Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 194 of 255
Found at i:64670361 original size:26 final size:26
Alignment explanation
Indices: 64670326--64670376 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
64670316 TTCTCGAATT
*
64670326 TTTACAAGGGGCAAAATCGTCAAAAA
1 TTTACAAGGGGCAAAATCATCAAAAA
* *
64670352 TTTACCAGGGGTAAAATCATCAAAA
1 TTTACAAGGGGCAAAATCATCAAAA
64670377 TTTTGTTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.22
Consensus pattern (26 bp):
TTTACAAGGGGCAAAATCATCAAAAA
Found at i:64674641 original size:44 final size:43
Alignment explanation
Indices: 64674555--64674654 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 43
64674545 CAAAAAACTT
* *
64674555 GCACACTTAGTGCCTAATAAATAGCTGAAGCTATATCAATCTC
1 GCACACTAAGTGCATAATAAATAGCTGAAGCTATATCAATCTC
* * * *
64674598 TCACACTAAGTGCATATATATATAG-TCGAAGCTATCTCGATCTC
1 GCACACTAAGTGCATA-ATAAATAGCT-GAAGCTATATCAATCTC
64674642 GCACACTAAGTGC
1 GCACACTAAGTGC
64674655 CAAAAATTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 14 0.29
44 34 0.71
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
GCACACTAAGTGCATAATAAATAGCTGAAGCTATATCAATCTC
Found at i:64681318 original size:29 final size:29
Alignment explanation
Indices: 64681261--64681320 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
64681251 GCTTTTTGAA
* * *
64681261 AATATTTACAAAAAAGGCATCTAATTTTT
1 AATATTTACAAAAAAGGCAACCAAATTTT
64681290 AATATTTAC-AAAAAGAGCAACCAAATTTT
1 AATATTTACAAAAAAG-GCAACCAAATTTT
64681319 AA
1 AA
64681321 AAATAGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.32
Consensus pattern (29 bp):
AATATTTACAAAAAAGGCAACCAAATTTT
Found at i:64682641 original size:14 final size:15
Alignment explanation
Indices: 64682619--64682647 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64682609 CAAAAGAATC
64682619 TGGCTTGCAATACGT
1 TGGCTTGCAATACGT
64682634 TGGC-TGCAATACGT
1 TGGCTTGCAATACGT
64682648 GTATGTCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (15 bp):
TGGCTTGCAATACGT
Found at i:64683717 original size:41 final size:41
Alignment explanation
Indices: 64683660--64683742 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
64683650 ATTAGGGACC
* * * *
64683660 AAATTGAATAACTTGCAAAACTTGGGTTCTAGAAGCATTTT
1 AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
64683701 AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
1 AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
64683742 A
1 A
64683743 CATGAAATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (41 bp):
AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
Found at i:64690229 original size:46 final size:45
Alignment explanation
Indices: 64690177--64690349 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
64690167 GTTGAGCATC
64690177 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTT
* * * * *
64690223 CAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G--TT
* * *
64690270 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTT
*
64690316 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
64690350 GGCGGGTTAC
Statistics
Matches: 104, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.54
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGTT
Found at i:64690331 original size:93 final size:93
Alignment explanation
Indices: 64690172--64690342 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
64690162 GGATGGTTGA
* *
64690172 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCAAACTCGTTGAGT
64690237 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
64690265 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCTCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCAAACTCGTTGAGT
64690330 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
64690343 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:64693006 original size:22 final size:22
Alignment explanation
Indices: 64692937--64692996 Score: 93
Period size: 23 Copynumber: 2.7 Consensus size: 22
64692927 CCAGAGATGA
*
64692937 TGAATAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATTGAGC
*
64692959 TGAAACGGTAAGCTCTATTGAGC
1 TG-AACAGTAAGCTCTATTGAGC
64692982 TGAACAGTAAGCTCT
1 TGAACAGTAAGCTCT
64692997 TACGAGCTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 14 0.41
23 20 0.59
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:64696996 original size:19 final size:18
Alignment explanation
Indices: 64696974--64697012 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
64696964 GAGAATTTAG
*
64696974 AATGGCAAAGAAGATAGAA
1 AATGGC-AAGAAGAAAGAA
*
64696993 AATGGCGAGAAGAAAGAA
1 AATGGCAAGAAGAAAGAA
64697011 AA
1 AA
64697013 GATGTGAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.05, G:0.28, T:0.08
Consensus pattern (18 bp):
AATGGCAAGAAGAAAGAA
Found at i:64707482 original size:74 final size:74
Alignment explanation
Indices: 64707361--64707508 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
64707351 ACTACTTTTT
*
64707361 GGAAAAACGATTGAATTAAGATAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
1 GGAAAAACGATTGAATTAAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
64707426 CTCTGAATC
66 CTCTGAATC
64707435 GGAAAAACGATTGAATTAAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
1 GGAAAAACGATTGAATTAAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
64707500 CTCTGAATC
66 CTCTGAATC
64707509 AGACGATTTA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (74 bp):
GGAAAAACGATTGAATTAAGACAATACCTAAGGAAAAATCCACCTAGACTTCACTTGTTATTTGA
CTCTGAATC
Found at i:64744370 original size:19 final size:19
Alignment explanation
Indices: 64744342--64744380 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
64744332 AGAGCGAAAG
64744342 AAATGAG-AAACGGGCCAA
1 AAATGAGAAAACGGGCCAA
*
64744360 AAATGGAGAAAATGGGCCAA
1 AAAT-GAGAAAACGGGCCAA
64744380 A
1 A
64744381 GTACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.13, G:0.28, T:0.08
Consensus pattern (19 bp):
AAATGAGAAAACGGGCCAA
Found at i:64752874 original size:93 final size:93
Alignment explanation
Indices: 64752762--64752933 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
64752752 CGCCCATAAG
*
64752762 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
64752826 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
64752855 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64752920 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
64752934 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:64752928 original size:46 final size:46
Alignment explanation
Indices: 64752755--64752930 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
64752745 TGTAACCCGC
* *
64752755 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
64752801 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
64752851 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
64752894 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
64752931 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64757673 original size:4 final size:4
Alignment explanation
Indices: 64757664--64757688 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
64757654 AAAGTATACA
64757664 TGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT TGTT TGTT TGTT TGTT TGTT T
64757689 TTTCTTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:64767913 original size:4 final size:4
Alignment explanation
Indices: 64767890--64767927 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
64767880 CAAGAGAAAG
*
64767890 TAAA TTAA TAAA T-AA T-AA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
64767928 ATTAATTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 6 0.19
4 25 0.81
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:64768374 original size:23 final size:23
Alignment explanation
Indices: 64768348--64768393 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
64768338 TCCCTATTCA
64768348 AGACTGTACTTGTTATTCTGGCT
1 AGACTGTACTTGTTATTCTGGCT
64768371 AGACTGTACTTGTTATTCTGGCT
1 AGACTGTACTTGTTATTCTGGCT
64768394 CCGAATCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (23 bp):
AGACTGTACTTGTTATTCTGGCT
Found at i:64771896 original size:31 final size:31
Alignment explanation
Indices: 64771853--64771936 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
64771843 TTAGTCTTGA
64771853 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
64771883 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
64771914 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
64771937 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:64772007 original size:42 final size:42
Alignment explanation
Indices: 64771960--64772051 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
64771950 TGGCCCTTAG
*
64771960 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
64772002 GCCCATTTCAATATCACATGTATTGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
64772044 GCCCATTT
1 GCCCATTT
64772052 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:64772227 original size:25 final size:25
Alignment explanation
Indices: 64772199--64772268 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
64772189 CTCTTTTAAT
64772199 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
64772224 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
64772249 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
64772269 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:64773226 original size:27 final size:27
Alignment explanation
Indices: 64773196--64773293 Score: 117
Period size: 27 Copynumber: 3.6 Consensus size: 27
64773186 GTAAATCTAC
*
64773196 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
*
64773223 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
64773249 AAAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
64773279 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
64773294 TGGTAATTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
26 1 0.02
27 34 0.55
28 6 0.10
29 20 0.32
30 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:64773476 original size:27 final size:27
Alignment explanation
Indices: 64773284--64773469 Score: 223
Period size: 27 Copynumber: 6.9 Consensus size: 27
64773274 TTTGTAAATC
64773284 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * *
64773310 TGAGGGTATTTCGGTAATTTCACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACT
* * *
64773338 AGTGGTATTTCGCTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
64773365 AGGGGCATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
64773392 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* **
64773419 AGGGGTATTTTGGTAATTCTATCCTAC-
1 AGGGGTATTTTGGTAATTTTA-CAAACT
* *
64773446 AGGGGTATTTTAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTACAA
64773470 TCGAGGGTAA
Statistics
Matches: 135, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.01
27 129 0.96
28 4 0.03
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:64773502 original size:27 final size:27
Alignment explanation
Indices: 64773468--64773559 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
64773458 GTAATTTCAC
64773468 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
64773495 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGATAATTTTGTA
* * *
64773522 AATCGAAGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTTTGTA
64773549 AATCGAGGGTA
1 AATCGAGGGTA
64773560 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 53 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTTTGTA
Found at i:64775949 original size:42 final size:42
Alignment explanation
Indices: 64775898--64776002 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
64775888 TAGTCCCGCT
* * *
64775898 ATGGTCTTACACGAAGTCTCATATTGATGCCATATCCTAGAA
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAA
* * *
64775940 ATGTTCTTACACGAAATCTCATATCGATGTCATATCCCAGAT
1 ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAA
*
64775982 ATGGTCTTACACAAAATCTCA
1 ATGGTCTTACACGAAATCTCA
64776003 ATAACCCTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATATCGATGCCATATCCCAGAA
Found at i:64781356 original size:40 final size:40
Alignment explanation
Indices: 64781271--64781559 Score: 359
Period size: 40 Copynumber: 7.2 Consensus size: 40
64781261 TATTCGAATG
* * **
64781271 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* * *
64781312 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* *
64781352 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* *
64781392 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
64781432 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
64781472 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * **
64781512 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
64781552 ATATCCGG
1 ATATCCGG
64781560 TTAAATTCCG
Statistics
Matches: 224, Mismatches: 20, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
39 3 0.01
40 189 0.84
41 32 0.14
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:64783637 original size:21 final size:20
Alignment explanation
Indices: 64783596--64783638 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
64783586 ATTTCCCATG
*
64783596 TTGGCCCATTTTCTCTATTT
1 TTGGCCCATTTTCACTATTT
* *
64783616 TTGGCCCGTTTTTCACTCTTT
1 TTGGCCC-ATTTTCACTATTT
64783637 TT
1 TT
64783639 ACTTTCCTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.07, C:0.26, G:0.12, T:0.56
Consensus pattern (20 bp):
TTGGCCCATTTTCACTATTT
Found at i:64785610 original size:7 final size:7
Alignment explanation
Indices: 64785594--64785624 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
64785584 ATGAATAAAG
64785594 ATAA-AA
1 ATAATAA
64785600 ATAATAA
1 ATAATAA
64785607 ATAATAA
1 ATAATAA
64785614 ATAATAA
1 ATAATAA
64785621 ATAA
1 ATAA
64785625 AAAGTCTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
ATAATAA
Found at i:64797726 original size:17 final size:17
Alignment explanation
Indices: 64797704--64797745 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
64797694 ATCACCAGTT
*
64797704 TGAACTTAGACAATCAA
1 TGAACTAAGACAATCAA
*
64797721 TTAACTAAGACAATCAA
1 TGAACTAAGACAATCAA
64797738 TGAACTAA
1 TGAACTAA
64797746 CATTTGTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.24
Consensus pattern (17 bp):
TGAACTAAGACAATCAA
Found at i:64801703 original size:47 final size:47
Alignment explanation
Indices: 64801565--64801696 Score: 167
Period size: 47 Copynumber: 2.8 Consensus size: 47
64801555 GTACGAATGA
* **
64801565 TACCTTGATTTGGCTACTGGCCATGGTATAGGTATTCAAAGAGGAGT
1 TACCTTGATTTGGCTACTGGCCATGGTATAGGTACTCAAAGATAAGT
* * ***
64801612 TACCTT-AGTTTGGCTACAGGCCATGGTATAGATACTCCGGGATAAGT
1 TACCTTGA-TTTGGCTACTGGCCATGGTATAGGTACTCAAAGATAAGT
*
64801659 TACCTTGATTTGGCTACTGGTCATGGTATAGGTACTCA
1 TACCTTGATTTGGCTACTGGCCATGGTATAGGTACTCA
64801697 TCGATAAAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
46 1 0.01
47 69 0.97
48 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACTGGCCATGGTATAGGTACTCAAAGATAAGT
Found at i:64803635 original size:24 final size:26
Alignment explanation
Indices: 64803606--64803655 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
64803596 AGTTCATGCA
64803606 ATATTAAAGC-ATTTAA-ATACAAAT
1 ATATTAAAGCTATTTAACATACAAAT
64803630 ATATTAAAGCTTATTTAACATACAAA
1 ATATTAAAGC-TATTTAACATACAAA
64803656 CTTACCTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.43
26 6 0.26
27 7 0.30
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (26 bp):
ATATTAAAGCTATTTAACATACAAAT
Found at i:64809880 original size:57 final size:56
Alignment explanation
Indices: 64809819--64809951 Score: 144
Period size: 57 Copynumber: 2.3 Consensus size: 56
64809809 ATCATTATTC
* * *
64809819 ACATTTTGACAATATAAATATCTGCAC-TAAGAGACATTATGGC-ATCACCTATAAATT
1 ACATTTAGACAACATAAATA--TGCACATAAGAGACATTATGACAAT-ACCTATAAATT
* * *
64809876 ACATTTAGGCAACATAAATATGCACATTAAGAGACATTTTGACAATAGCTATAAATT
1 ACATTTAGACAACATAAATATGCACA-TAAGAGACATTATGACAATACCTATAAATT
* *
64809933 ACATTAAGACAGCATAAAT
1 ACATTTAGACAACATAAAT
64809952 TTAGAAATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
55 5 0.08
57 57 0.89
58 2 0.03
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (56 bp):
ACATTTAGACAACATAAATATGCACATAAGAGACATTATGACAATACCTATAAATT
Found at i:64811661 original size:68 final size:67
Alignment explanation
Indices: 64811574--64811726 Score: 177
Period size: 64 Copynumber: 2.3 Consensus size: 67
64811564 CATCATGTGT
* * * * *
64811574 ACAAGAGAGCTACAAGATATTATGATGTAGCTAGGTCGCATGGGTGATACTATGT-GTACACCAT
1 ACAAGAGAGCTACGAGATA-TAT-ATGTAACTAGGTCGCATGCGTGATACTAGGTAGGACACCAT
64811638 GTAG
64 GTAG
* * *
64811642 ACAAGAGAGCTACG-G-GATATATGTAACTAGGTCGCATGCGTGGTTCTAGGTAAGGACACCATG
1 ACAAGAGAGCTACGAGATATATATGTAACTAGGTCGCATGCGTGATACTAGGT-AGGACACCATG
64811705 TAG
65 TAG
*
64811708 ACAACAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
64811727 AACTGGCTAG
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
64 26 0.37
65 3 0.04
66 26 0.37
67 2 0.03
68 14 0.20
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATATATATGTAACTAGGTCGCATGCGTGATACTAGGTAGGACACCATGT
AG
Found at i:64814535 original size:45 final size:45
Alignment explanation
Indices: 64814471--64814561 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
64814461 AAAAGTCTAG
64814471 ACATTACTAGCCAAATAGAAAATTGCAACAAGTAATAACTTGAAA
1 ACATTACTAGCCAAATAGAAAATTGCAACAAGTAATAACTTGAAA
64814516 ACATTACTAGCCAAATAGAAAATTGCAACAAGTAATAACTTGAAA
1 ACATTACTAGCCAAATAGAAAATTGCAACAAGTAATAACTTGAAA
64814561 A
1 A
64814562 TATTTTTGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (45 bp):
ACATTACTAGCCAAATAGAAAATTGCAACAAGTAATAACTTGAAA
Found at i:64814560 original size:24 final size:24
Alignment explanation
Indices: 64814488--64814562 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
64814478 TAGCCAAATA
64814488 GAAAATTGCAACAAGTAATAACTT
1 GAAAATTGCAACAAGTAATAACTT
* ** *
64814512 GAAAA---CATTACTAGCCA-AA-TA
1 GAAAATTGCA--ACAAGTAATAACTT
64814533 GAAAATTGCAACAAGTAATAACTT
1 GAAAATTGCAACAAGTAATAACTT
64814557 GAAAAT
1 GAAAAT
64814563 ATTTTTGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 8 0.22
22 7 0.19
23 7 0.19
24 14 0.39
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.23
Consensus pattern (24 bp):
GAAAATTGCAACAAGTAATAACTT
Found at i:64822821 original size:117 final size:120
Alignment explanation
Indices: 64822686--64822918 Score: 364
Period size: 117 Copynumber: 2.0 Consensus size: 120
64822676 TTTAATTTTT
*
64822686 TTTATAATTTTATAAAATTTTAAATTAATAATAATAAATTTATACTTTCAACTCTTTAAAAATGA
1 TTTATAATTTTATAAAATTTTAAATTAATAATAATAAATTTATACTTTCAACTCTTTAAAAATAA
*
64822751 T-AAAAAATTAATTTAAT-TTTTAAAAACTATAAAGATATAAACTATTAAATTAG
66 TGAAAAAATTAATTTAATCTTTTAAAAACTATAAAAATATAAACTATTAAATTAG
* * *
64822804 TTTATAA-TTTATAAAATTTTAAATTAATAATGATAATTTTATACTTTGAACTCTTTAAAAATAA
1 TTTATAATTTTATAAAATTTTAAATTAATAATAATAAATTTATACTTTCAACTCTTTAAAAATAA
** * *
64822868 TGAAAATTTTAATTTAATCTTTTAAAAATTATAAAAATATAAATTATTAAA
66 TGAAAAAATTAATTTAATCTTTTAAAAACTATAAAAATATAAACTATTAAA
64822919 ATAATAAAAT
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
117 54 0.52
118 21 0.20
119 29 0.28
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (120 bp):
TTTATAATTTTATAAAATTTTAAATTAATAATAATAAATTTATACTTTCAACTCTTTAAAAATAA
TGAAAAAATTAATTTAATCTTTTAAAAACTATAAAAATATAAACTATTAAATTAG
Found at i:64822895 original size:31 final size:33
Alignment explanation
Indices: 64822820--64822905 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 33
64822810 ATTTATAAAA
*
64822820 TTTTAAATTAATAATGATAATTTTATACTTTGAAC
1 TTTTAAA--AATAATGAAAATTTTATACTTTGAAC
64822855 TCTTTAAAAATAATGAAAATTTTA-A-TTT-AATC
1 T-TTTAAAAATAATGAAAATTTTATACTTTGAA-C
* *
64822887 TTTTAAAAATTATAAAAAT
1 TTTTAAAAATAATGAAAAT
64822906 ATAAATTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
31 18 0.39
32 5 0.11
33 1 0.02
34 15 0.33
35 1 0.02
36 6 0.13
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (33 bp):
TTTTAAAAATAATGAAAATTTTATACTTTGAAC
Found at i:64822913 original size:15 final size:17
Alignment explanation
Indices: 64822892--64822932 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
64822882 TAATCTTTTA
64822892 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
64822908 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
64822924 AAAATTATA
1 AAAATTATA
64822933 TTTTTACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:64826096 original size:27 final size:27
Alignment explanation
Indices: 64826066--64826119 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
64826056 ATCCCTATGA
64826066 ATCAAACGAGCAAGAAAGTGACCACTC
1 ATCAAACGAGCAAGAAAGTGACCACTC
64826093 ATCAAACGAGCAAGAAAGTGACCACTC
1 ATCAAACGAGCAAGAAAGTGACCACTC
64826120 TTCCGCTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (27 bp):
ATCAAACGAGCAAGAAAGTGACCACTC
Found at i:64829560 original size:48 final size:46
Alignment explanation
Indices: 64829447--64829564 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 46
64829437 TATGTGAGCC
*
64829447 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAAGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAAGAAAGCT
* * * *
64829493 ATTGTAAGATATGTCTGGGACATGCATCGAC-TTCGGGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATT-GAGA-AGA-AAGCT
* *
64829541 AGTGTAAGACCTGTATGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
64829565 GCGTCAACTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
45 2 0.03
46 32 0.53
47 2 0.03
48 24 0.40
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAAGAAAGCT
Found at i:64830742 original size:28 final size:28
Alignment explanation
Indices: 64830702--64830765 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
64830692 CACGGGCTAA
*
64830702 GACACGAGCGTGTCATGGCCGTGTGAGG
1 GACACGAGCGTGTCATGGCAGTGTGAGG
*
64830730 GACACGGGCGTGTCATGGCAGTGTGAGG
1 GACACGAGCGTGTCATGGCAGTGTGAGG
*
64830758 GATACGAG
1 GACACGAG
64830766 TATGTGCCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.19, G:0.44, T:0.17
Consensus pattern (28 bp):
GACACGAGCGTGTCATGGCAGTGTGAGG
Found at i:64832397 original size:25 final size:25
Alignment explanation
Indices: 64832369--64832420 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
64832359 TGTATTGCTT
64832369 GCAAAAAGGCAAAATCAATGATCCA
1 GCAAAAAGGCAAAATCAATGATCCA
*
64832394 GCAAAAAGGCGAAATCAATGATCCA
1 GCAAAAAGGCAAAATCAATGATCCA
64832419 GC
1 GC
64832421 CACATGGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (25 bp):
GCAAAAAGGCAAAATCAATGATCCA
Found at i:64833676 original size:13 final size:13
Alignment explanation
Indices: 64833644--64833678 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
64833634 TGTTAAATGT
64833644 GCTTATTAATTAA
1 GCTTATTAATTAA
64833657 G-TCTATTAATTAA
1 GCT-TATTAATTAA
64833670 GCTTATTAA
1 GCTTATTAA
64833679 GTTGTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 18 0.90
14 1 0.05
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (13 bp):
GCTTATTAATTAA
Found at i:64835153 original size:21 final size:21
Alignment explanation
Indices: 64835115--64835164 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
64835105 TTAAGCAAAG
64835115 ATATAAAATTATTTAAAA-TAA
1 ATAT-AAATTATTTAAAAGTAA
*
64835136 ATATAAATTCTTTAAAAAGTAA
1 ATATAAATTATTT-AAAAGTAA
*
64835158 AAATAAA
1 ATATAAA
64835165 AAAGTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 8 0.32
22 9 0.36
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
ATATAAATTATTTAAAAGTAA
Found at i:64838833 original size:29 final size:29
Alignment explanation
Indices: 64838791--64838846 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
64838781 AAATTTCGAG
64838791 TCAAATTGAGTCGAGTTAACGAATCCTAC
1 TCAAATTGAGTCGAGTTAACGAATCCTAC
64838820 TCAAATTGAGTCGAGTTAACGAATCCT
1 TCAAATTGAGTCGAGTTAACGAATCCT
64838847 GTTATTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (29 bp):
TCAAATTGAGTCGAGTTAACGAATCCTAC
Found at i:64840225 original size:31 final size:31
Alignment explanation
Indices: 64840188--64840248 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
64840178 AGGGGGGAAA
64840188 AAAGAAAACAAAATTCTTCCATTATTTTCTG
1 AAAGAAAACAAAATTCTTCCATTATTTTCTG
64840219 AAAGAAAACAAAATTCTTCCATTATTTTCT
1 AAAGAAAACAAAATTCTTCCATTATTTTCT
64840249 TTCAAATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (31 bp):
AAAGAAAACAAAATTCTTCCATTATTTTCTG
Found at i:64840843 original size:11 final size:11
Alignment explanation
Indices: 64840829--64840858 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64840819 TGTTATTTTT
*
64840829 ATGAGTTTTGG
1 ATGAGCTTTGG
64840840 ATGAGCTTTGG
1 ATGAGCTTTGG
64840851 ATGAGCTT
1 ATGAGCTT
64840859 GAATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (11 bp):
ATGAGCTTTGG
Found at i:64843957 original size:18 final size:17
Alignment explanation
Indices: 64843923--64843957 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
64843913 CGATCAATTG
*
64843923 GGGCATGTGGGCCACAC
1 GGGCATGTGGCCCACAC
64843940 GGGCATGTGAGCCCACAC
1 GGGCATGTG-GCCCACAC
64843958 AAGTGAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.31, G:0.37, T:0.11
Consensus pattern (17 bp):
GGGCATGTGGCCCACAC
Found at i:64844090 original size:55 final size:55
Alignment explanation
Indices: 64843975--64844091 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
64843965 CCACACGGGT
** ** *
64843975 GTGTGGGATTCTGGGCCAGGCTGTGTGATTCACACAACCAAGGCCATTTTAGGGC
1 GTGTGGGATTCTAAGCCAGGCCATGTGATCCACACAACCAAGGCCATTTTAGGGC
* * * *
64844030 ATGTGGGATTCTAAGCCAGGCCATGTGATCCATACAGCCAAGGCTATTTT-GGGCC
1 GTGTGGGATTCTAAGCCAGGCCATGTGATCCACACAACCAAGGCCATTTTAGGG-C
64844085 GTGTGGG
1 GTGTGGG
64844092 CCCACACGGG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 3 0.06
55 48 0.94
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (55 bp):
GTGTGGGATTCTAAGCCAGGCCATGTGATCCACACAACCAAGGCCATTTTAGGGC
Found at i:64845416 original size:45 final size:45
Alignment explanation
Indices: 64845347--64845436 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
64845337 ATATACTTCA
*
64845347 CCACTTTGAGTTCGGGATCGGCTTTGGACACTAATTCAACGATCT
1 CCACCTTGAGTTCGGGATCGGCTTTGGACACTAATTCAACGATCT
*
64845392 CCACCTTGAGTTCGGGATCGGCTTTGGATACTAATTCAACGATCT
1 CCACCTTGAGTTCGGGATCGGCTTTGGACACTAATTCAACGATCT
64845437 GACTTTAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (45 bp):
CCACCTTGAGTTCGGGATCGGCTTTGGACACTAATTCAACGATCT
Found at i:64846845 original size:21 final size:19
Alignment explanation
Indices: 64846814--64846861 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
64846804 TTTCGTTCTC
64846814 CTTTCTTTTTC-TTTCTATT
1 CTTTCTTTTTCGTTTCT-TT
64846833 CTTTCTCTGTTTCGTTTCTTT
1 CTTTCT-T-TTTCGTTTCTTT
*
64846854 GTTTCTTT
1 CTTTCTTT
64846862 CCCTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.28
20 2 0.08
21 11 0.44
22 5 0.20
ACGTcount: A:0.02, C:0.21, G:0.06, T:0.71
Consensus pattern (19 bp):
CTTTCTTTTTCGTTTCTTT
Found at i:64846909 original size:5 final size:5
Alignment explanation
Indices: 64846899--64846967 Score: 97
Period size: 5 Copynumber: 14.2 Consensus size: 5
64846889 ATTCTTTAAT
* * *
64846899 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TACAA TACAA TACAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
64846949 TATAA TATAA T-T-A TATAA T
1 TATAA TATAA TATAA TATAA T
64846968 TATATTTTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 56 0.93
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:64853817 original size:16 final size:16
Alignment explanation
Indices: 64853783--64853819 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
64853773 AATTTTATTT
**
64853783 TAATAATAAATTTTTA
1 TAATAATAAATTTAAA
64853799 TAATAATAAATTTAAA
1 TAATAATAAATTTAAA
64853815 TAATA
1 TAATA
64853820 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAATAAATTTAAA
Found at i:64855191 original size:29 final size:29
Alignment explanation
Indices: 64855149--64855207 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
64855139 TCCGACATTG
64855149 GTATGTCGGGAGGCGGTCAATAATCCGTC
1 GTATGTCGGGAGGCGGTCAATAATCCGTC
64855178 GTATGTCGGGAGGCGGTCAATAATCCGTC
1 GTATGTCGGGAGGCGGTCAATAATCCGTC
64855207 G
1 G
64855208 GGACGATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (29 bp):
GTATGTCGGGAGGCGGTCAATAATCCGTC
Found at i:64860604 original size:25 final size:25
Alignment explanation
Indices: 64860576--64860625 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
64860566 ATGTACATTT
64860576 TAAA-TATTTTTAAAAATAATTAATA
1 TAAATTATTTTTAAAAATAA-TAATA
*
64860601 TAAATTATTTTTAAAATTAATAATA
1 TAAATTATTTTTAAAAATAATAATA
64860626 CATGATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAAATTATTTTTAAAAATAATAATA
Found at i:64860637 original size:26 final size:26
Alignment explanation
Indices: 64860580--64860640 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
64860570 ACATTTTAAA
*
64860580 TATTTTTAAAAATAATTAATATAAAT
1 TATTTTTAAAAATAATTAATACAAAT
* *
64860606 TATTTTTAAAATTAA-TAATACATGAT
1 TATTTTTAAAAATAATTAATACA-AAT
64860632 T-TTTTTAAA
1 TATTTTTAAA
64860641 GTTTAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
TATTTTTAAAAATAATTAATACAAAT
Found at i:64867211 original size:23 final size:22
Alignment explanation
Indices: 64867159--64867211 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
64867149 TCGACGTCTT
*
64867159 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
64867181 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
64867204 TTTCTTTT
1 TTTCTTTT
64867212 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:64872203 original size:24 final size:24
Alignment explanation
Indices: 64872176--64872227 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
64872166 TTAGTAAGTC
*
64872176 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
64872200 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
64872224 AAAT
1 AAAT
64872228 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:64873400 original size:37 final size:38
Alignment explanation
Indices: 64873344--64873422 Score: 142
Period size: 37 Copynumber: 2.1 Consensus size: 38
64873334 AATTGAAACT
64873344 TTTCAAAAATAATTACACTCTCTTCCTCCCCATAATTC
1 TTTCAAAAATAATTACACTCTCTTCCTCCCCATAATTC
*
64873382 TTTC-AAAATAATTTCACTCTCTTCCTCCCCATAATTC
1 TTTCAAAAATAATTACACTCTCTTCCTCCCCATAATTC
64873419 TTTC
1 TTTC
64873423 TTCTGATGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 36 0.90
38 4 0.10
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.41
Consensus pattern (38 bp):
TTTCAAAAATAATTACACTCTCTTCCTCCCCATAATTC
Found at i:64876021 original size:31 final size:31
Alignment explanation
Indices: 64875977--64876046 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
64875967 AACGGTCAGT
** *
64875977 GACCAAAAGAGAAAACTTCAAATATTTGGGC
1 GACCAAAAGAGAAAAAGTCAAATAGTTGGGC
* *
64876008 GACC-AAAGAAGAAAAAGTCAAGTAGTTGGGT
1 GACCAAAAG-AGAAAAAGTCAAATAGTTGGGC
64876039 GACCAAAA
1 GACCAAAA
64876047 AAAAAATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 4 0.12
31 25 0.78
32 3 0.09
ACGTcount: A:0.47, C:0.14, G:0.23, T:0.16
Consensus pattern (31 bp):
GACCAAAAGAGAAAAAGTCAAATAGTTGGGC
Found at i:64877150 original size:41 final size:41
Alignment explanation
Indices: 64877039--64877341 Score: 448
Period size: 41 Copynumber: 7.4 Consensus size: 41
64877029 CGTTTTAACA
* * * *
64877039 AAAACGTCGCTAAAAA-CAGAGCAATAGCGGCGTTTTTTTGTT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG--CTTTTGGT
* * * * *
64877081 AAAACACTGCTAAAAA-CAGAACAATAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
64877121 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
64877162 AAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
64877203 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
64877244 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 -AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
64877286 AAAACGCTGCTAAAAACCAGAGCATTTGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
64877327 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
64877342 GTCATATAAC
Statistics
Matches: 242, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
40 21 0.09
41 153 0.63
42 68 0.28
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:64877271 original size:124 final size:122
Alignment explanation
Indices: 64877039--64877341 Score: 446
Period size: 124 Copynumber: 2.5 Consensus size: 122
64877029 CGTTTTAACA
* * * * * *
64877039 AAAACGTCGCTAAAAA-CAGAGCAATAGCGGCGTTTTTTTGTTAAAACACTGCTAAAAACAGAAC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG--CTTTTGGTAAAACGCCGCTAAAAACAGAAC
*
64877103 AATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
64 AATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * *
64877162 AAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGTAAAACGCCGCAAAAAACCAGAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAA-CAGAACA
*
64877227 TTAGCGGCGCTTTTGGTAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
65 ATAGCGGCGCTTTTGGT-AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
64877286 AAAACGCTGCTAAAAACCAGAGCATTTGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
64877342 GTCATATAAC
Statistics
Matches: 162, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
122 19 0.12
123 36 0.22
124 107 0.66
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (122 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAACAA
TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:64877301 original size:83 final size:82
Alignment explanation
Indices: 64877039--64877341 Score: 448
Period size: 83 Copynumber: 3.7 Consensus size: 82
64877029 CGTTTTAACA
* * * * * * *
64877039 AAAACGTCGCTAAAAA-CAGAGCAATAGCGGCGTTTTTTTGTTAAAACACTGCTAAAAA-CAGAA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG--CTTTTGGTAAAACGCCGCTAAAAACCAGAG
* *
64877102 CAATAGCGGCGTTTTTGGT
64 CATTAGCGGCGCTTTTGGT
*
64877121 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAAAGCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
64877186 TTAGCGGCGCTTTTGGT
66 TTAGCGGCGCTTTTGGT
*
64877203 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAAACGCCGCTAAAAACCAGAGC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGCTAAAAACCAGAGC
64877268 ATTAGCGGCGCTTTTGGT
65 ATTAGCGGCGCTTTTGGT
* *
64877286 AAAACGCTGCTAAAAACCAGAGCATTTGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
64877342 GTCATATAAC
Statistics
Matches: 203, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
81 20 0.10
82 90 0.44
83 93 0.46
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTTGGT
Found at i:64877665 original size:15 final size:15
Alignment explanation
Indices: 64877642--64877695 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
64877632 TATTTTAAGT
*
64877642 TTTATGGATTATGGG
1 TTTAGGGATTATGGG
64877657 TTTAGGGATTAT-GG
1 TTTAGGGATTATGGG
*
64877671 TTTAAGGG-TTAGGGG
1 TTT-AGGGATTATGGG
*
64877686 TCTA-GGATTA
1 TTTAGGGATTA
64877696 AGAGTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 2 0.06
14 12 0.36
15 19 0.58
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (15 bp):
TTTAGGGATTATGGG
Found at i:64877668 original size:22 final size:21
Alignment explanation
Indices: 64877643--64877697 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
64877633 ATTTTAAGTT
*
64877643 TTATGGATTATGGGTTTAGGGA
1 TTATGGATTAAGGG-TTAGGGA
* *
64877665 TTATGGTTTAAGGGTTAGGGG
1 TTATGGATTAAGGGTTAGGGA
64877686 TCTA-GGATTAAG
1 T-TATGGATTAAG
64877698 AGTTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.24, C:0.02, G:0.36, T:0.38
Consensus pattern (21 bp):
TTATGGATTAAGGGTTAGGGA
Found at i:64877848 original size:14 final size:14
Alignment explanation
Indices: 64877831--64877869 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
64877821 ATCATTATAG
*
64877831 TTTAGGGTTTATTA
1 TTTAGGGTTTATGA
*
64877845 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
*
64877859 TTAAGGGTTTA
1 TTTAGGGTTTA
64877870 AGGTTTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:64878360 original size:19 final size:19
Alignment explanation
Indices: 64878316--64878360 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
64878306 AACAACATTG
* *
64878316 ATAACAAATAAAAATGACAT
1 ATAA-AAATAAAAATAAAAT
*
64878336 ACAAAAATAAAAATAAAAT
1 ATAAAAATAAAAATAAAAT
64878355 ATAAAA
1 ATAAAA
64878361 TAGGGATTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (19 bp):
ATAAAAATAAAAATAAAAT
Found at i:64883980 original size:43 final size:43
Alignment explanation
Indices: 64883867--64884028 Score: 184
Period size: 43 Copynumber: 3.8 Consensus size: 43
64883857 GGTTATATTT
* * * * * *
64883867 TTTAGCGGCGTTTATGTGAAAAGCGTCGCTAACGGTC-TGTTC
1 TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTC
* * * *
64883909 TATAGCGGCGTTTGT-GAAAAAAGTGCCGCTAAAAGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAA-CGCCGCTAAAGGTCATGGTC
*
64883952 TTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTC
* *
64883995 TTTAGCGGCGTTTGCGAGAAAAACGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAG
64884029 ACAAGGACCT
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
41 4 0.04
42 23 0.23
43 66 0.67
44 6 0.06
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTC
Found at i:64884041 original size:43 final size:42
Alignment explanation
Indices: 64883867--64884049 Score: 181
Period size: 43 Copynumber: 4.3 Consensus size: 42
64883857 GGTTATATTT
* * * * * *
64883867 TTTAGCGGCGTTTATGTGAAAAGCGTCGCTAACGGTC-TGTTC
1 TTTAGCGGCGTTTGTGAGAAAAACGCCGCTAA-AGTCATGGTC
* *
64883909 TATAGCGGCGTTTGTGA-AAAAAGTGCCGCTAAAAGTCATGGTC
1 TTTAGCGGCGTTTGTGAGAAAAA-CGCCGCT-AAAGTCATGGTC
* *
64883952 TTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAGAAAAACGCCGCTAAA-GTCATGGTC
* * * *
64883995 TTTAGCGGCGTTTGCGAGAAAAACGCCGCTAAAGACAAGGACC
1 TTTAGCGGCGTTTGTGAGAAAAACGCCGCTAAAGTCATGG-TC
64884038 TTTAGCGGCGTT
1 TTTAGCGGCGTT
64884050 GCATATAGCG
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
41 4 0.03
42 30 0.26
43 78 0.67
44 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGAGAAAAACGCCGCTAAAGTCATGGTC
Found at i:64884041 original size:86 final size:85
Alignment explanation
Indices: 64883867--64884049 Score: 208
Period size: 85 Copynumber: 2.1 Consensus size: 85
64883857 GGTTATATTT
* * * * * *
64883867 TTTAGCGGCGTTTATGTGAAAAGCGTCGCTAACGGTCTGTTCTATAGCGGCGTTTGTGAAAAAAG
1 TTTAGCGGCGTTTATGGGAAAAACGCCGCTAAAGGTCTGGTCTATAGCGGCGTTTGCGAAAAAAG
* * * *
64883932 TGCCGCTAAAAGTCATGGTC
66 CGCCGCTAAAAGACAAGGCC
* * *
64883952 TTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAA
1 TTTAGCGGCGTTTATGGGAAAAACGCCGCTAAAGGTC-TGGTCTATAGCGGCGTTTGCGA-AAAA
64884017 A-CGCCGCT-AAAGACAAGGACC
64 AGCGCCGCTAAAAGACAAGG-CC
64884038 TTTAGCGGCGTT
1 TTTAGCGGCGTT
64884050 GCATATAGCG
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
85 39 0.48
86 37 0.46
87 5 0.06
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (85 bp):
TTTAGCGGCGTTTATGGGAAAAACGCCGCTAAAGGTCTGGTCTATAGCGGCGTTTGCGAAAAAAG
CGCCGCTAAAAGACAAGGCC
Found at i:64892239 original size:20 final size:20
Alignment explanation
Indices: 64892214--64892253 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
64892204 TGTCATTAAG
64892214 TTAACAAAAACTTCACAAAC
1 TTAACAAAAACTTCACAAAC
64892234 TTAACAAAAACTTCACAAAC
1 TTAACAAAAACTTCACAAAC
64892254 ACGCTGAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (20 bp):
TTAACAAAAACTTCACAAAC
Found at i:64905743 original size:13 final size:11
Alignment explanation
Indices: 64905712--64905741 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
64905702 GACAGATTTC
64905712 TTAAAAATATT
1 TTAAAAATATT
64905723 TTAAAAATATT
1 TTAAAAATATT
64905734 TTATAAAA
1 TTA-AAAA
64905742 ATTGTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:64906204 original size:14 final size:14
Alignment explanation
Indices: 64906177--64906255 Score: 52
Period size: 14 Copynumber: 5.4 Consensus size: 14
64906167 TGAATATTTT
* *
64906177 TAATAATATGTAAA
1 TAATATTATTTAAA
64906191 TAATATTATTTAAA
1 TAATATTATTTAAA
* *
64906205 AAATTATTATTAAAA
1 TAA-TATTATTTAAA
*
64906220 TAAAATTGAACTATTAAA
1 TAATATT--A-T-TTAAA
*
64906238 TAAT-TTATTAAAA
1 TAATATTATTTAAA
64906251 TAATA
1 TAATA
64906256 AATTATATTA
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
13 8 0.16
14 18 0.36
15 13 0.26
16 1 0.02
17 3 0.06
18 7 0.14
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.41
Consensus pattern (14 bp):
TAATATTATTTAAA
Found at i:64906276 original size:16 final size:16
Alignment explanation
Indices: 64906231--64906279 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
64906221 AAAATTGAAC
64906231 TATTAAATAATTTATTA
1 TATT-AATAATTTATTA
**
64906248 -A--AATAATAAATTA
1 TATTAATAATTTATTA
64906261 TATTAATAATTTATTA
1 TATTAATAATTTATTA
64906277 TAT
1 TAT
64906280 GACTTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
16 14 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAATAATTTATTA
Found at i:64915907 original size:39 final size:39
Alignment explanation
Indices: 64915853--64915930 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
64915843 TTTTTTGATT
*
64915853 TCTCTAAATTTTAGGGTCAAGTTGTAAATATAAAAAATA
1 TCTCTAAACTTTAGGGTCAAGTTGTAAATATAAAAAATA
*
64915892 TCTCTAAACTTTAGGGTCAAGTTGTAAATATGAAAAATA
1 TCTCTAAACTTTAGGGTCAAGTTGTAAATATAAAAAATA
64915931 ATGACCCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (39 bp):
TCTCTAAACTTTAGGGTCAAGTTGTAAATATAAAAAATA
Found at i:64916176 original size:17 final size:16
Alignment explanation
Indices: 64916123--64916180 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
64916113 TAATCACTTT
64916123 AATATTAAATT-AATA
1 AATATTAAATTAAATA
* *
64916138 AA-ATGATATTAAGATA
1 AATATTAAATTAA-ATA
*
64916154 AGTATTAAATTAAATTA
1 AATATTAAATTAAA-TA
64916171 AATATTAAAT
1 AATATTAAAT
64916181 CTATTAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
14 6 0.18
15 3 0.09
16 5 0.15
17 19 0.58
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
AATATTAAATTAAATA
Found at i:64917444 original size:16 final size:17
Alignment explanation
Indices: 64917416--64917451 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
64917406 AAATCACACC
64917416 ATTAATGTCACAAATGA
1 ATTAATGTCACAAATGA
64917433 ATTAAT-TCACAAATGA
1 ATTAATGTCACAAATGA
64917449 ATT
1 ATT
64917452 TAGAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (17 bp):
ATTAATGTCACAAATGA
Found at i:64919117 original size:26 final size:26
Alignment explanation
Indices: 64919088--64919141 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
64919078 TCCTTATAGT
64919088 CTCTTTGTGAGCTTCCTGATTA-ATGG
1 CTCTTTGTGAGCTTCCTG-TTATATGG
64919114 CTCTTTGTGAGCTTCCTGTTATATGG
1 CTCTTTGTGAGCTTCCTGTTATATGG
64919140 CT
1 CT
64919142 TAAGAGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.44
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCTGTTATATGG
Found at i:64926172 original size:56 final size:56
Alignment explanation
Indices: 64926086--64926261 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
64926076 ACAAGGGATG
*
64926086 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
64926142 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
64926198 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
64926254 ATGGGCAA
1 ATGGGCAA
64926262 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:64927530 original size:40 final size:40
Alignment explanation
Indices: 64927299--64927523 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
64927289 TCGAATGATG
* * * *
64927299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
64927339 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64927379 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64927418 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64927458 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
64927499 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64927524 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64927530 original size:80 final size:79
Alignment explanation
Indices: 64927355--64927556 Score: 248
Period size: 80 Copynumber: 2.5 Consensus size: 79
64927345 CTAAGATCTG
* *
64927355 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 AAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAAT
* *
64927419 CCGGGTTAAGTCCCG
65 CCGGGCTAAGTCCCA
*
64927434 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 AAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AA
*
64927499 -CCGGGCTATGTCCCA
64 TCCGGGCTAAGTCCCA
** * * *
64927514 AAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 AAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAAGTCCCGAAGG
64927557 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
79 48 0.44
80 58 0.54
81 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATC
CGGGCTAAGTCCCA
Found at i:64927545 original size:119 final size:119
Alignment explanation
Indices: 64927299--64927556 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
64927289 TCGAATGATG
* * *
64927299 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCTGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
64927364 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAA
* * * **
64927418 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
64927481 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-CTAAA
* *
64927538 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
64927557 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAA
Found at i:64939548 original size:48 final size:47
Alignment explanation
Indices: 64939492--64939589 Score: 178
Period size: 48 Copynumber: 2.1 Consensus size: 47
64939482 TTCGCCAATT
*
64939492 AAGCACAAATACAAGGAAAACACTTGAACGAATAAAAAAATACAATGA
1 AAGCACAAATACAAGGAAAACACTTAAACGAAT-AAAAAATACAATGA
64939540 AAGCACAAATACAAGGAAAACACTTAAACGAATAAAAAATACAATGA
1 AAGCACAAATACAAGGAAAACACTTAAACGAATAAAAAATACAATGA
64939587 AAG
1 AAG
64939590 TTCACAAGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 17 0.35
48 32 0.65
ACGTcount: A:0.61, C:0.14, G:0.12, T:0.12
Consensus pattern (47 bp):
AAGCACAAATACAAGGAAAACACTTAAACGAATAAAAAATACAATGA
Found at i:64942253 original size:18 final size:18
Alignment explanation
Indices: 64942239--64942276 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
64942229 GATCACATGT
64942239 CCGTGTACTATCACACGG
1 CCGTGTACTATCACACGG
64942257 CCGTGTACTATCACACGG
1 CCGTGTACTATCACACGG
64942275 CC
1 CC
64942277 TACCATACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (18 bp):
CCGTGTACTATCACACGG
Found at i:64947723 original size:60 final size:60
Alignment explanation
Indices: 64947655--64947774 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
64947645 TTGTGATCCC
64947655 GTTGAACTTCTTAATATCCAAATTTTTTATTGTGTGATAAACCGTAATTTATACATATTT
1 GTTGAACTTCTTAATATCCAAATTTTTTATTGTGTGATAAACCGTAATTTATACATATTT
64947715 GTTGAACTTCTTAATATCCAAATTTTTTATTGTGTGATAAACCGTAATTTATACATATTT
1 GTTGAACTTCTTAATATCCAAATTTTTTATTGTGTGATAAACCGTAATTTATACATATTT
64947775 TTATCCCATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (60 bp):
GTTGAACTTCTTAATATCCAAATTTTTTATTGTGTGATAAACCGTAATTTATACATATTT
Found at i:64948088 original size:13 final size:13
Alignment explanation
Indices: 64948070--64948108 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
64948060 TAGGTAATCA
*
64948070 CACATGGGCGTGT
1 CACATGGGCATGT
64948083 CACATGGGCATGT
1 CACATGGGCATGT
*
64948096 CACACGGGCATGT
1 CACATGGGCATGT
64948109 AACACAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.21
Consensus pattern (13 bp):
CACATGGGCATGT
Found at i:64954094 original size:14 final size:12
Alignment explanation
Indices: 64954065--64954099 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
64954055 TTTAAAATTT
64954065 TTTTATTTTTTA
1 TTTTATTTTTTA
64954077 TTTTATGTTTTTA
1 TTTTAT-TTTTTA
64954090 CTTTTATTTT
1 -TTTTATTTT
64954100 ATTTTAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 6 0.29
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:64954495 original size:20 final size:20
Alignment explanation
Indices: 64954472--64954511 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
64954462 AGCTCATTCA
64954472 TCATTCAGGAAGTTTCACTT
1 TCATTCAGGAAGTTTCACTT
64954492 TCATTCAGGAAGTTTCACTT
1 TCATTCAGGAAGTTTCACTT
64954512 CTCTCCCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
TCATTCAGGAAGTTTCACTT
Found at i:64960109 original size:40 final size:38
Alignment explanation
Indices: 64960026--64960113 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 38
64960016 GTCCAACCCA
*
64960026 ACACACCATGTAGGGATAAAATCGACCCACCTATCCCT
1 ACACACCATATAGGGATAAAATCGACCCACCTATCCCT
* * *
64960064 GCACACCATATATGGGGATAAAATCGACCCGTCC-ATCCTT
1 ACACACCATATA--GGGATAAAATCGACCC-ACCTATCCCT
64960104 ACACACCATA
1 ACACACCATA
64960114 AGGTACTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 10 0.24
40 30 0.71
41 2 0.05
ACGTcount: A:0.34, C:0.33, G:0.14, T:0.19
Consensus pattern (38 bp):
ACACACCATATAGGGATAAAATCGACCCACCTATCCCT
Found at i:64962322 original size:39 final size:39
Alignment explanation
Indices: 64962205--64962466 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
64962195 GCTCCTCGTT
* *
64962205 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
64962245 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
64962285 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
64962324 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64962363 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
64962402 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
64962443 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
64962467 CATCATTCAA
Statistics
Matches: 202, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
39 130 0.64
40 61 0.30
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:64962454 original size:117 final size:119
Alignment explanation
Indices: 64962205--64962463 Score: 327
Period size: 118 Copynumber: 2.2 Consensus size: 119
64962195 GCTCCTCGTT
* **
64962205 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCAGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
* *
64962268 GGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
*
64962324 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
64962387 AATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
66 AATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCA
64962443 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
64962464 GGACATCATT
Statistics
Matches: 124, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
117 46 0.37
118 53 0.43
119 25 0.20
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
Found at i:64970278 original size:40 final size:40
Alignment explanation
Indices: 64970234--64970495 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
64970224 GCTACTTGTT
* * *
64970234 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
64970274 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
64970314 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
64970353 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
64970392 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
64970431 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
64970472 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64970496 CATCATTCAA
Statistics
Matches: 202, Mismatches: 12, Indels: 17
0.87 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.63
40 61 0.30
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:64978509 original size:40 final size:40
Alignment explanation
Indices: 64978450--64978537 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
64978440 ATCCAACCCA
*
64978450 ACACACCATGTA--GGGATAAAATCGACCCACCCATCCCT
1 ACACACCATATATGGGGATAAAATCGACCCACCCATCCCT
* ** *
64978488 GCACACCATATATGGGGATAAAATCGACCCGTCCATTCCT
1 ACACACCATATATGGGGATAAAATCGACCCACCCATCCCT
64978528 ACACACCATA
1 ACACACCATA
64978538 AGGTACTGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 10 0.24
40 32 0.76
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.18
Consensus pattern (40 bp):
ACACACCATATATGGGGATAAAATCGACCCACCCATCCCT
Found at i:64980376 original size:8 final size:8
Alignment explanation
Indices: 64980365--64980397 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
64980355 AATTTAGCCC
64980365 TCACATTT
1 TCACATTT
64980373 TCACATTT
1 TCACATTT
64980381 TCACATTT
1 TCACATTT
*
64980389 TAACATTT
1 TCACATTT
64980397 T
1 T
64980398 AGTCCATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:64981460 original size:49 final size:48
Alignment explanation
Indices: 64981264--64981483 Score: 173
Period size: 49 Copynumber: 4.6 Consensus size: 48
64981254 CATCGAGGCT
** * **
64981264 GATGCCATGTCCCAGACAGGTCTTACACCGGCTCTCACTTATCTTTGTT
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCAC-TATCTGTGCC
* * * * **
64981313 GATGCCATGTCCCAGACAGGTCTTACGCTA--ACACAC-CTC-AAGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTATCTGTGCC
* * * * *
64981357 AATGCCATGTCCTAAACAGGTCTTACACTAGCT-TGCA-TATCTTGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CACTATC-TG-TGCC
64981406 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTGTGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCAC-TATCTGTGCC
* * * *
64981455 CATGCCCTATCCCAGACAGATCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
64981484 GACACACATT
Statistics
Matches: 132, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
44 27 0.20
45 2 0.02
46 4 0.03
47 4 0.03
49 88 0.67
50 3 0.02
51 4 0.03
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTATCTGTGCC
Found at i:64992219 original size:129 final size:129
Alignment explanation
Indices: 64991855--64992305 Score: 622
Period size: 129 Copynumber: 3.5 Consensus size: 129
64991845 AACGAAAAAC
* ** * * * * * * *
64991855 CGAAACCCAACACGGTAGGACACGATTCCTCGAATTTCCAAACATTGAACATTGCCTCGCTTTAG
1 CGAAACCCAGCACAATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
* * * *
64991920 CATTT--AGAAAACACGAGCAAAATTCCAAAGGAATATTTGATTATTTTGAACAAACGGAGAAAT
66 CATTTGGAAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGG-GAAAT
** * *
64991983 CGAAACCCAGCACAATAGGGCACTATTCCCTAAATTTCTAAACATCGAATATTGCCTTGTTTTAA
1 CGAAACCCAGCACAATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
* *
64992048 CATTTGG-AAAAACACGAGTAAAATTCTAAAGGAGTATTCGATTATTTTAAACAAACGGGAAAT
66 CATTTGGAAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
* *
64992111 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCATTGTTTTAG
1 CGAAACCCAGCACAATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
*
64992176 CGTTTGGAAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
66 CATTTGGAAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
* *
64992240 CGAAACCCAGCACAATAGGGCCCTATTCCCCGCATTTCCAAACATC-AGATATTGCCTTTGTTTT
1 CGAAACCCAGCACAATAGGGCACTATTCCCCGAATTTCCAAACATCGA-ATATTGCC-TTGTTTT
64992304 AG
64 AG
64992306 TGAATCTTCA
Statistics
Matches: 285, Mismatches: 33, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
128 127 0.45
129 149 0.52
130 9 0.03
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (129 bp):
CGAAACCCAGCACAATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
CATTTGGAAAAAACACGAGTAAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
Found at i:64995239 original size:176 final size:176
Alignment explanation
Indices: 64994971--64995706 Score: 916
Period size: 176 Copynumber: 4.2 Consensus size: 176
64994961 TGTGATTTTT
* * * * *
64994971 AGCCTGTTACCCTACTGCTTAGGGGGTCAAGGCTCACCGTCTTTGATCTATTCCACTGCAACTTC
1 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCAGCTTC
* * *
64995036 TA-GGAGGCAAGATCTGCAATCTTCAGCCCGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTC
66 -AGGGAGACAAGATCGGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTC
*
64995100 TTCGATTTGCTCCACTACTGTTTAGGGAGGCAAGATCTACAATCTTC
130 TTCGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACAATCTTC
**
64995147 ATTCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCAGCTTC
1 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCAGCTTC
* **
64995212 AGGGAGACAAGATCGGCAATCTTCAGCCTATTACCCTACTACTTAGTAGGTTAAGGCTTGCTTCT
66 AGGGAGACAAGATCGGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCT
* * * *
64995277 TCGATTTTCTCCACTACTATTTAGGGGGACAAGATCTACAATCTTT
131 TCGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACAATCTTC
**
64995323 AGCCTGTTA-CC--CTACTTAGGGGGTTAAGGCTCGTTGTCTTTGATCTGTTCCACTGCAGCTTC
1 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCAGCTTC
* *
64995385 AGAGAGAAAAGATCTGG-AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTC
66 AGGGAGACAAGATC-GGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTC
* * *
64995449 TTTGATTTGCTCCACTACTGTTTAGGGAGACAAGATTTACAATCTTT
130 TTCGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACAATCTTC
* * * ** * **
64995496 AGCCTATTACACTACTACTTAGGGGGTTAAGGCTTGCTTTCTTCGATCTGTTCCACT--ATTATT
1 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCA-GCTT
* * ** * * * *
64995559 TAGGGAGACAATATCTACAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTTAAAGCTCGCCGT
65 CAGGGAGACAAGATCGGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG-CTT
* * * *
64995624 CTTTGATCTG-T--TCTACTGTAACTTCAGGGAGACAAGATCTGCAATCTTC
129 CTTCGATTTGCTCCACTACTGT---TT-AGGGAGACAAGATCTACAATCTTC
*
64995673 AGCCTATTACCCTACTACTTAGGGGGTTAAGGCT
1 AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCT
64995707 TGCTTCTTCA
Statistics
Matches: 492, Mismatches: 56, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
173 162 0.33
174 4 0.01
175 57 0.12
176 215 0.44
177 54 0.11
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (176 bp):
AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTTTGATCTGTTCCACTGCAGCTTC
AGGGAGACAAGATCGGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCT
TCGATTTGCTCCACTACTGTTTAGGGAGACAAGATCTACAATCTTC
Found at i:64995908 original size:64 final size:63
Alignment explanation
Indices: 64995806--64995996 Score: 301
Period size: 64 Copynumber: 3.0 Consensus size: 63
64995796 CTGTATGGCT
* * *
64995806 ATGCTTATGTCAAATGACTAGGATGCTATGCTCAAAATGAATTAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATG-ACAAAATGAATTAAATGCTCCTAACTAGATGTG
64995870 ATGCTTATGTCAAATAATTAGGATGCTATGACAGAAATGAATTAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGACA-AAATGAATTAAATGCTCCTAACTAGATGTG
* * *
64995934 ATGCTTATGTTAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGT
1 ATGCTTATGTCAAATAATTAGGATGCTATGA-CAAAATGAATTAAATGCTCCTAACTAGATGT
64995997 ATTATGAATG
Statistics
Matches: 119, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
63 2 0.02
64 115 0.97
65 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (63 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGACAAAATGAATTAAATGCTCCTAACTAGATGTG
Found at i:64998370 original size:90 final size:91
Alignment explanation
Indices: 64998213--64998397 Score: 338
Period size: 90 Copynumber: 2.1 Consensus size: 91
64998203 GAGCTAGGCT
* *
64998213 TTGA-TCTTTACCTCTTTTCTTCTCTTAGGTTCGCGATGTCCATTGCCCCTTTTTAAGGTAGGAT
1 TTGACTCTTTACCTCTTTTCTTCTCTTAGGTTCACGATGTCCATTGCCCCTTTGTAAGGTAGGAT
64998277 CTATTTCTCATCTTGTTCTACCAT-C
66 CTATTTCTCATCTTGTTCTACCATCC
64998302 TTGACTCTTTACCTCTTTTCTTCTCTTAGGTTCACGATGTCCATTGCCCCTTTGTAAGGTAGGAT
1 TTGACTCTTTACCTCTTTTCTTCTCTTAGGTTCACGATGTCCATTGCCCCTTTGTAAGGTAGGAT
64998367 CTATTTCTCATCTTGTTCTACCATCC
66 CTATTTCTCATCTTGTTCTACCATCC
64998393 TTGAC
1 TTGAC
64998398 AAATCAGGAG
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
89 4 0.04
90 82 0.89
91 6 0.07
ACGTcount: A:0.15, C:0.26, G:0.14, T:0.45
Consensus pattern (91 bp):
TTGACTCTTTACCTCTTTTCTTCTCTTAGGTTCACGATGTCCATTGCCCCTTTGTAAGGTAGGAT
CTATTTCTCATCTTGTTCTACCATCC
Found at i:65001711 original size:128 final size:128
Alignment explanation
Indices: 65001458--65001907 Score: 659
Period size: 128 Copynumber: 3.5 Consensus size: 128
65001448 AACAAAAAAC
* * * * * * * * *
65001458 CGAAACCCAGAACGGTAGGGCACGATTCCTCAAATTTCCAAACATTGAACATTGCCTCGCTTTAG
1 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
* * ** * * *
65001523 CATTTAG-AAAACACGAGCGAAATTCCAAAGGAATATTCGATTATTTTGGACAAACGGGGAAAT
66 CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTTGATTATTTTGAACAAAC-GGGAAAT
*
65001586 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGTCTTGTTTTAG
1 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
65001651 CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTTGATTATTTTGAACAAACGGGAAAT
66 CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTTGATTATTTTGAACAAACGGGAAAT
* *
65001714 CGAAACACAGCACGATAAGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
1 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
*
65001779 CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTTGATTATTTTAAACAAACGGGAAAT
66 CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTTGATTATTTTGAACAAACGGGAAAT
* * * *
65001842 CGAAACCCAGCACGATAGGGCCCTATTCCCTGCATTTCCAAACATCGGATATTGCCTTTGTTTTA
1 CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCC-TTGTTTTA
65001907 G
65 G
65001908 TGAATCTTCA
Statistics
Matches: 293, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
128 241 0.82
129 52 0.18
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (128 bp):
CGAAACCCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTGTTTTAG
CGTTTGGAAAAACACGAGTAAAATTCTAAAGGAATATTTGATTATTTTGAACAAACGGGAAAT
Found at i:65007952 original size:28 final size:28
Alignment explanation
Indices: 65007889--65008039 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
65007879 ATATTAAGTC
*
65007889 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
65007916 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
65007944 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
65007972 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
65008000 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
65008029 CGCACACTTAG
1 CGCACACTTAG
65008040 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:65017669 original size:24 final size:24
Alignment explanation
Indices: 65017642--65017691 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
65017632 TGGTTTAGGG
*
65017642 TTAGGGTTTAGTGGTTTAAG-GTTT
1 TTAGGGTTGAG-GGTTTAAGTGTTT
*
65017666 TTAGGGTTGAGGGTTTTAGTGTTT
1 TTAGGGTTGAGGGTTTAAGTGTTT
65017690 TT
1 TT
65017692 TAAGGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (24 bp):
TTAGGGTTGAGGGTTTAAGTGTTT
Found at i:65018050 original size:126 final size:125
Alignment explanation
Indices: 65017810--65018117 Score: 485
Period size: 126 Copynumber: 2.4 Consensus size: 125
65017800 ATTAACTATT
* *
65017810 AATTACGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTG-AAAAATAATTTT
1 AATTACG-AAAAAAGCTCCTACATGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
* * * *
65017874 GAGAAGATGTTCTGGAACGAATAGTGTCAAAAACGCTTCAAGAAGAATGCACTGTCAGCAA
65 GAGAAGATGTTCTGGAACAAACAATGTCAAAAACGCTTCAAGAAGAATGCACTGTCAACAA
65017935 AATTACAGAAAAAAGCTCCTACATGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
1 AATTAC-GAAAAAAGCTCCTACATGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
* *
65018000 GAGAAGATGTTTCT-GAACAAACAATGTCAAAAATGCTTCAAGAAGGATGCACTGTCAACAA
65 GAGAAGATG-TTCTGGAACAAACAATGTCAAAAACGCTTCAAGAAGAATGCACTGTCAACAA
*
65018061 AATTACGGAAAAAAGCTCCTAAATGGACGCTCTTTTGCTACAGTAGTATCTGAAAAA
1 AATTAC-GAAAAAAGCTCCTACATGGACGCTCTTTTGCTACAGTAGTATCTGAAAAA
65018118 GCCTTAGACT
Statistics
Matches: 170, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
125 48 0.28
126 118 0.69
127 4 0.02
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (125 bp):
AATTACGAAAAAAGCTCCTACATGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTG
AGAAGATGTTCTGGAACAAACAATGTCAAAAACGCTTCAAGAAGAATGCACTGTCAACAA
Found at i:65021201 original size:38 final size:39
Alignment explanation
Indices: 65021159--65021240 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
65021149 CTAAAAATAT
* *
65021159 TAAAAA-TATTGCCGT-ATTCAAAATAACATTTATTTTAA
1 TAAAAATTATTGCC-TAATTCAAAAGAACATTTATTGTAA
* * *
65021197 TAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTAT
1 TAAAAATTATTGCCTAATTCAAAAGAACATTTATTGTAA
65021236 TAAAA
1 TAAAA
65021241 TTAAAAAAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 7 0.19
39 30 0.81
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (39 bp):
TAAAAATTATTGCCTAATTCAAAAGAACATTTATTGTAA
Found at i:65021317 original size:15 final size:15
Alignment explanation
Indices: 65021297--65021328 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65021287 TATTAATTAA
*
65021297 AACTATATAAATAAT
1 AACTATAAAAATAAT
65021312 AACTATAAAAATAAT
1 AACTATAAAAATAAT
65021327 AA
1 AA
65021329 AATATTGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AACTATAAAAATAAT
Found at i:65021523 original size:132 final size:129
Alignment explanation
Indices: 65021194--65021570 Score: 575
Period size: 132 Copynumber: 2.9 Consensus size: 129
65021184 ACATTTATTT
* * *
65021194 TAATAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTATTAAAATT--AAAAAAGTAAAGTA
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAGTAAAGTA
* *
65021257 CAATTAAAATATTAAAAAAAACTTTTATTTTATTAATTAAAACTATATAAATAATAACTATAAAA
66 CAATTAAAATATT-AAAAAAACTTTTATTTTATTAATTGAAACTATATAAA-AATAAATATAAAA
65021322 A
129 A
*
65021323 TAAT--AAAATATTGGCAAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAGTAAAGTA
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAGTAAAGTA
*
65021386 TAATTAAAATATTAAAAAAACTTTTATTTTATTAATTGAAACTATATAAAAATTAAATATAAAAA
66 CAATTAAAATATTAAAAAAACTTTTATTTTATTAATTGAAACTATATAAAAA-TAAATATAAAAA
* *
65021451 TAATAAAAAAAATATTGCCTAATTTAAAAGAATATTTATTTTAATAAAATTAAAAAAAAGTAAAG
1 TAAT--AAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAGTAAAG
65021516 TACAATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAA
64 TACAATTAAAATATTAAAAA-AACTTTTATTTTATTAAT-TGAAACTATATAAAAA
65021571 AATTCTACAA
Statistics
Matches: 228, Mismatches: 11, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
127 41 0.18
128 51 0.22
129 30 0.13
132 75 0.33
133 31 0.14
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (129 bp):
TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAGTAAAGTA
CAATTAAAATATTAAAAAAACTTTTATTTTATTAATTGAAACTATATAAAAATAAATATAAAAA
Found at i:65021699 original size:21 final size:22
Alignment explanation
Indices: 65021674--65021726 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
65021664 TGGTTCAGCT
*
65021674 TCCGGCGAGGG-TTGTGGTTGC
1 TCCGGCGAGGGATTGTGGTTCC
*
65021695 TCCGGTG-GGGATTGTGGTTCC
1 TCCGGCGAGGGATTGTGGTTCC
65021716 TCCGGCAGAGG
1 TCCGGC-GAGG
65021727 ATCTGGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 1 0.04
23 2 0.08
ACGTcount: A:0.08, C:0.21, G:0.45, T:0.26
Consensus pattern (22 bp):
TCCGGCGAGGGATTGTGGTTCC
Found at i:65022135 original size:13 final size:13
Alignment explanation
Indices: 65022088--65022135 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
65022078 GGTGGCTGTG
65022088 TGGGCGCTGTTGA
1 TGGGCGCTGTTGA
*
65022101 TGGGCCCGGTGATTGTA
1 TGGG--CGCTG-TTG-A
65022118 TGGGCGCTGTTGA
1 TGGGCGCTGTTGA
65022131 TGGGC
1 TGGGC
65022136 CCGCGTCGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 10 0.34
14 3 0.10
15 8 0.28
16 3 0.10
17 5 0.17
ACGTcount: A:0.08, C:0.17, G:0.46, T:0.29
Consensus pattern (13 bp):
TGGGCGCTGTTGA
Found at i:65023851 original size:11 final size:10
Alignment explanation
Indices: 65023820--65023870 Score: 57
Period size: 11 Copynumber: 4.7 Consensus size: 10
65023810 TTAACAAAAA
65023820 TTGAGAGAAAT
1 TTGAGAG-AAT
65023831 TTGAGAGAAT
1 TTGAGAGAAT
65023841 TTGGAGAGAAT
1 TT-GAGAGAAT
*
65023852 TTAGATAGAAT
1 TT-GAGAGAAT
65023863 TGTGAGAG
1 T-TGAGAG
65023871 GACTATTGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.14
11 29 0.83
12 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:65023869 original size:22 final size:21
Alignment explanation
Indices: 65023820--65023870 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
65023810 TTAACAAAAA
65023820 TTGAGAGAAATTTGAGAGAAT
1 TTGAGAGAAATTTGAGAGAAT
*
65023841 TTG-GAGAGAATTTAGATAGAAT
1 TTGAGAGA-AATTT-GAGAGAAT
65023863 TGTGAGAG
1 T-TGAGAG
65023871 GACTATTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.16
21 8 0.32
22 8 0.32
23 2 0.08
24 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (21 bp):
TTGAGAGAAATTTGAGAGAAT
Found at i:65025047 original size:26 final size:26
Alignment explanation
Indices: 65025018--65025110 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 26
65025008 CTTGAACCGA
65025018 TGTTTATTTAGCAGGCATTGAGCCAG
1 TGTTTATTTAGCAGGCATTGAGCCAG
* *
65025044 TG-TTATTTAGTAGGCCTTGAGCC-G
1 TGTTTATTTAGCAGGCATTGAGCCAG
* *
65025068 ATGTTTATTTAGCAGGCTTTGAGCAAG
1 -TGTTTATTTAGCAGGCATTGAGCCAG
* * *
65025095 TGATTAATTAGTAGGC
1 TGTTTATTTAGCAGGC
65025111 TTTAACCCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.02
25 21 0.38
26 33 0.59
27 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.37
Consensus pattern (26 bp):
TGTTTATTTAGCAGGCATTGAGCCAG
Found at i:65025082 original size:51 final size:52
Alignment explanation
Indices: 65025001--65025135 Score: 175
Period size: 51 Copynumber: 2.6 Consensus size: 52
65024991 ATATTGGAAA
* * *
65025001 AGTAAGCCTTGAACCGATGTTTATTTAGCAGGCATTGAGCCAGTG-TTATTT
1 AGTAGGCCTTGAACCGATGTTTATTTAGCAGGCATTGAGCAAGTGATTAATT
* *
65025052 AGTAGGCCTTGAGCCGATGTTTATTTAGCAGGCTTTGAGCAAGTGATTAATT
1 AGTAGGCCTTGAACCGATGTTTATTTAGCAGGCATTGAGCAAGTGATTAATT
* * *
65025104 AGTAGG-CTTTAACCCGATATATATTTAGCAGG
1 AGTAGGCCTTGAA-CCGATGTTTATTTAGCAGG
65025136 TACTATGTAC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
51 45 0.62
52 28 0.38
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (52 bp):
AGTAGGCCTTGAACCGATGTTTATTTAGCAGGCATTGAGCAAGTGATTAATT
Found at i:65025129 original size:52 final size:51
Alignment explanation
Indices: 65025022--65025135 Score: 147
Period size: 52 Copynumber: 2.2 Consensus size: 51
65025012 AACCGATGTT
* * * * * *
65025022 TATTTAGCAGGCATTGAGCCAGTGTTATTTAGTAGGCCTTGAGCCGATGTT
1 TATTTAGCAGGCATTGAGCAAGTGTTAATTAGTAGGCCTTAACCCGATATA
* *
65025073 TATTTAGCAGGCTTTGAGCAAGTGATTAATTAGTAGGCTTTAACCCGATATA
1 TATTTAGCAGGCATTGAGCAAGTG-TTAATTAGTAGGCCTTAACCCGATATA
65025125 TATTTAGCAGG
1 TATTTAGCAGG
65025136 TACTATGTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
51 22 0.41
52 32 0.59
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (51 bp):
TATTTAGCAGGCATTGAGCAAGTGTTAATTAGTAGGCCTTAACCCGATATA
Found at i:65026746 original size:19 final size:19
Alignment explanation
Indices: 65026722--65026761 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65026712 TGTGCTATTG
*
65026722 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
65026741 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
65026760 TA
1 TA
65026762 CACAATTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:65028209 original size:9 final size:9
Alignment explanation
Indices: 65028195--65028220 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
65028185 AGAACTCATG
65028195 TTTTGCAAC
1 TTTTGCAAC
65028204 TTTTGCAAC
1 TTTTGCAAC
65028213 TTTTGCAA
1 TTTTGCAA
65028221 TTTAGTCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (9 bp):
TTTTGCAAC
Found at i:65035695 original size:30 final size:30
Alignment explanation
Indices: 65035659--65035720 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
65035649 GAGAGACTAA
65035659 GTAAGCCTTCTTCCAGATGATGAATGAGTG
1 GTAAGCCTTCTTCCAGATGATGAATGAGTG
*
65035689 GTAAGCCTTCTTCTAGATGATGAATGAGTG
1 GTAAGCCTTCTTCCAGATGATGAATGAGTG
65035719 GT
1 GT
65035721 TTACAGAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (30 bp):
GTAAGCCTTCTTCCAGATGATGAATGAGTG
Found at i:65043378 original size:40 final size:39
Alignment explanation
Indices: 65043294--65043478 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
65043284 TTGAATGATG
* * * *
65043294 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
65043334 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
65043374 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
65043413 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
*
65043454 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
65043479 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.29
40 78 0.62
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65043431 original size:79 final size:81
Alignment explanation
Indices: 65043294--65043478 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
65043284 TTGAATGATG
*
65043294 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
65043358 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
65043373 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATC-CGAAGGCA
*
65043435 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
65043453 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65043479 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:65043500 original size:79 final size:78
Alignment explanation
Indices: 65043295--65043511 Score: 210
Period size: 79 Copynumber: 2.7 Consensus size: 78
65043285 TGAATGATGT
** * * * *
65043295 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAGATCCGAAGGCATTT
*
65043359 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
** *
65043375 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAGATC-CGAAGGCATTTG
*
65043439 TGCGAGTTACT-ATAA
64 TGCGAGATACTAAT-A
*
65043454 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTTAAGA-TCCGAAGG
65043512 TACGTGATTT
Statistics
Matches: 118, Mismatches: 11, Indels: 17
0.81 0.08 0.12
Matches are distributed among these distances:
78 4 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGATCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:65050143 original size:39 final size:40
Alignment explanation
Indices: 65050040--65050224 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
65050030 TTGAATGATG
* * *
65050040 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
65050079 ATCCGGACTAAGAT-CGGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
65050120 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
65050159 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
65050198 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
65050225 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:65050178 original size:79 final size:81
Alignment explanation
Indices: 65050040--65050224 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
65050030 TTGAATGATG
* *
65050040 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCGGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
65050104 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
65050119 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
65050181 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
65050199 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65050225 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:65050246 original size:79 final size:79
Alignment explanation
Indices: 65050095--65050247 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 79
65050085 ACTAAGATCG
* **
65050095 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
65050160 CCGGGTTAAGTCCC
66 CCGGGTTAAGTCCC
* *
65050174 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTA
*
65050237 TATCC-GGTTAA
63 AATCCGGGTTAA
65050248 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
CCGGGTTAAGTCCC
Done.