCTTTTATAGTAGGATTTCCTATGAATTTCCCAAATTAA
6551878 AATACTATCC
Statistics
Matches: 171, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
179 25 0.15
183 2 0.01
184 143 0.84
185 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (179 bp):
CTAACATTAAGAACATGGATTAGTTTCCTAAATTGTATCTTGTTTAAGTTACCTAAATGGTGAAT
TAACAAATTTTGGAAACTTCTAGTCAAACCAAAATTTTAAGAAAAGTTCAATGCTATCACATAAC
TTTAGGAATTTCTTTTATAGTAGGATTTCCTATGAATTTCCCAAATTAA
Found at i:6551968 original size:77 final size:77
Alignment explanation
Indices: 6551871--6552031 Score: 250
Period size: 77 Copynumber: 2.1 Consensus size: 77
6551861 TGAATTTCCC
* *
6551871 AAATTAAAATACTATCCTTAATTTGAAGAATTTCTTTTAAAGTAGGAAACAATTTTCTATTCTTT
1 AAATTAAAATACTATCCTTAATTTGAAGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTCTTT
6551936 ATGAATCACCCA
66 ATGAATCACCCA
* * * *
6551948 AAATTAAAATTCTATTCTTAATTTTAGGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTCTTT
1 AAATTAAAATACTATCCTTAATTTGAAGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTCTTT
* *
6552013 ATGAATGACTCA
66 ATGAATCACCCA
6552025 AAATTAA
1 AAATTAA
6552032 GATAGATAGC
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (77 bp):
AAATTAAAATACTATCCTTAATTTGAAGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTCTTT
ATGAATCACCCA
Found at i:6560315 original size:30 final size:30
Alignment explanation
Indices: 6560281--6560365 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
6560271 ATGAGAGTTT
*
6560281 TATCTAAGCCTTGAAAAGATAGAGATG-GTC
1 TATCTAAGCATTGAAAAGATAGAGA-GAGTC
* *
6560311 TATCTAAGCATTGAAATGATAGAGAGATTC
1 TATCTAAGCATTGAAAAGATAGAGAGAGTC
* * *
6560341 TGTCTAAGCTTTTAAAAGATAGAGA
1 TATCTAAGCATTGAAAAGATAGAGA
6560366 AGTTATACCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 1 0.02
30 46 0.98
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (30 bp):
TATCTAAGCATTGAAAAGATAGAGAGAGTC
Found at i:6574554 original size:2 final size:2
Alignment explanation
Indices: 6574547--6574576 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6574537 CATCATGTTG
6574547 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
6574577 GAATAATGTT
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:6574660 original size:42 final size:42
Alignment explanation
Indices: 6574599--6574724 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
6574589 GTAATGATAT
* * * *
6574599 TGACCCGGCTATGTGCGAGTAGAAGTGCGCATAAGTCGTTGC
1 TGACCTGGCTATGTACGAGTAGGAGTGCGCATAAGACGTTGC
*
6574641 TGACCTGGCTATGTACGAGTGGGAGTGCGCATAA-ACAGTTGC
1 TGACCTGGCTATGTACGAGTAGGAGTGCGCATAAGAC-GTTGC
* * *
6574683 TGACCTGACTATGTTCGAGTAGGAGTGCGCATAAGCCGTTGC
1 TGACCTGGCTATGTACGAGTAGGAGTGCGCATAAGACGTTGC
6574725 ATATGAGCTG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 71 0.97
43 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.25
Consensus pattern (42 bp):
TGACCTGGCTATGTACGAGTAGGAGTGCGCATAAGACGTTGC
Found at i:6574775 original size:2 final size:2
Alignment explanation
Indices: 6574768--6574798 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6574758 ATGATTGATG
6574768 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
6574799 TTGGTATATG
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:6587300 original size:16 final size:18
Alignment explanation
Indices: 6587281--6587315 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
6587271 CCTCTCTTTT
6587281 TTTTAATA-AA-AAAATA
1 TTTTAATAGAAGAAAATA
6587297 TTTTAATAGAAGAAAATA
1 TTTTAATAGAAGAAAATA
6587315 T
1 T
6587316 ATTTTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
TTTTAATAGAAGAAAATA
Found at i:6587312 original size:19 final size:19
Alignment explanation
Indices: 6587290--6587359 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
6587280 TTTTTAATAA
*
6587290 AAAAATATTTTAATAGAAG
1 AAAAATATTTTAATAAAAG
* * *
6587309 AAAATATATTTTATTATAAT
1 AAAA-ATATTTTAATAAAAG
*
6587329 AACAGA-ATTTTAATAAAAG
1 AA-AAATATTTTAATAAAAG
6587348 AAAAATGATTTT
1 AAAAAT-ATTTT
6587360 TCTTTAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.05
19 16 0.41
20 20 0.51
21 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (19 bp):
AAAAATATTTTAATAAAAG
Found at i:6588645 original size:29 final size:28
Alignment explanation
Indices: 6588613--6588753 Score: 165
Period size: 29 Copynumber: 4.9 Consensus size: 28
6588603 AAATATTTGA
* * *
6588613 TCTTGTCTAAATTTGAGACAAATATGTAT
1 TCTTGTCTAAA-TTAAGACAAACATGTTT
* * *
6588642 TCTTGTCTAGATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC-AAACAT-GTTT
*
6588672 TCTTGTCTTAAATTAAGACAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
*
6588701 TCTTATCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
6588730 TCTTGTCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAACAT
6588754 ATTAAAGCTA
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
28 23 0.24
29 50 0.52
30 14 0.14
31 10 0.10
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:6588693 original size:59 final size:58
Alignment explanation
Indices: 6588591--6588755 Score: 206
Period size: 59 Copynumber: 2.8 Consensus size: 58
6588581 TCTTGTTGGT
* * * * *
6588591 AATTAAGACAAAAAATATTTGATCTTGTCTAAATTTGAGACAAATATGTATTCTTGTCTA
1 AATTAAGACAAAAAATATTT-TTCTTGTCTAAA-TTAAGACAAACATATATTCTTATCTA
* *
6588651 GATTAAGACAAAAAATATTTTTCTTGTCTTAAATTAAGACAAACATATTTTCTTATCTA
1 AATTAAGACAAAAAATATTTTTCTTGTC-TAAATTAAGACAAACATATATTCTTATCTA
* * *
6588710 AATTAAGACCAAACAT-GTTTTCTTGTCTAAATTAAGACAAACATAT
1 AATTAAGACAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATAT
6588756 TAAAGCTACC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
57 19 0.20
58 10 0.11
59 41 0.44
60 23 0.25
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (58 bp):
AATTAAGACAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATATATTCTTATCTA
Found at i:6602055 original size:38 final size:40
Alignment explanation
Indices: 6602012--6602117 Score: 135
Period size: 38 Copynumber: 2.7 Consensus size: 40
6602002 ATAGTGCCCG
*
6602012 TGTGCACGATGTAGGGGGATGTACATGATGGCACT-GAT-
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACTGGATA
* * *** *
6602050 TGTGCACGATGTGGGGGGATGCACACGATGGTGTTGGTTA
1 TGTGCACGATGTGGGGGGATGTACATGATGGCACTGGATA
6602090 TGTGCACGATGTGGGGGGATGTACATGA
1 TGTGCACGATGTGGGGGGATGTACATGA
6602118 GCCGGGTGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 29 0.51
39 2 0.04
40 26 0.46
ACGTcount: A:0.21, C:0.12, G:0.41, T:0.26
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCACTGGATA
Found at i:6610317 original size:52 final size:52
Alignment explanation
Indices: 6610251--6610407 Score: 278
Period size: 52 Copynumber: 3.0 Consensus size: 52
6610241 GCACATGACG
6610251 GTGATAATGGTGTGTTGTGTGAGTGCACACACTAATGATATATGCCATGTGC
1 GTGATAATGGTGTGTTGTGTGAGTGCACACACTAATGATATATGCCATGTGC
* *
6610303 GTGATAATGATGTGTTGTGTGAGAGCACACACTAATGATATATGCCATGTGC
1 GTGATAATGGTGTGTTGTGTGAGTGCACACACTAATGATATATGCCATGTGC
* *
6610355 GTGATAGTGGTGTGCTGTGTGAGTGCACACACTAATGATATATGCCATGTGC
1 GTGATAATGGTGTGTTGTGTGAGTGCACACACTAATGATATATGCCATGTGC
6610407 G
1 G
6610408 ATGTGGGAGT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 99 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (52 bp):
GTGATAATGGTGTGTTGTGTGAGTGCACACACTAATGATATATGCCATGTGC
Found at i:6610452 original size:35 final size:36
Alignment explanation
Indices: 6610389--6610464 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
6610379 GCACACACTA
* *
6610389 ATGATATATGCCATGTGCGATGTGGGAGTGCACATG
1 ATGATATATGCCATATGCGATGTGGGAGTGCACAAG
* *
6610425 ATGATAT-TGCCTTATGCGGTGTGGGAGTGCACAAG
1 ATGATATATGCCATATGCGATGTGGGAGTGCACAAG
6610460 ATGAT
1 ATGAT
6610465 TCTAGCTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 29 0.81
36 7 0.19
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.29
Consensus pattern (36 bp):
ATGATATATGCCATATGCGATGTGGGAGTGCACAAG
Found at i:6612255 original size:21 final size:21
Alignment explanation
Indices: 6612229--6612270 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6612219 GGCAGCAAGT
6612229 TTCTCGCTGCAGCGAAATTCA
1 TTCTCGCTGCAGCGAAATTCA
*
6612250 TTCTCGCTGCAGCGAGATTCA
1 TTCTCGCTGCAGCGAAATTCA
6612271 AGCGGCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (21 bp):
TTCTCGCTGCAGCGAAATTCA
Found at i:6612847 original size:40 final size:39
Alignment explanation
Indices: 6612800--6612905 Score: 151
Period size: 38 Copynumber: 2.7 Consensus size: 39
6612790 CACACCCGGT
* *
6612800 TCATGTGCATCCCCCCACATCGTGCACATAACCGGTGCCA
1 TCATGTGCATCCCCCCACATCGTGCACA-AACCAGAGCCA
* *
6612840 TCGTGTGCATCCCCCCACATCGTGCAC-AATCAGAGCCA
1 TCATGTGCATCCCCCCACATCGTGCACAAACCAGAGCCA
*
6612878 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
6612906 CGAGCACTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 33 0.56
40 26 0.44
ACGTcount: A:0.24, C:0.41, G:0.16, T:0.20
Consensus pattern (39 bp):
TCATGTGCATCCCCCCACATCGTGCACAAACCAGAGCCA
Found at i:6613663 original size:42 final size:42
Alignment explanation
Indices: 6613604--6613696 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
6613594 ACCTCCAAAT
6613604 AGTGAGAGAAAGTGTTGAATAAGAACTTTTTGAGGGTTTTAA
1 AGTGAGAGAAAGTGTTGAATAAGAACTTTTTGAGGGTTTTAA
*
6613646 AGTGAGAGAAAGTGTTGAATAAGGACTTTTTGAGGGTTTTAA
1 AGTGAGAGAAAGTGTTGAATAAGAACTTTTTGAGGGTTTTAA
6613688 AGTGAGAGA
1 AGTGAGAGA
6613697 GTGAAAGAGC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.35, C:0.02, G:0.31, T:0.31
Consensus pattern (42 bp):
AGTGAGAGAAAGTGTTGAATAAGAACTTTTTGAGGGTTTTAA
Found at i:6619686 original size:21 final size:21
Alignment explanation
Indices: 6619636--6619675 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6619626 ATTGAATTAA
*
6619636 AATACAATTGTTGTACCTAGG
1 AATACAACTGTTGTACCTAGG
6619657 AATACAACTGTTGTACCTA
1 AATACAACTGTTGTACCTA
6619676 TGGTTACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
AATACAACTGTTGTACCTAGG
Found at i:6626768 original size:28 final size:31
Alignment explanation
Indices: 6626727--6626790 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 31
6626717 GTCTATGGGC
6626727 AATTTTTCAATTTT-T-GGGGCAAAAATG-T
1 AATTTTTCAATTTTATAGGGGCAAAAATGTT
* * *
6626755 AATTTTTGACTTTTATAGGGGCAAAAGTGTT
1 AATTTTTCAATTTTATAGGGGCAAAAATGTT
6626786 AATTT
1 AATTT
6626791 CAAAAATTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 12 0.40
29 1 0.03
30 11 0.37
31 6 0.20
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (31 bp):
AATTTTTCAATTTTATAGGGGCAAAAATGTT
Found at i:6635829 original size:35 final size:36
Alignment explanation
Indices: 6635754--6635853 Score: 114
Period size: 36 Copynumber: 2.7 Consensus size: 36
6635744 TTAAAGGAGT
*
6635754 AAAGAGAGAGGCTTTGTGCTGCAAAATTTTGAGAGC-AAA
1 AAAGAGAGA-G-TTT-TGCTGC-AAATTTTGAAAGCAAAA
*
6635793 AAAGAGAGAGTTTTGCTGCAAATTTTGAAAGGAAAA
1 AAAGAGAGAGTTTTGCTGCAAATTTTGAAAGCAAAA
*
6635829 AAAGAAAGAGTTTTGCT-CAGAATTT
1 AAAGAGAGAGTTTTGCTGCA-AATTT
6635854 GAGAGAGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
35 13 0.23
36 30 0.54
37 3 0.05
38 1 0.02
39 9 0.16
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (36 bp):
AAAGAGAGAGTTTTGCTGCAAATTTTGAAAGCAAAA
Found at i:6635830 original size:36 final size:35
Alignment explanation
Indices: 6635754--6635870 Score: 112
Period size: 36 Copynumber: 3.2 Consensus size: 35
6635744 TTAAAGGAGT
* *
6635754 AAAGAGAGAGGCTTTGTGCTGCAAAATTTTGAGAGCAAA
1 AAAGAGAGA-G-TTT-TGCTGC-AAATTTTGAAAGAAAA
6635793 AAAGAGAGAGTTTTGCTGCAAATTTTGAAAGGAAAA
1 AAAGAGAGAGTTTTGCTGCAAATTTTGAAA-GAAAA
* * *
6635829 AAAGAAAGAGTTTTGCT-CAGAA-TTTGAGAGAGAA
1 AAAGAGAGAGTTTTGCTGCA-AATTTTGAAAGAAAA
*
6635863 AATGAGAG
1 AAAGAGAG
6635871 CTGGTGCTGT
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
34 10 0.14
35 18 0.26
36 28 0.41
37 3 0.04
38 1 0.01
39 9 0.13
ACGTcount: A:0.43, C:0.07, G:0.27, T:0.23
Consensus pattern (35 bp):
AAAGAGAGAGTTTTGCTGCAAATTTTGAAAGAAAA
Found at i:6636036 original size:15 final size:15
Alignment explanation
Indices: 6636018--6636050 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
6636008 GGGAAGAAAG
6636018 AAAGAAAAGAAA-AAA
1 AAAGAAAA-AAATAAA
6636033 AAAGAAAAAAATAAA
1 AAAGAAAAAAATAAA
6636048 AAA
1 AAA
6636051 TAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAATAAA
Found at i:6636945 original size:42 final size:42
Alignment explanation
Indices: 6636893--6637036 Score: 182
Period size: 42 Copynumber: 3.4 Consensus size: 42
6636883 ATATTGACTC
* * *
6636893 GGCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGTTGACCC
1 GGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGCTGACCT
* **
6636935 AGCTATGTGCGAGGGGGAGTGCGCATAAGCCGATGCTGACCT
1 GGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGCTGACCT
* * * *
6636977 GGCTATGTGAGAAG-GGGAGTGCACATAAGCCGATGCTGACTT
1 GGCTATGTGCG-AGTAGGAGTGCGCATAAGCCGATGCTGACCT
6637019 GGCTATGTGCGAGTAGGA
1 GGCTATGTGCGAGTAGGA
6637037 NTAGTGGGAG
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.02
42 84 0.95
43 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.22
Consensus pattern (42 bp):
GGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGCTGACCT
Found at i:6637095 original size:2 final size:2
Alignment explanation
Indices: 6637090--6637130 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
6637080 ATGGTGATGG
*
6637090 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6637131 GCTATGTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6640211 original size:42 final size:42
Alignment explanation
Indices: 6640156--6640271 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 42
6640146 TGTTGATGTG
*
6640156 GACCCAGCTATGTGCGAGTAGGAGTGTACATAAGCCAATGAT
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCAATGAT
* *
6640198 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCAATGAT
1 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCAATGAT
* * * *
6640240 GACCCAACCATGTGCTAGTGGGGAGTGCACAT
1 GACCCAGCTATGTGCGAGT-AGGAGTGCACAT
6640272 GAGTTGATGA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
42 54 0.82
43 12 0.18
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.20
Consensus pattern (42 bp):
GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCAATGAT
Found at i:6647682 original size:28 final size:28
Alignment explanation
Indices: 6647619--6647794 Score: 165
Period size: 28 Copynumber: 6.0 Consensus size: 28
6647609 TTTAAGACAA
*
6647619 TTCTTGTCTTTAATTAAGACAAAAATAT-TT
1 TTCTTGTC-TAAATTAAGAC--AAATATGTT
*
6647649 TATCTTGTCTAAATTGAGACAAATATGTT
1 T-TCTTGTCTAAATTAAGACAAATATGTT
* * *
6647678 TTCTTGTCTAGATTAAGTCAAAATATATTT
1 TTCTTGTCTAAATTAAGAC-AAATAT-GTT
* * *
6647708 TTCTTATCTTAAAATTAAGACAAACATATT
1 TTCTTGTC-T-AAATTAAGACAAATATGTT
* *
6647738 TTCTTGTCTAAATTAAGATCAAACATGAT
1 TTCTTGTCTAAATTAAGA-CAAATATGTT
*
6647767 TTCTTGTCTAAATTAAGACAAAGATGTT
1 TTCTTGTCTAAATTAAGACAAATATGTT
6647795 AAAGTTGTCA
Statistics
Matches: 123, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
28 38 0.31
29 36 0.29
30 28 0.23
31 13 0.11
32 8 0.07
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (28 bp):
TTCTTGTCTAAATTAAGACAAATATGTT
Found at i:6647740 original size:60 final size:58
Alignment explanation
Indices: 6647619--6647788 Score: 177
Period size: 60 Copynumber: 2.9 Consensus size: 58
6647609 TTTAAGACAA
* * * * * *
6647619 TTCTTGTCTTTAATTAAGACAAAAATATTTTATCTTGTCTAAATTGAGACAAATATGTT
1 TTCTTGTC-TAAATTAAGTCAAAAATATTTTATCTTATCTAAATTAAGACAAACATATT
*
6647678 TTCTTGTCTAGATTAAGTCAAAATATATTTT-TCTTATCTTAAAATTAAGACAAACATATT
1 TTCTTGTCTAAATTAAGTCAAAA-ATATTTTATCTTATC-T-AAATTAAGACAAACATATT
* *
6647738 TTCTTGTCTAAATTAAGATCAAACATGA--TT-TCTTGTCTAAATTAAGACAAA
1 TTCTTGTCTAAATTAAG-TCAAAAAT-ATTTTATCTTATCTAAATTAAGACAAA
6647789 GATGTTAAAG
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
57 13 0.14
58 19 0.20
59 24 0.25
60 34 0.35
61 6 0.06
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (58 bp):
TTCTTGTCTAAATTAAGTCAAAAATATTTTATCTTATCTAAATTAAGACAAACATATT
Found at i:6647760 original size:29 final size:28
Alignment explanation
Indices: 6647619--6647788 Score: 171
Period size: 29 Copynumber: 5.8 Consensus size: 28
6647609 TTTAAGACAA
* *
6647619 TTCTTGTCTTTAATTAAGACAAAAATATTT
1 TTCTTGTC-TAAATTAAGACAAACATA-TT
* * *
6647649 TATCTTGTCTAAATTGAGACAAATATGTT
1 T-TCTTGTCTAAATTAAGACAAACATATT
* * *
6647678 TTCTTGTCTAGATTAAGTCAAAATATATTT
1 TTCTTGTCTAAATTAAGAC-AAACATA-TT
*
6647708 TTCTTATCTTAAAATTAAGACAAACATATT
1 TTCTTGTC-T-AAATTAAGACAAACATATT
6647738 TTCTTGTCTAAATTAAGATCAAACATGA-T
1 TTCTTGTCTAAATTAAGA-CAAACAT-ATT
6647767 TTCTTGTCTAAATTAAGACAAA
1 TTCTTGTCTAAATTAAGACAAA
6647789 GATGTTAAAG
Statistics
Matches: 120, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
28 28 0.23
29 36 0.30
30 34 0.28
31 14 0.12
32 8 0.07
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (28 bp):
TTCTTGTCTAAATTAAGACAAACATATT
Found at i:6658968 original size:29 final size:28
Alignment explanation
Indices: 6658864--6659150 Score: 286
Period size: 28 Copynumber: 9.9 Consensus size: 28
6658854 CAACTTTAAG
*
6658864 ATGTTTGTCTTAATTAAGACAAGAAAAC
1 ATGTTTGTCTTAATTTAGACAAGAAAAC
*
6658892 ATGTTTGTCTTAATTTAGATAAGAAAAC
1 ATGTTTGTCTTAATTTAGACAAGAAAAC
* *
6658920 ATGTTTCTCTTAATTTAGACAAGAAATC
1 ATGTTTGTCTTAATTTAGACAAGAAAAC
*
6658948 ATGTTTGGTCTTAATTTAGACAAGAAAAT
1 ATGTTT-GTCTTAATTTAGACAAGAAAAC
* * *
6658977 ATATTTGTCTAAATTTAAGACAAGAAAAATA
1 ATGTTTGTCTTAATTT-AGACAAG-AAAA-C
* *
6659008 ATTTTTTGTCTTAATATAGACAAGAAAAC
1 A-TGTTTGTCTTAATTTAGACAAGAAAAC
* * * *
6659037 ATATTTGTCTCAATTTAAACAAGATAAAAT
1 ATGTTTGTCTTAATTTAGACAAG--AAAAC
* *
6659067 ATTTTTGGTCTTAATCTAGACAAGAAAAC
1 ATGTTT-GTCTTAATTTAGACAAGAAAAC
** *
6659096 AAATTTGTCTTAATTTAGACAAGATAAAAT
1 ATGTTTGTCTTAATTTAGACAAG--AAAAC
* *
6659126 ATTTTTGTCTTAATTAAAGACAAGA
1 ATGTTTGTCTTAATT-TAGACAAGA
6659151 GTTATCTTAA
Statistics
Matches: 216, Mismatches: 32, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
28 100 0.46
29 41 0.19
30 34 0.16
31 29 0.13
32 12 0.06
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (28 bp):
ATGTTTGTCTTAATTTAGACAAGAAAAC
Found at i:6659088 original size:59 final size:59
Alignment explanation
Indices: 6658867--6659150 Score: 307
Period size: 59 Copynumber: 4.9 Consensus size: 59
6658857 CTTTAAGATG
* * * *
6658867 TTTGTCTTAA-TTAAGACAAG-AAAA-CATGTTT-GTCTTAATTTAGATAAGAAAACATG
1 TTTGTCTTAATTTAA-ACAAGAAAAATAATTTTTGGTCTTAATTTAGACAAGAAAACATA
* * * * *
6658923 TTTCTCTTAATTTAGACAAG--AAATCATGTTTGGTCTTAATTTAGACAAGAAAATATA
1 TTTGTCTTAATTTAAACAAGAAAAATAATTTTTGGTCTTAATTTAGACAAGAAAACATA
* * *
6658980 TTTGTCTAAATTTAAGACAAGAAAAATAATTTTTTGTCTTAATATAGACAAGAAAACATA
1 TTTGTCTTAATTTAA-ACAAGAAAAATAATTTTTGGTCTTAATTTAGACAAGAAAACATA
* * *
6659040 TTTGTCTCAATTTAAACAAGATAAAAT-ATTTTTGGTCTTAATCTAGACAAGAAAACAAA
1 TTTGTCTTAATTTAAACAAGA-AAAATAATTTTTGGTCTTAATTTAGACAAGAAAACATA
* *
6659099 TTTGTCTTAATTTAGACAAGATAAAAT-ATTTTT-GTCTTAATTAAAGACAAGA
1 TTTGTCTTAATTTAAACAAGA-AAAATAATTTTTGGTCTTAATT-TAGACAAGA
6659151 GTTATCTTAA
Statistics
Matches: 199, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
55 3 0.02
56 21 0.11
57 37 0.19
58 13 0.07
59 74 0.37
60 51 0.26
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37
Consensus pattern (59 bp):
TTTGTCTTAATTTAAACAAGAAAAATAATTTTTGGTCTTAATTTAGACAAGAAAACATA
Found at i:6661221 original size:37 final size:37
Alignment explanation
Indices: 6661180--6661265 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 37
6661170 ATAATGTTGT
*
6661180 ATGATGATG-TTGAAGTGTGCAAGTAGGGAGTGCACAC
1 ATGATGATGATAG-AGTGTGCAAGTAGGGAGTGCACAC
*
6661217 ATGATGATGATAGAGTGTGCGAGTAGGGAGTGCACAC
1 ATGATGATGATAGAGTGTGCAAGTAGGGAGTGCACAC
*
6661254 ATAATGATGATA
1 ATGATGATGATA
6661266 TTGCATTGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 43 0.96
38 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.34, T:0.24
Consensus pattern (37 bp):
ATGATGATGATAGAGTGTGCAAGTAGGGAGTGCACAC
Found at i:6665692 original size:18 final size:19
Alignment explanation
Indices: 6665669--6665705 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
6665659 GTATAAGATC
6665669 TTCATG-TC-CATAACTCAT
1 TTCATGATCACATAA-TCAT
6665687 TTCATGATCACATAATCAT
1 TTCATGATCACATAATCAT
6665706 GCTCATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.38
Consensus pattern (19 bp):
TTCATGATCACATAATCAT
Found at i:6665961 original size:21 final size:19
Alignment explanation
Indices: 6665925--6665965 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
6665915 ACATGTTGAG
6665925 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
6665944 TAGTTAAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
6665965 T
1 T
6665966 GCTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:6668053 original size:72 final size:73
Alignment explanation
Indices: 6667931--6668124 Score: 229
Period size: 73 Copynumber: 2.7 Consensus size: 73
6667921 TGAGAAACAA
*
6667931 AACCAACTTAGTCAACCAAG--ATGAAAGTTAGTCGACTAAGAAGCT-ACTGCCAAAATCTA-GA
1 AACCAACTTAGTCAACCAAGAAATG--AGTTAGTCGACTAAG-AGCTCTCTGCCAAAATCTATGA
**
6667992 CTTCAAGACAG
63 CCACAAGACAG
* *
6668003 AACCAACTTAGTCGACCAAGAAATGAGTTAGTCGACTAA-ATGCTCTCTGCCAGAATCTATGACC
1 AACCAACTTAGTCAACCAAGAAATGAGTTAGTCGACTAAGA-GCTCTCTGCCAAAATCTATGACC
*
6668067 AGAAGACAG
65 ACAAGACAG
* *
6668076 AACCAACTTAGTCAACCAAGAAGA-AAGTTAGTCAACTAAGAGCTCTCTG
1 AACCAACTTAGTCAACCAAGAA-ATGAGTTAGTCGACTAAGAGCTCTCTG
6668125 TCTACAATTT
Statistics
Matches: 106, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
70 1 0.01
71 3 0.03
72 45 0.42
73 52 0.49
74 5 0.05
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.20
Consensus pattern (73 bp):
AACCAACTTAGTCAACCAAGAAATGAGTTAGTCGACTAAGAGCTCTCTGCCAAAATCTATGACCA
CAAGACAG
Found at i:6671079 original size:13 final size:13
Alignment explanation
Indices: 6671061--6671085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6671051 TTCCAGAAAA
6671061 TTTATAAAATCAT
1 TTTATAAAATCAT
6671074 TTTATAAAATCA
1 TTTATAAAATCA
6671086 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:6681956 original size:17 final size:17
Alignment explanation
Indices: 6681931--6681967 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6681921 AGCAAAATAT
6681931 GCACACACTAAGGGGGA
1 GCACACACTAAGGGGGA
* *
6681948 GCACTCACTTAGGGGGA
1 GCACACACTAAGGGGGA
6681965 GCA
1 GCA
6681968 ATCCTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.24, G:0.35, T:0.11
Consensus pattern (17 bp):
GCACACACTAAGGGGGA
Found at i:6682493 original size:72 final size:72
Alignment explanation
Indices: 6682304--6682504 Score: 207
Period size: 72 Copynumber: 2.8 Consensus size: 72
6682294 AAGAATATTG
* * * *
6682304 AGAA-ACAGAACCAACTTAGTCGACCAAGATGAGAGTTAGTCGACTAAGAAGCTAT-TGCCAAAA
1 AGAAGACAAAACCAACTTAGTCGACCAAGAAGAGAGTTAGTCGACTAAG-AGCTCTCTACCAAAA
*
6682367 TCTAGACT
65 TCTAGACC
** * *
6682375 TCAAGACAAAACTAACTTAGTCAACCAAGAA-ATGAGTTCA-TCGACTAA-ATGCTCTCTACCAA
1 AGAAGACAAAACCAACTTAGTCGACCAAGAAGA-GAGTT-AGTCGACTAAGA-GCTCTCTACCAA
*
6682437 AATCTGTGACC
63 AATCT-AGACC
* *
6682448 AGAAGACAAAACCAACTTAGTCGACGAAGAAGAAAGTT-GTCGACTAAGAGCTCTCTA
1 AGAAGACAAAACCAACTTAGTCGACCAAGAAGAGAGTTAGTCGACTAAGAGCTCTCTA
6682505 TCTGCAATTT
Statistics
Matches: 105, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
70 1 0.01
71 7 0.07
72 61 0.58
73 35 0.33
74 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (72 bp):
AGAAGACAAAACCAACTTAGTCGACCAAGAAGAGAGTTAGTCGACTAAGAGCTCTCTACCAAAAT
CTAGACC
Found at i:6688048 original size:16 final size:16
Alignment explanation
Indices: 6688027--6688061 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
6688017 TTTGTTCTTG
6688027 ATTTCCATGGTTGAAT
1 ATTTCCATGGTTGAAT
6688043 ATTTCCATGGTTGAAT
1 ATTTCCATGGTTGAAT
6688059 ATT
1 ATT
6688062 GAGTTATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (16 bp):
ATTTCCATGGTTGAAT
Found at i:6688977 original size:42 final size:42
Alignment explanation
Indices: 6688911--6689010 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
6688901 TGTTGATTTG
*
6688911 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
6688953 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
6688995 GACCCGGCTATATGCG
1 GACCCGGCTATGTGCG
6689011 CATAAGCCGT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.22
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:6693341 original size:20 final size:21
Alignment explanation
Indices: 6693303--6693343 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6693293 TCAAGAGGTC
6693303 TTGATGAAAAGTATCGATACT
1 TTGATGAAAAGTATCGATACT
* *
6693324 TTGAT-AAAGGTATTGATACT
1 TTGATGAAAAGTATCGATACT
6693344 ATTTTGGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (21 bp):
TTGATGAAAAGTATCGATACT
Found at i:6693645 original size:34 final size:35
Alignment explanation
Indices: 6693607--6693677 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
6693597 CTCAAATCAC
6693607 TAGCTCACTTAAAGA-TTTTCTTAATTTACTTTCT
1 TAGCTCACTTAAAGATTTTTCTTAATTTACTTTCT
* * *
6693641 TAGCTTACTTAAGGATTTTTTTTAATTTACTTTCT
1 TAGCTCACTTAAAGATTTTTCTTAATTTACTTTCT
6693676 TA
1 TA
6693678 TGTAAGTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 13 0.39
35 20 0.61
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (35 bp):
TAGCTCACTTAAAGATTTTTCTTAATTTACTTTCT
Found at i:6701923 original size:13 final size:13
Alignment explanation
Indices: 6701905--6701929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6701895 TTACAAAAAA
6701905 TTATAAAATCATT
1 TTATAAAATCATT
6701918 TTATAAAATCAT
1 TTATAAAATCAT
6701930 AATTTCTCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTATAAAATCATT
Found at i:6705325 original size:15 final size:15
Alignment explanation
Indices: 6705305--6705349 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
6705295 TTCTTAAAAC
6705305 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
6705320 AACTTTAAAAACC-AA
1 AACTTT-AAAACCAAA
*
6705335 AGCTTTAAAACCAAA
1 AACTTTAAAACCAAA
6705350 TTCTTTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 6 0.22
15 15 0.56
16 6 0.22
ACGTcount: A:0.58, C:0.20, G:0.02, T:0.20
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:6713392 original size:21 final size:20
Alignment explanation
Indices: 6713367--6713405 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
6713357 TTGAATTAGA
*
6713367 GAAAAGATTTTGTTCAAAAAG
1 GAAAAGAGTTT-TTCAAAAAG
*
6713388 GAAAATAGTTTTTCAAAA
1 GAAAAGAGTTTTTCAAAA
6713406 TTTTCAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (20 bp):
GAAAAGAGTTTTTCAAAAAG
Found at i:6721583 original size:17 final size:17
Alignment explanation
Indices: 6721554--6721586 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6721544 TACTTGATAA
6721554 AATAAAACTTCTTATTG
1 AATAAAACTTCTTATTG
6721571 AATAATAAC-TCTTATT
1 AATAA-AACTTCTTATT
6721587 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
AATAAAACTTCTTATTG
Found at i:6721863 original size:28 final size:28
Alignment explanation
Indices: 6721738--6721867 Score: 102
Period size: 28 Copynumber: 4.5 Consensus size: 28
6721728 TTTCGTCTTT
* * *
6721738 AATTAAGAAAAAAATATTTTATGTTGTCTA
1 AATTAAGACAAACATATTTT-T-TTGTTTA
* * * *
6721768 AATTGAGAC--ATATATTTTCTTGTCTA
1 AATTAAGACAAACATATTTTTTTGTTTA
* * *
6721794 GATTAAGACAAAAAATATTTTTCTTATCTTA
1 AATTAAGAC-AAACATATTTTT-TTGT-TTA
6721825 AATTAAGACAAACATATTTTTTTGTTTA
1 AATTAAGACAAACATATTTTTTTGTTTA
*
6721853 AATTAAAACAAACAT
1 AATTAAGACAAACAT
6721868 GTTAAAGCTA
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
26 14 0.17
28 25 0.31
29 11 0.14
30 21 0.26
31 10 0.12
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (28 bp):
AATTAAGACAAACATATTTTTTTGTTTA
Found at i:6721864 original size:59 final size:57
Alignment explanation
Indices: 6721738--6721864 Score: 141
Period size: 59 Copynumber: 2.2 Consensus size: 57
6721728 TTTCGTCTTT
* * * *
6721738 AATTAAGA-AAAAAATATTTTATGTTGTCTAAATTGAGACATATATTTTCTTGTCTA
1 AATTAAGACAAAAAATATTTTATCTTATCTAAATTAAGACACATATTTTCTTGTCTA
* * *
6721794 GATTAAGACAAAAAATATTTT-TCTTATCTTAAATTAAGACAAACATATTTTTTTGTTTA
1 AATTAAGACAAAAAATATTTTATCTTATC-TAAATTAAGAC--ACATATTTTCTTGTCTA
*
6721853 AATTAAAACAAA
1 AATTAAGACAAA
6721865 CATGTTAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
56 12 0.21
57 22 0.38
59 24 0.41
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (57 bp):
AATTAAGACAAAAAATATTTTATCTTATCTAAATTAAGACACATATTTTCTTGTCTA
Found at i:6725080 original size:38 final size:39
Alignment explanation
Indices: 6724994--6725096 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 39
6724984 ACCCGGCTCA
* *
6724994 TGTACATCCCCTCACATCGTGCACATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAGG-ACCATCG
* *
6725034 TGTGCATCCCCCCACATCGTGCACA-ATCAGTG-CCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAG-GACCATCG
6725072 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
6725097 CGGGCACTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 30 0.53
39 3 0.05
40 24 0.42
ACGTcount: A:0.22, C:0.41, G:0.17, T:0.20
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACATAGCAGGACCATCG
Found at i:6725089 original size:19 final size:19
Alignment explanation
Indices: 6724994--6725092 Score: 65
Period size: 19 Copynumber: 5.1 Consensus size: 19
6724984 ACCCGGCTCA
*
6724994 TGTACATCCCCTCACATCG
1 TGTACATCCCCCCACATCG
* * **
6725013 TGCACATAGCCGGCACCATCG
1 TGTACAT-CCCCCCA-CATCG
*
6725034 TGTGCATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
* ****
6725053 TGCACAATCAGTGC-CATCG
1 TGTAC-ATCCCCCCACATCG
6725072 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
6725091 TG
1 TG
6725093 CACACGGGCA
Statistics
Matches: 56, Mismatches: 20, Indels: 8
0.67 0.24 0.10
Matches are distributed among these distances:
18 4 0.07
19 30 0.54
20 12 0.21
21 10 0.18
ACGTcount: A:0.21, C:0.40, G:0.17, T:0.21
Consensus pattern (19 bp):
TGTACATCCCCCCACATCG
Found at i:6727093 original size:87 final size:86
Alignment explanation
Indices: 6726944--6727325 Score: 382
Period size: 87 Copynumber: 4.5 Consensus size: 86
6726934 TTTTGTCTTT
* * * *
6726944 AATTAAGATAAAACATGA-TATCTTGTCTAAATTGAGACAAACATGTTTTCTTGT-ATAGATTAA
1 AATTAAGA-AAAACAT-ATTTTCTTATCTAAATTAAGACAAACATGTTTTCTTGTCA-AAATTAA
6727007 GACAAAACATATTTTTCTTGTCTTA
63 GACAAAACATATTTTTCTTGTC-TA
* *
6727032 AATTAAGACAAACATATTTTCTTATCTAAATTAAGACAAACATGTTTTCTTATCAAAATTAAGAC
1 AATTAAGAAAAACATATTTTCTTATCTAAATTAAGACAAACATGTTTTCTTGTCAAAATTAAGAC
* *
6727097 AAAACAT-GTTTTCTTGTCAA
66 AAAACATATTTTTCTTGTCTA
* * * *
6727117 AATTAAGATAAAC--A------TA--TAAATTAAGATAAAACATATTTT-TCTGTCTAAATTAAG
1 AATTAAGAAAAACATATTTTCTTATCTAAATTAAGA-CAAACATGTTTTCT-TGTCAAAATTAAG
6727171 ACAAAACATA-TTTTCTTGTCTA
64 ACAAAACATATTTTTCTTGTCTA
* * * * *
6727193 AATTAAGAAACAACATGTTTTCTTTTATAAATTAAGAAACAACATGTTTTCTTGTCTAAATTAAG
1 AATTAAGAAA-AACATATTTTCTTATCTAAATTAAGACA-AACATGTTTTCTTGTCAAAATTAAG
* *
6727258 ACATAACATGTTTTT-TTGTCTA
64 ACAAAACATATTTTTCTTGTCTA
* *
6727280 AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACATGT
1 AATTAAGA-AAAACATATTTTCTTATCTAAATTAAGACAAACATGT
6727326 AAAAGCTGTC
Statistics
Matches: 251, Mismatches: 23, Indels: 42
0.79 0.07 0.13
Matches are distributed among these distances:
75 11 0.04
76 50 0.20
77 5 0.02
83 1 0.00
85 14 0.06
86 20 0.08
87 134 0.53
88 16 0.06
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (86 bp):
AATTAAGAAAAACATATTTTCTTATCTAAATTAAGACAAACATGTTTTCTTGTCAAAATTAAGAC
AAAACATATTTTTCTTGTCTA
Found at i:6727111 original size:29 final size:28
Alignment explanation
Indices: 6726944--6727325 Score: 300
Period size: 29 Copynumber: 13.6 Consensus size: 28
6726934 TTTTGTCTTT
* * * *
6726944 AATTAAGATAAAACATGATATCTTGTCTA
1 AATTAAGA-CAAACATGTTTTCTTGTCAA
*
6726973 AATTGAGACAAACATGTTTTCTTGT-ATA
1 AATTAAGACAAACATGTTTTCTTGTCA-A
* * *
6727001 GATTAAGACAAAACATATTTTTCTTGTCTTA
1 AATTAAGAC-AAACAT-GTTTTCTTGTC-AA
* * *
6727032 AATTAAGACAAACATATTTTCTTATCTA
1 AATTAAGACAAACATGTTTTCTTGTCAA
*
6727060 AATTAAGACAAACATGTTTTCTTATCAA
1 AATTAAGACAAACATGTTTTCTTGTCAA
6727088 AATTAAGACAAAACATGTTTTCTTGTCAA
1 AATTAAGAC-AAACATGTTTTCTTGTCAA
* * ***
6727117 AATTAAGATAAACA--TATAAAT-T-AA
1 AATTAAGACAAACATGTTTTCTTGTCAA
* * * * *
6727141 GA-TAA-A-ACATAT-TTTTCTG-TCTA
1 AATTAAGACAAACATGTTTTCTTGTCAA
* *
6727164 AATTAAGACAAAACATATTTTCTTGTCTA
1 AATTAAGAC-AAACATGTTTTCTTGTCAA
* *
6727193 AATTAAGAAACAACATGTTTTCTT-TTATA
1 AATTAAGACA-AACATGTTTTCTTGTCA-A
* *
6727222 AATTAAGAAACAACATGTTTTCTTGTCTA
1 AATTAAGACA-AACATGTTTTCTTGTCAA
* *
6727251 AATTAAGACATAACATGTTTTTTTGTCTA
1 AATTAAGACA-AACATGTTTTCTTGTCAA
*
6727280 AATTAAGACAAAACATGTTTTCTTGTCTA
1 AATTAAGAC-AAACATGTTTTCTTGTCAA
6727309 AATTAAGACAAACATGT
1 AATTAAGACAAACATGT
6727326 AAAAGCTGTC
Statistics
Matches: 292, Mismatches: 43, Indels: 37
0.78 0.12 0.10
Matches are distributed among these distances:
21 3 0.01
22 4 0.01
23 5 0.02
24 6 0.02
25 2 0.01
26 3 0.01
27 4 0.01
28 80 0.27
29 159 0.54
30 17 0.06
31 9 0.03
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (28 bp):
AATTAAGACAAACATGTTTTCTTGTCAA
Found at i:6727137 original size:18 final size:19
Alignment explanation
Indices: 6727116--6727152 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
6727106 TTTCTTGTCA
6727116 AAATTAAGAT-AAACATAT
1 AAATTAAGATAAAACATAT
6727134 AAATTAAGATAAAACATAT
1 AAATTAAGATAAAACATAT
6727153 TTTTCTGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
AAATTAAGATAAAACATAT
Found at i:6727167 original size:47 final size:48
Alignment explanation
Indices: 6727087--6727181 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 48
6727077 TTTCTTATCA
*
6727087 AAATTAAGACAAAACATGTTTTCTTGTCAAAATTAAGA-TAAACATAT
1 AAATTAAGACAAAACATGTTTTCTTGTCAAAATTAAGACAAAACATAT
* * *
6727134 AAATTAAGATAAAACATATTTT-TCTGTCTAAATTAAGACAAAACATAT
1 AAATTAAGACAAAACATGTTTTCT-TGTCAAAATTAAGACAAAACATAT
6727182 TTTCTTGTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 1 0.02
47 33 0.79
48 8 0.19
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (48 bp):
AAATTAAGACAAAACATGTTTTCTTGTCAAAATTAAGACAAAACATAT
Found at i:6727242 original size:134 final size:134
Alignment explanation
Indices: 6726997--6727258 Score: 406
Period size: 134 Copynumber: 2.0 Consensus size: 134
6726987 TGTTTTCTTG
*
6726997 TATAGATTAAGACAAAACATATTTTTCTTGTCTTAAATTAAGACAAACATATTTTCTTATCTAAA
1 TATAAATTAAGACAAAACATATTTTTCTTGTCTTAAATTAAGACAAACATATTTTCTTATCTAAA
*
6727062 TTAAGACAAACATGTTTTCTTATCAAAATTAAGACAAAACATGTTTTCTTGTCAAAATTAAGATA
66 TTAAGAAAAACATGTTTTCTTATCAAAATTAAGACAAAACATGTTTTCTTGTCAAAATTAAGATA
6727127 AACA
131 AACA
* *
6727131 TATAAATTAAGATAAAACATATTTTTC-TGTC-TAAATTAAGACAAAACATATTTTCTTGTCTAA
1 TATAAATTAAGACAAAACATATTTTTCTTGTCTTAAATTAAGAC-AAACATATTTTCTTATCTAA
* *
6727194 ATTAAGAAACAACATGTTTTCTT-TTATAAATTAAGA-AACAACATGTTTTCTTGTCTAAATTAA
65 ATTAAGAAA-AACATGTTTTCTTATCA-AAATTAAGACAA-AACATGTTTTCTTGTCAAAATTAA
6727257 GA
127 GA
6727259 CATAACATGT
Statistics
Matches: 118, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
132 11 0.09
133 35 0.30
134 72 0.61
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.38
Consensus pattern (134 bp):
TATAAATTAAGACAAAACATATTTTTCTTGTCTTAAATTAAGACAAACATATTTTCTTATCTAAA
TTAAGAAAAACATGTTTTCTTATCAAAATTAAGACAAAACATGTTTTCTTGTCAAAATTAAGATA
AACA
Found at i:6737042 original size:21 final size:21
Alignment explanation
Indices: 6737012--6737061 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
6737002 TCGGACAGCA
6737012 CACAGCAGGGTGATTGTTGCC
1 CACAGCAGGGTGATTGTTGCC
*
6737033 CACAGTAGGGTGATTGTTGCC
1 CACAGCAGGGTGATTGTTGCC
6737054 CAGCAGCA
1 CA-CAGCA
6737062 TACGCAATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.22
Consensus pattern (21 bp):
CACAGCAGGGTGATTGTTGCC
Found at i:6738588 original size:59 final size:58
Alignment explanation
Indices: 6738466--6738719 Score: 282
Period size: 59 Copynumber: 4.4 Consensus size: 58
6738456 TTAAGACAAC
* * * * * *
6738466 TCTTGTCTTTAATTAAGACAAAACATCTTATCTTCTCTAAATTGAGAC-AAATATATTT
1 TCTTGTC-TAAATTAAGACAAAACATTTTTTCTTTTCTAAATTAAGACAAAACATATTT
* ** *
6738524 TCTTGTCTAGATTAAGACAAAACATATTTTTCTTTTCTTAAATTAAGAC-TGACATGTTT
1 TCTTGTCTAAATTAAGACAAAACAT-TTTTTCTTTTC-TAAATTAAGACAAAACATATTT
*
6738583 TCTTGTCTAAATTAAGACAAAACATGTTTTT-TTTGTCTAAATTAAGACAAAACACATTT
1 TCTTGTCTAAATTAAGACAAAACAT-TTTTTCTTT-TCTAAATTAAGACAAAACATATTT
* * * * *
6738642 TCTTGTCTAGATTAAGAC-AAACATGTTTTCTTGTCTAAATTAAGACAAAATATGTTT
1 TCTTGTCTAAATTAAGACAAAACATTTTTTCTTTTCTAAATTAAGACAAAACATATTT
*
6738699 TCTTATCTAAATTAAGACAAA
1 TCTTGTCTAAATTAAGACAAA
6738720 CATGTAAAAG
Statistics
Matches: 166, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
57 57 0.34
58 39 0.23
59 70 0.42
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (58 bp):
TCTTGTCTAAATTAAGACAAAACATTTTTTCTTTTCTAAATTAAGACAAAACATATTT
Found at i:6738607 original size:29 final size:29
Alignment explanation
Indices: 6738466--6738724 Score: 292
Period size: 29 Copynumber: 8.9 Consensus size: 29
6738456 TTAAGACAAC
* * *
6738466 TCTTGTCTTTAATTAAGACAAAACATCTTA
1 TCTTGTC-TAAATTAAGACAAAACATGTTT
* * * *
6738496 TCTTCTCTAAATTGAGAC-AAATATATTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
* *
6738524 TCTTGTCTAGATTAAGACAAAACATATTTT
1 TCTTGTCTAAATTAAGACAAAACAT-GTTT
* **
6738554 TCTTTTCTTAAATTAAGAC-TGACATGTTT
1 TCTTGTC-TAAATTAAGACAAAACATGTTT
6738583 TCTTGTCTAAATTAAGACAAAACATGTTTT
1 TCTTGTCTAAATTAAGACAAAACATG-TTT
* **
6738613 TTTTGTCTAAATTAAGACAAAACACATTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
*
6738642 TCTTGTCTAGATTAAGAC-AAACATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
*
6738670 TCTTGTCTAAATTAAGACAAAATATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
*
6738699 TCTTATCTAAATTAAGAC-AAACATGT
1 TCTTGTCTAAATTAAGACAAAACATGT
6738725 AAAAGTTGTC
Statistics
Matches: 193, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
28 65 0.34
29 73 0.38
30 45 0.23
31 10 0.05
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (29 bp):
TCTTGTCTAAATTAAGACAAAACATGTTT
Found at i:6738666 original size:87 final size:88
Alignment explanation
Indices: 6738466--6738719 Score: 334
Period size: 87 Copynumber: 2.9 Consensus size: 88
6738456 TTAAGACAAC
* * * * * *
6738466 TCTTGTCTTTAATTAAGACAAAACATCTTATCTTCTCTAAATTGAGAC-AAATATATTTTCTTGT
1 TCTTGTCTTAAATTAAGAC-AAACATGTTTTCTTGTCTAAATTAAGACAAAATATGTTTTCTTGT
* *
6738530 CTAGATTAAGACAAAACATATTTT
65 CTAAATTAAGACAAAACACATTTT
* ** * *
6738554 TCTTTTCTTAAATTAAGACTGACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTTTTTGT
1 TCTTGTCTTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGACAAAATATG-TTTTCTTGT
6738619 CTAAATTAAGACAAAACACA-TTT
65 CTAAATTAAGACAAAACACATTTT
* *
6738642 TCTTGTC-TAGATTAAGACAAACATGTTTTCTTGTCTAAATTAAGACAAAATATGTTTTCTTATC
1 TCTTGTCTTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGACAAAATATGTTTTCTTGTC
6738706 TAAATTAAGACAAA
66 TAAATTAAGACAAA
6738720 CATGTAAAAG
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
86 22 0.15
87 65 0.45
88 31 0.22
89 26 0.18
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (88 bp):
TCTTGTCTTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGACAAAATATGTTTTCTTGTC
TAAATTAAGACAAAACACATTTT
Found at i:6749242 original size:50 final size:50
Alignment explanation
Indices: 6749183--6749279 Score: 160
Period size: 50 Copynumber: 1.9 Consensus size: 50
6749173 AAATGGTAGC
6749183 TTTATATGTTG-TCTCAATTAAGACAAAAGTTATCTTAATTTAGACAAGAA
1 TTTATATGTTGCT-TCAATTAAGACAAAAGTTATCTTAATTTAGACAAGAA
* *
6749233 TTTATATGTTGCTTTAATTAAGACAAAAGTTGTCTTAATTTAGACAA
1 TTTATATGTTGCTTCAATTAAGACAAAAGTTATCTTAATTTAGACAA
6749280 TAAAATAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 43 0.98
51 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.40
Consensus pattern (50 bp):
TTTATATGTTGCTTCAATTAAGACAAAAGTTATCTTAATTTAGACAAGAA
Found at i:6749300 original size:50 final size:50
Alignment explanation
Indices: 6749185--6749301 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
6749175 ATGGTAGCTT
* * **
6749185 TATATGTTGTCTCAATTAAGACAAAAGTTATCTTAATTTAGACAAGAATT
1 TATAAGTTGTCTTAATTAAGACAAAAGTTATCTTAATTTAGACAAGAAAA
* * *
6749235 TATATGTTG-CTTTAATTAAGACAAAAGTTGTCTTAATTTAGACAATAAAA
1 TATAAGTTGTC-TTAATTAAGACAAAAGTTATCTTAATTTAGACAAGAAAA
6749285 TA-AGAGTTGTCTTAATT
1 TATA-AGTTGTCTTAATT
6749302 TAGATAAGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
49 2 0.03
50 55 0.95
51 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (50 bp):
TATAAGTTGTCTTAATTAAGACAAAAGTTATCTTAATTTAGACAAGAAAA
Found at i:6749305 original size:79 final size:79
Alignment explanation
Indices: 6749210--6749356 Score: 192
Period size: 79 Copynumber: 1.9 Consensus size: 79
6749200 TTAAGACAAA
**
6749210 AGTTATCTTAATTTAGACAAGAATTTATATGTTG-CTTTAATTAAGACA-AA-AGTTGTCTTAAT
1 AGTTATCTTAATTTAGACAAG-ATACATATGTTGTC-TTAATTAA-ACATAAGAGTTGTCTTAAT
6749272 TTAGACAATAAAATAAG
63 TTAGACAATAAAATAAG
* * * *
6749289 AGTTGTCTTAATTTAGATAAGGTACATATGTTGTCTTAATTAAATATAAGAGTTGTCTTAATTTA
1 AGTTATCTTAATTTAGACAAGATACATATGTTGTCTTAATTAAACATAAGAGTTGTCTTAATTTA
6749354 GAC
66 GAC
6749357 TAGAATGTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
77 2 0.03
78 19 0.32
79 38 0.64
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (79 bp):
AGTTATCTTAATTTAGACAAGATACATATGTTGTCTTAATTAAACATAAGAGTTGTCTTAATTTA
GACAATAAAATAAG
Found at i:6749373 original size:79 final size:78
Alignment explanation
Indices: 6749236--6749388 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 78
6749226 ACAAGAATTT
*
6749236 ATATGTTGCTTTAATTAAGACAAAAGTTGTCTTAATTTAGACAATAAAATAAGAGTTGTCTTAAT
1 ATATGTTGCTTTAATTAAGACAAAAGTTGTCTTAATTTAGACAAGAAAATAAGAGTTGTCTTAAT
*
6749301 TTAGATAAGGTAC
66 TAAGATAAGGTAC
* * ** * *
6749314 ATATGTTG-TCTTAATTAA-ATATAAGAGTTGTCTTAATTTAGACTAGAATGTATGTGTTGTCTT
1 ATATGTTGCT-TTAATTAAGACA-AA-AGTTGTCTTAATTTAGACAAGAAAATAAGAGTTGTCTT
6749377 AATTAAGATAAG
63 AATTAAGATAAG
6749389 AGCTATCTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
77 3 0.05
78 18 0.28
79 43 0.67
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (78 bp):
ATATGTTGCTTTAATTAAGACAAAAGTTGTCTTAATTTAGACAAGAAAATAAGAGTTGTCTTAAT
TAAGATAAGGTAC
Found at i:6749388 original size:50 final size:49
Alignment explanation
Indices: 6749280--6749408 Score: 138
Period size: 50 Copynumber: 2.6 Consensus size: 49
6749270 ATTTAGACAA
6749280 TAAA-ATAAGAGTTGTCTTAATTTAGATAAGGTACATATGTTGTCTTAAT
1 TAAAGATAAGAGTTGTCTTAATTTAGATAAGGTA-ATATGTTGTCTTAAT
* * *
6749329 TAAATATAAGAGTTGTCTTAATTTAGACTAGAATGT-ATGTGTTGTCTTAAT
1 TAAAGATAAGAGTTGTCTTAATTTAGA-T--AAGGTAATATGTTGTCTTAAT
* * *
6749380 T-AAGATAAGAGCTATCTTAAGTTAAGATA
1 TAAAGATAAGAGTTGTCTTAA-TTTAGATA
6749409 GTGTTGGAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
48 1 0.01
49 4 0.06
50 39 0.57
51 21 0.30
53 4 0.06
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (49 bp):
TAAAGATAAGAGTTGTCTTAATTTAGATAAGGTAATATGTTGTCTTAAT
Found at i:6751010 original size:50 final size:50
Alignment explanation
Indices: 6750913--6751023 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 50
6750903 TTATATTAAC
* *
6750913 TTAAGACAACTCTTCTCCTAATTAAGACAACACATATATCTTTGTCTAAA
1 TTAAGACAACTCTTCTCCTAATTAAGACAACACATATATCCTGGTCTAAA
* * *
6750963 TTAAGACAACTCTTGC-CCTTAATTAAGACATCATATGTA-CCTGGTCTAAA
1 TTAAGACAACTCTT-CTCC-TAATTAAGACAACACATATATCCTGGTCTAAA
* *
6751013 TTTATACAACT
1 TTAAGACAACT
6751024 TTTGTTTTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 34 0.65
51 18 0.35
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (50 bp):
TTAAGACAACTCTTCTCCTAATTAAGACAACACATATATCCTGGTCTAAA
Found at i:6751057 original size:21 final size:21
Alignment explanation
Indices: 6751031--6751072 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6751021 ACTTTTGTTT
6751031 TCTTGTCTAAATTAAGACAAC
1 TCTTGTCTAAATTAAGACAAC
*
6751052 TCTTGTCTTAATTAAGACAAC
1 TCTTGTCTAAATTAAGACAAC
6751073 ATATAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (21 bp):
TCTTGTCTAAATTAAGACAAC
Found at i:6751092 original size:79 final size:79
Alignment explanation
Indices: 6750954--6751107 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 79
6750944 ACATATATCT
* ** * *
6750954 TTGTCTAAATTAAGACAACTCTTGCCCTTAATTAAGACATCATATGTACCTGGTCTAAATTTATA
1 TTGTCTAAATTAAGACAACTCTTGCCCTTAATTAAGACAACATATAAACCTGGTCTAAATTAAGA
6751019 CAACTTTTGTTTTC
66 CAACTTTTGTTTTC
* * * *
6751033 TTGTCTAAATTAAGACAACTCTTG-TCTTAATTAAGACAACATATAAATTCTTGTTTAAATTAAG
1 TTGTCTAAATTAAGACAACTCTTGCCCTTAATTAAGACAACATATAAA-CCTGGTCTAAATTAAG
6751097 ACAACTTTTGT
65 ACAACTTTTGT
6751108 CTTAATTAAG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 19 0.29
79 46 0.71
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (79 bp):
TTGTCTAAATTAAGACAACTCTTGCCCTTAATTAAGACAACATATAAACCTGGTCTAAATTAAGA
CAACTTTTGTTTTC
Found at i:6751093 original size:50 final size:50
Alignment explanation
Indices: 6751030--6751129 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
6751020 AACTTTTGTT
6751030 TTCTTGTCTAAATTAAGACAACTCTTGTCTTAATTAAGACAACATATAAA
1 TTCTTGTCTAAATTAAGACAACTCTTGTCTTAATTAAGACAACATATAAA
* * *
6751080 TTCTTGTTTAAATTAAGACAACTTTTGTCTTAATTAAGACATCATATAAA
1 TTCTTGTCTAAATTAAGACAACTCTTGTCTTAATTAAGACAACATATAAA
6751130 GCTATCATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (50 bp):
TTCTTGTCTAAATTAAGACAACTCTTGTCTTAATTAAGACAACATATAAA
Found at i:6756881 original size:19 final size:21
Alignment explanation
Indices: 6756857--6756900 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
6756847 CCTATAAATA
6756857 TCTTG-AATTTCCAGCAGCT-
1 TCTTGAAATTTCCAGCAGCTG
*
6756876 TCTTGAAATTTCCAGTAGCTG
1 TCTTGAAATTTCCAGCAGCTG
6756897 TCTT
1 TCTT
6756901 CTTCTTCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (21 bp):
TCTTGAAATTTCCAGCAGCTG
Found at i:6757853 original size:40 final size:38
Alignment explanation
Indices: 6757770--6757868 Score: 117
Period size: 38 Copynumber: 2.5 Consensus size: 38
6757760 TAGTGCCCGT
* *
6757770 GTGCACGATGTGGGGGGGATGTACACGATGGCACTGATT
1 GTGCACGATGT-GGGGGGATGCACACGATGGCACTGATC
** *
6757809 GTGCACGATGTGGGGGGATGCACACGATGGTGCTTGCTAC
1 GTGCACGATGTGGGGGGATGCACACGATGGCAC-TGAT-C
*
6757849 GTGCACGATTTGGGGGGATG
1 GTGCACGATGTGGGGGGATG
6757869 TACATGAGCC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 19 0.37
39 14 0.27
40 19 0.37
ACGTcount: A:0.18, C:0.16, G:0.42, T:0.23
Consensus pattern (38 bp):
GTGCACGATGTGGGGGGATGCACACGATGGCACTGATC
Found at i:6764906 original size:33 final size:34
Alignment explanation
Indices: 6764848--6764929 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
6764838 TTAAGTCTGG
* * * *
6764848 TAAAAGTCACTTTGTGGGTTATGCTTACT-CTCTT
1 TAAAAGGCA-TTTGTGGGTGATGCTTACTCCCCGT
* *
6764882 TAAAAGGCATTTGTGGGTGGTGCTTGCTCCCCGT
1 TAAAAGGCATTTGTGGGTGATGCTTACTCCCCGT
*
6764916 TAAAGGGCATTTGT
1 TAAAAGGCATTTGT
6764930 AAGTTTCATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 16 0.40
34 24 0.60
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.38
Consensus pattern (34 bp):
TAAAAGGCATTTGTGGGTGATGCTTACTCCCCGT
Found at i:6765003 original size:35 final size:34
Alignment explanation
Indices: 6764922--6765005 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 34
6764912 CCGTTAAAGG
*
6764922 GCATTTGTAA-GTTTCATTTGATTCCATGAAAAA
1 GCATTTGTAAGGTTTCATTTGATCCCATGAAAAA
* * *
6764955 AC-TATTGTAAAGGTTATCGTTTGATCCCATTAAAAA
1 GCAT-TTGT-AAGGTT-TCATTTGATCCCATGAAAAA
6764991 GCATTTGTAAGGTTT
1 GCATTTGTAAGGTTT
6765006 TAATGATTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
32 1 0.02
33 5 0.12
34 3 0.07
35 9 0.22
36 22 0.54
37 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (34 bp):
GCATTTGTAAGGTTTCATTTGATCCCATGAAAAA
Found at i:6771586 original size:26 final size:26
Alignment explanation
Indices: 6771541--6771591 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6771531 ATGTCCTGGT
*
6771541 GGTGGAAAATTACAATTTTTCCCCTG
1 GGTGGAAAATTACAATTTTTACCCTG
*
6771567 GGTGGCAAAATTACCA-TTTTACCCT
1 GGTGG-AAAATTACAATTTTTACCCT
6771592 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (26 bp):
GGTGGAAAATTACAATTTTTACCCTG
Found at i:6771662 original size:20 final size:20
Alignment explanation
Indices: 6771645--6771682 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6771635 CCTCAAATCT
6771645 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
6771665 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
6771683 GGGGCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:6777021 original size:16 final size:16
Alignment explanation
Indices: 6777000--6777030 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6776990 TGTAACTGTT
6777000 TAAATTTGAAATAATC
1 TAAATTTGAAATAATC
*
6777016 TAAATTTTAAATAAT
1 TAAATTTGAAATAAT
6777031 TCCATCTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAATTTGAAATAATC
Found at i:6778348 original size:21 final size:21
Alignment explanation
Indices: 6778322--6778361 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6778312 GCTTGCACCC
6778322 TGTTTGCATGTTTTTTCGACG
1 TGTTTGCATGTTTTTTCGACG
*
6778343 TGTTTGTATGTTTTTTCGA
1 TGTTTGCATGTTTTTTCGA
6778362 ATGTAAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.10, G:0.23, T:0.57
Consensus pattern (21 bp):
TGTTTGCATGTTTTTTCGACG
Found at i:6791851 original size:57 final size:56
Alignment explanation
Indices: 6791721--6791867 Score: 179
Period size: 57 Copynumber: 2.6 Consensus size: 56
6791711 ATGAAAAATT
* * * * *
6791721 GGTGAGTAGAAGAAACTATTGATAA-AATATAGTTCCAGAGGCTGCCATGAAAGGCA
1 GGTGAATAGTAGAAACTAATGATAAGAATATA-TTCCAGAGGCTCCCATGAAAGACA
* * *
6791777 GGTGAATGGTAGAAACTAATGATAAGAATATATTCCCAGAGGCTCCCATGAGAGACT
1 GGTGAATAGTAGAAACTAATGATAAGAATATATT-CCAGAGGCTCCCATGAAAGACA
* *
6791834 GGTTAATAGTAGCAACTAATGATAAGAATATATT
1 GGTGAATAGTAGAAACTAATGATAAGAATATATT
6791868 TCCTGACGTT
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
56 23 0.29
57 55 0.71
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (56 bp):
GGTGAATAGTAGAAACTAATGATAAGAATATATTCCAGAGGCTCCCATGAAAGACA
Found at i:6792894 original size:31 final size:33
Alignment explanation
Indices: 6792857--6792925 Score: 106
Period size: 32 Copynumber: 2.1 Consensus size: 33
6792847 TTACATTTTG
6792857 TAAAAAATATAATAATAGTAAT-TTT-AAATTAA
1 TAAAAAATAT-ATAATAGTAATCTTTAAAATTAA
*
6792889 TAAAAAATATATAATAGTAATCTTTAAAATTGA
1 TAAAAAATATATAATAGTAATCTTTAAAATTAA
6792922 TAAA
1 TAAA
6792926 GAGTAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 11 0.32
32 13 0.38
33 10 0.29
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (33 bp):
TAAAAAATATATAATAGTAATCTTTAAAATTAA
Found at i:6800258 original size:11 final size:11
Alignment explanation
Indices: 6800242--6800276 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
6800232 TATGGCCGGC
6800242 CAAAGGAAGAA
1 CAAAGGAAGAA
6800253 CAAAGGAAG-A
1 CAAAGGAAGAA
6800263 -AAAGGAAGAA
1 CAAAGGAAGAA
6800273 CAAA
1 CAAA
6800277 ACCCTAGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 8 0.36
10 2 0.09
11 12 0.55
ACGTcount: A:0.66, C:0.09, G:0.26, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:6800314 original size:21 final size:22
Alignment explanation
Indices: 6800289--6800329 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
6800279 CCTAGGTGGA
6800289 AAAATTCAAGGAAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
6800310 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
6800330 AAAAAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:6800335 original size:22 final size:21
Alignment explanation
Indices: 6800288--6800335 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
6800278 CCCTAGGTGG
*
6800288 AAAAATTCAAGGAAAAAGTGT
1 AAAAATTCAAGGAAAAAGTGA
*
6800309 GAAAATTCAAGGAAACAAGTGA
1 AAAAATTCAAGGAAA-AAGTGA
6800331 AAAAA
1 AAAAA
6800336 AAGGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.60, C:0.06, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAGGAAAAAGTGA
Found at i:6805330 original size:13 final size:13
Alignment explanation
Indices: 6805312--6805338 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6805302 CCTCTAAGGC
6805312 ATCCAACCTATGA
1 ATCCAACCTATGA
6805325 ATCCAACCTATGA
1 ATCCAACCTATGA
6805338 A
1 A
6805339 CAACACGAGC
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:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (13 bp):
ATCCAACCTATGA
Found at i:6810376 original size:31 final size:31
Alignment explanation
Indices: 6810338--6810401 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
6810328 AGGTTAAATG
6810338 TTAGGTTAAAATGTAATTTAGCTAGTGTATA
1 TTAGGTTAAAATGTAATTTAGCTAGTGTATA
6810369 TTAGGTTAAAATGTAATTTAGCTAGTGTATA
1 TTAGGTTAAAATGTAATTTAGCTAGTGTATA
6810400 TT
1 TT
6810402 TATTAGAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (31 bp):
TTAGGTTAAAATGTAATTTAGCTAGTGTATA
Found at i:6811033 original size:35 final size:36
Alignment explanation
Indices: 6810983--6811076 Score: 109
Period size: 35 Copynumber: 2.6 Consensus size: 36
6810973 TGATGGTGAG
* * * * *
6810983 GTGCGGTGTGGGAGTGCGCATGATGATATT-GCCGT
1 GTGCAGTGTGGGAGTGCACATGACGACATTAGCCAT
* *
6811018 GTGTAGTGTGGGAGTGCACATGACGACATTAGCTAT
1 GTGCAGTGTGGGAGTGCACATGACGACATTAGCCAT
*
6811054 GTGCGGTGTGGGAGTGCACATGA
1 GTGCAGTGTGGGAGTGCACATGA
6811077 GCTGGGTTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 25 0.51
36 24 0.49
ACGTcount: A:0.19, C:0.14, G:0.40, T:0.27
Consensus pattern (36 bp):
GTGCAGTGTGGGAGTGCACATGACGACATTAGCCAT
Found at i:6811069 original size:36 final size:35
Alignment explanation
Indices: 6810945--6811076 Score: 124
Period size: 36 Copynumber: 3.7 Consensus size: 35
6810935 ACAACCGTGC
* * *
6810945 ATGTGCGGTGTGGGAGTTCACATGACG-ATGATGGT
1 ATGTGCGGTGTGGGAGTGCACATGACGAATTA-GCT
* * * *
6810980 GAGGTGCGGTGTGGGAGTGCGCATGATGATATT-GCC
1 -ATGTGCGGTGTGGGAGTGCACATGACGA-ATTAGCT
* **
6811016 GTGTGTAGTGTGGGAGTGCACATGACGACATTAGCT
1 ATGTGCGGTGTGGGAGTGCACATGACGA-ATTAGCT
6811052 ATGTGCGGTGTGGGAGTGCACATGA
1 ATGTGCGGTGTGGGAGTGCACATGA
6811077 GCTGGGTTGA
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
35 25 0.33
36 48 0.64
38 2 0.03
ACGTcount: A:0.20, C:0.13, G:0.41, T:0.27
Consensus pattern (35 bp):
ATGTGCGGTGTGGGAGTGCACATGACGAATTAGCT
Found at i:6811423 original size:62 final size:63
Alignment explanation
Indices: 6811357--6811537 Score: 222
Period size: 62 Copynumber: 2.9 Consensus size: 63
6811347 ACTCCATTTA
* * * *
6811357 CACTGTTCTTGCCATAACCAAATTGATTTTCATCACGACGAGAAACTTTCTGTCTTGGA-AGT
1 CACTGTTCTCGCCATAGCCAAATTGATTTTCGTCGCGACGAGAAACTTTCTGTCTTGGAGAGT
* * * **
6811419 CACTGTTCTCACCATAGCCAAATTGATTTTTGCCGCGATAAGAAACTTTCTGTCTT-GAGAGT
1 CACTGTTCTCGCCATAGCCAAATTGATTTTCGTCGCGACGAGAAACTTTCTGTCTTGGAGAGT
* * * * *
6811481 CACTGTTCTCGTCATAGCCAAATTGATTCTCGTCGCAACGAGAAACTCTCTGCCTTG
1 CACTGTTCTCGCCATAGCCAAATTGATTTTCGTCGCGACGAGAAACTTTCTGTCTTG
6811538 TTTAGAGATT
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
61 2 0.02
62 96 0.98
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (63 bp):
CACTGTTCTCGCCATAGCCAAATTGATTTTCGTCGCGACGAGAAACTTTCTGTCTTGGAGAGT
Found at i:6823759 original size:60 final size:60
Alignment explanation
Indices: 6823618--6824036 Score: 513
Period size: 60 Copynumber: 6.9 Consensus size: 60
6823608 GACATCATCA
*
6823618 CCTACTCGTGGGAAACTGCCCACGCCACCATATATAAATCGGGGCTTCAGGTCCCCCTTTTTG
1 CCTACTCGTGGG-AACTGCCCACGCCACCATATATGAATCGGGGCTTCAGGTCCCCC--TTTG
* * * * *
6823681 TCTACTCGTGGGATCTGCCCACGCCACCATATATAAATCGAGGCTTTAGGTCCCCCTTTG
1 CCTACTCGTGGGAACTGCCCACGCCACCATATATGAATCGGGGCTTCAGGTCCCCCTTTG
*
6823741 CCTACTCGTGGGAACTGCCCACGCCACCCA-ATATGAATCGGGGCTTCAGGTCCTCCTTTG
1 CCTACTCGTGGGAACTGCCCACGCCA-CCATATATGAATCGGGGCTTCAGGTCCCCCTTTG
* * * *
6823801 CCTATTCGTGGGAACTGCCCGCGTCACCCA-ATATGAATCGGGGCTTCAGGTCCTCCTTTG
1 CCTACTCGTGGGAACTGCCCACGCCA-CCATATATGAATCGGGGCTTCAGGTCCCCCTTTG
* * * * * * *
6823861 CCTATTCGTGGGAATTGCTCGCGTCACC-TAATATGAATTGGGGCTTCAGGTCCCCCTTTTA
1 CCTACTCGTGGGAACTGCCCACGCCACCAT-ATATGAATCGGGGCTTCAGGTCCCCC-TTTG
* * * * *
6823922 CCTATTCGTGGGAACTGCCCACGCCACCATATATAAATTGGGGCTTCAAGTCCCCCTTTC
1 CCTACTCGTGGGAACTGCCCACGCCACCATATATGAATCGGGGCTTCAGGTCCCCCTTTG
* *
6823982 CCTACTCGTGGGAACTACCCACGCCACCCA-ATATGAATCGGGGCTTCAGATCCCC
1 CCTACTCGTGGGAACTGCCCACGCCA-CCATATATGAATCGGGGCTTCAGGTCCCC
6824037 ATTTTTAAAT
Statistics
Matches: 319, Mismatches: 31, Indels: 15
0.87 0.08 0.04
Matches are distributed among these distances:
59 2 0.01
60 207 0.65
61 57 0.18
62 42 0.13
63 11 0.03
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (60 bp):
CCTACTCGTGGGAACTGCCCACGCCACCATATATGAATCGGGGCTTCAGGTCCCCCTTTG
Found at i:6823967 original size:181 final size:181
Alignment explanation
Indices: 6823618--6824041 Score: 534
Period size: 181 Copynumber: 2.3 Consensus size: 181
6823608 GACATCATCA
* *
6823618 CCTACTCGTGGGAAACTGCCCACGCCA-CCATATATAAATCGGGGCTTCAGGTCCCCCTTTTTGT
1 CCTACTCGTGGG-AACTGCCCACGCCACCCA-ATATGAATCGGGGCTTCAGGTCCCCC-TTTTGC
* *
6823682 CTACTCGTGGGATCTGCCCACGCCACCATATATAAATCGAGGCTTTAGGTCCCCCTTTGCCTACT
63 CTACTCGTGGGATCTGCCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCCCTTTACCTACT
* * * *
6823747 CGTGGGAACTGCCCACGCCACCCAATATGAATCGGGGCTTCAGGTCCTCCTTTG
128 CGTGGGAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAAGTCCCCCTTTC
* * * *
6823801 CCTATTCGTGGGAACTGCCCGCGTCACCCAATATGAATCGGGGCTTCAGGTCCTCC-TTTGCCTA
1 CCTACTCGTGGGAACTGCCCACGCCACCCAATATGAATCGGGGCTTCAGGTCCCCCTTTTGCCTA
* * * * * * * *
6823865 TTCGTGGGAAT-TGCTCGCGTCACC-TAATATGAATTGGGGCTTCAGGTCCCCCTTTTACCTATT
66 CTCGTGGG-ATCTGCCCACGCCACCAT-ATATAAATCGAGGCTTCAGGTCCCCC-TTTACCTACT
*
6823928 CGTGGGAACTGCCCACGCCA-CCATATATAAATTGGGGCTTCAAGTCCCCCTTTC
128 CGTGGGAACTGCCCACGCCACCCA-ATATAAATCGGGGCTTCAAGTCCCCCTTTC
* * *
6823982 CCTACTCGTGGGAACTACCCACGCCACCCAATATGAATCGGGGCTTCAGATCCCCATTTT
1 CCTACTCGTGGGAACTGCCCACGCCACCCAATATGAATCGGGGCTTCAGGTCCCCCTTTT
6824042 TAAATCAATA
Statistics
Matches: 207, Mismatches: 28, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
179 1 0.00
180 49 0.24
181 104 0.50
182 39 0.19
183 14 0.07
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (181 bp):
CCTACTCGTGGGAACTGCCCACGCCACCCAATATGAATCGGGGCTTCAGGTCCCCCTTTTGCCTA
CTCGTGGGATCTGCCCACGCCACCATATATAAATCGAGGCTTCAGGTCCCCCTTTACCTACTCGT
GGGAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAAGTCCCCCTTTC
Found at i:6824663 original size:59 final size:60
Alignment explanation
Indices: 6824571--6824688 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 60
6824561 TTTCCTCTCT
*
6824571 TTTTTCTCCTCTACCGCTGCTCCTTCTCTCCTTCTTCTT-TTTTTCTTTCTTCTTTCTTA
1 TTTTTCTCCCCTACCGCTGCTCCTTCTCTCCTTCTTCTTCTTTTTCTTTCTTCTTTCTTA
* * *
6824630 TTTTTCTCCCCTGCCTCTGCTCCTTCTCTCCTTCTTCTTCTTTTTCTTTTTTCTTTCTT
1 TTTTTCTCCCCTACCGCTGCTCCTTCTCTCCTTCTTCTTCTTTTTCTTTCTTCTTTCTT
6824689 CCCTCTTCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
59 36 0.67
60 18 0.33
ACGTcount: A:0.02, C:0.35, G:0.03, T:0.60
Consensus pattern (60 bp):
TTTTTCTCCCCTACCGCTGCTCCTTCTCTCCTTCTTCTTCTTTTTCTTTCTTCTTTCTTA
Found at i:6827181 original size:30 final size:30
Alignment explanation
Indices: 6827145--6827206 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
6827135 GGAGGAGTAG
6827145 TATGGTACCA-GAGGAGCAAGAACTAGAGAA
1 TATGGTACCAGGA-GAGCAAGAACTAGAGAA
*
6827175 TATGGTACCAGGAGAGCAGGAACTAGAGAA
1 TATGGTACCAGGAGAGCAAGAACTAGAGAA
6827205 TA
1 TA
6827207 ATGTCTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.42, C:0.13, G:0.31, T:0.15
Consensus pattern (30 bp):
TATGGTACCAGGAGAGCAAGAACTAGAGAA
Found at i:6827506 original size:40 final size:39
Alignment explanation
Indices: 6827439--6827514 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 39
6827429 GAATGCTGAT
** *
6827439 ATGTTTATGATATTTAACTGTTGTAAACTAAAGTCTGTTG
1 ATGTTTATGATATTTAACTGTCATAAAC-AAAATCTGTTG
*
6827479 ATGTTT-TGATATTTTGACTGTCATAAACAAAATCTG
1 ATGTTTATGATA-TTTAACTGTCATAAACAAAATCTG
6827515 CTGCTAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 12 0.39
40 19 0.61
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (39 bp):
ATGTTTATGATATTTAACTGTCATAAACAAAATCTGTTG
Found at i:6828538 original size:114 final size:112
Alignment explanation
Indices: 6828354--6828581 Score: 438
Period size: 114 Copynumber: 2.0 Consensus size: 112
6828344 CAGATTAATG
6828354 GCTAGAACTCATCCTCAACTGTTTTCAACGGATATAAATTGCCAAACTGCCATTAGAGTTGAATC
1 GCTAGAACTCATCCTCAACTGTTTTCAACGGATATAAATTGCCAAACTGCCATTAGAGTTGAATC
6828419 TCCAAGTATAAAAGGGTCTTCCAACAATGAAAAACAAGTTTTTTTGAA
66 TCCAAGTATAAAAGGGTCTTCCAACAATGAAAAACAAG-TTTTTTGAA
6828467 GNCTAGAACTCATCCTCAACTGTTTTCAACGGATATAAATTGCCAAACTGCCATTAGAGTTGAAT
1 G-CTAGAACTCATCCTCAACTGTTTTCAACGGATATAAATTGCCAAACTGCCATTAGAGTTGAAT
6828532 CTCCAAGTATAAAAGGGTCTTCCAACAATGAAAAACAAGTTTTTTGAA
65 CTCCAAGTATAAAAGGGTCTTCCAACAATGAAAAACAAGTTTTTTGAA
6828580 GC
1 GC
6828582 CTTGAATGAG
Statistics
Matches: 114, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
112 1 0.01
113 11 0.10
114 102 0.89
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (112 bp):
GCTAGAACTCATCCTCAACTGTTTTCAACGGATATAAATTGCCAAACTGCCATTAGAGTTGAATC
TCCAAGTATAAAAGGGTCTTCCAACAATGAAAAACAAGTTTTTTGAA
Found at i:6831843 original size:66 final size:67
Alignment explanation
Indices: 6831737--6831911 Score: 257
Period size: 67 Copynumber: 2.6 Consensus size: 67
6831727 GCTTAGCCAA
* *
6831737 AACCTTTCACAATGGTTTCT-ACTGGGATCAACTAAAACCCAAAGTGG-TTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCAC-GGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
6831800 CAC
65 CAC
* *
6831803 AACCTTTCACAATGGTTTTTCACGAGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
6831868 AC
66 AC
* *
6831870 AACC-TACAACAATGGTTTTTCATGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCACGGGATCAACCAAAACCCAA
6831912 CAACTAACTT
Statistics
Matches: 98, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
66 42 0.43
67 56 0.57
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
AC
Found at i:6831901 original size:35 final size:34
Alignment explanation
Indices: 6831764--6831914 Score: 127
Period size: 35 Copynumber: 4.6 Consensus size: 34
6831754 TCTACTGGGA
* * *
6831764 TCAACTAAAACC-CAA-AGTGG-TTTTCAAAGGC
1 TCAACCAAAACCTCAACAATGGTTTTTCAAGGGC
* * *
6831795 TCAACCACAACCTTTC-ACAATGGTTTTTCACGAGC
1 TCAACCAAAACC--TCAACAATGGTTTTTCAAGGGC
* *
6831830 TCAACCAAAACC-CAA-AGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAACAATGGTTTTTCAAGGGC
* * *
6831862 TCAACCACAACCTACAACAATGGTTTTTCATGGGA
1 TCAACCAAAACCT-CAACAATGGTTTTTCAAGGGC
6831897 TCAACCAAAACC-CAACAA
1 TCAACCAAAACCTCAACAA
6831915 CTAACTTTTC
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
31 10 0.11
32 25 0.27
33 8 0.09
34 8 0.09
35 43 0.46
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.23
Consensus pattern (34 bp):
TCAACCAAAACCTCAACAATGGTTTTTCAAGGGC
Found at i:6835345 original size:17 final size:17
Alignment explanation
Indices: 6835323--6835359 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6835313 AAATGGGGAT
6835323 TGCTCCCCCTAAATGTG
1 TGCTCCCCCTAAATGTG
* *
6835340 TGCTCCCCCTTAGTGTG
1 TGCTCCCCCTAAATGTG
6835357 TGC
1 TGC
6835360 ATATTTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.35, G:0.22, T:0.32
Consensus pattern (17 bp):
TGCTCCCCCTAAATGTG
Found at i:6835607 original size:17 final size:17
Alignment explanation
Indices: 6835585--6835626 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
6835575 ATCCATATGT
6835585 ATTCACAAACATAATTC
1 ATTCACAAACATAATTC
6835602 ATTCACAAACATAATTC
1 ATTCACAAACATAATTC
6835619 ATTCACAA
1 ATTCACAA
6835627 TGTCATAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTCACAAACATAATTC
Found at i:6842330 original size:31 final size:33
Alignment explanation
Indices: 6842280--6842351 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
6842270 CATGGGCTTC
* *
6842280 TCTATTTTCCCTATTTGGGCTAAGCCCATTTATTT
1 TCTA-TTT-CCTATTTGGGCCAAGCCCACTTATTT
*
6842315 T-TATTTCCTA-TTGGGCCATGCCCACTTATTT
1 TCTATTTCCTATTTGGGCCAAGCCCACTTATTT
6842346 TCTATT
1 TCTATT
6842352 GGGCCATGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
31 19 0.58
32 8 0.24
33 3 0.09
34 2 0.06
35 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.11, T:0.49
Consensus pattern (33 bp):
TCTATTTCCTATTTGGGCCAAGCCCACTTATTT
Found at i:6842343 original size:25 final size:25
Alignment explanation
Indices: 6842315--6842376 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
6842305 CCATTTATTT
*
6842315 TTATTTCCTATTGGGCCATGCCCAC
1 TTATTTTCTATTGGGCCATGCCCAC
* *
6842340 TTATTTTCTATTGGGCCATGCCTAT
1 TTATTTTCTATTGGGCCATGCCCAC
6842365 TTATTTTCTATT
1 TTATTTTCTATT
6842377 TCATTTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.48
Consensus pattern (25 bp):
TTATTTTCTATTGGGCCATGCCCAC
Found at i:6842384 original size:16 final size:16
Alignment explanation
Indices: 6842363--6842394 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6842353 GGCCATGCCT
6842363 ATTTATTTTCTATTTC
1 ATTTATTTTCTATTTC
*
6842379 ATTTATTTTCTTTTTC
1 ATTTATTTTCTATTTC
6842395 TTTCGTTTTC
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:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTATTTTCTATTTC
Found at i:6842635 original size:34 final size:34
Alignment explanation
Indices: 6842597--6842708 Score: 118
Period size: 34 Copynumber: 3.3 Consensus size: 34
6842587 CACAAAGCTG
*
6842597 TCCAATTTTCCTGCACAAACT-ACCAACAAACAGC
1 TCCAATTTTTCTGCACAAACTGA-CAACAAACAGC
* * *
6842631 TCCAATTTTTCTGCACAAATTGACAGCAAATAGC
1 TCCAATTTTTCTGCACAAACTGACAACAAACAGC
* * * * *
6842665 TCCAATTTTTTTGCACAAATTGGCAGCAAATAGC
1 TCCAATTTTTCTGCACAAACTGACAACAAACAGC
*
6842699 TCAAATTTTT
1 TCCAATTTTT
6842709 AGTAGCCAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
34 69 0.99
35 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (34 bp):
TCCAATTTTTCTGCACAAACTGACAACAAACAGC
Found at i:6849554 original size:67 final size:66
Alignment explanation
Indices: 6849446--6849633 Score: 243
Period size: 67 Copynumber: 2.8 Consensus size: 66
6849436 AGCTTTTACC
* * *
6849446 AGGCTTAGCCAAAACCTTTCACAATGGTTTTTGCAAGGATCAACCAAAACCCAAAGTGATTTTTC
1 AGGCTTAACCACAACCTTTCACAATGGTTTTT-CAGGGATCAACCAAAACCCAAAGTGATTTTTC
6849511 AA
65 AA
* ** *
6849513 AGGCTTAACCACAACCTTTCACAATGGTTCTTCATGGGATCAATTAAAACCCAAAGTGGTTTTTC
1 AGGCTTAACCACAACCTTTCACAATGGTTTTTCA-GGGATCAACCAAAACCCAAAGTGATTTTTC
6849578 AA
65 AA
* * *
6849580 AGGCTCAACCACAACC-TACAACAATGATTTTTCACGGGATCAACCAAAACCCAA
1 AGGCTTAACCACAACCTTTC-ACAATGGTTTTTCA-GGGATCAACCAAAACCCAA
6849634 CAACTAACTT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
66 4 0.04
67 101 0.96
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (66 bp):
AGGCTTAACCACAACCTTTCACAATGGTTTTTCAGGGATCAACCAAAACCCAAAGTGATTTTTCA
A
Found at i:6857092 original size:35 final size:35
Alignment explanation
Indices: 6857062--6857169 Score: 135
Period size: 35 Copynumber: 3.1 Consensus size: 35
6857052 AGAGTGCGTG
*
6857062 TGATGATATTAAAATGTGCGTGTAGGGAGTGCACA
1 TGATGATATTAAAATGTGCGTGTAAGGAGTGCACA
* *
6857097 TGATGATATTGAAATGTGTGTGTAAGGAGTGCACA
1 TGATGATATTAAAATGTGCGTGTAAGGAGTGCACA
**** * *
6857132 TGATGATATTGCCTTGTGTGTGTAGGGAGTGCACA
1 TGATGATATTAAAATGTGCGTGTAAGGAGTGCACA
6857167 TGA
1 TGA
6857170 GCTGAGTAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.31
Consensus pattern (35 bp):
TGATGATATTAAAATGTGCGTGTAAGGAGTGCACA
Found at i:6858379 original size:22 final size:23
Alignment explanation
Indices: 6858336--6858382 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
6858326 ATATAGAGTT
6858336 ATTTAGACTTAATTTTGATAGTA
1 ATTTAGACTTAATTTTGATAGTA
*
6858359 ATTTAG-CTTAGTTCTTG-TAGTA
1 ATTTAGACTTAATT-TTGATAGTA
6858381 AT
1 AT
6858383 GCATTGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (23 bp):
ATTTAGACTTAATTTTGATAGTA
Found at i:6860666 original size:21 final size:21
Alignment explanation
Indices: 6860642--6860684 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6860632 GCTATAAATA
* *
6860642 TCATTTTCTAGCAGCTTCTTC
1 TCATTTTCCAGCAGCTTATTC
*
6860663 TCATTTTCCAGTAGCTTATTC
1 TCATTTTCCAGCAGCTTATTC
6860684 T
1 T
6860685 TCTTCTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.09, T:0.49
Consensus pattern (21 bp):
TCATTTTCCAGCAGCTTATTC
Done.