Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 104 of 132
Found at i:31750475 original size:6 final size:6
Alignment explanation
Indices: 31750464--31750506 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
31750454 TGATGAGTCT
* *
31750464 GGCTGA GGCTGA TGGTTGA GACTGA GGCTGA GGCTGA GGCTGA
1 GGCTGA GGCTGA -GGCTGA GGCTGA GGCTGA GGCTGA GGCTGA
31750507 TGAGTCTGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.19, C:0.14, G:0.47, T:0.21
Consensus pattern (6 bp):
GGCTGA
Found at i:31756699 original size:26 final size:27
Alignment explanation
Indices: 31756661--31756728 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
31756651 AGAGAAAGAG
31756661 AGGAAGAAGAAAACAAAAATT-GAGAGAA
1 AGGAA-AA-AAAACAAAAATTGGAGAGAA
*
31756689 AGGAAAAAAAAC-AGAATTGGAGAGAA
1 AGGAAAAAAAACAAAAATTGGAGAGAA
* *
31756715 AAG-AAGAAAACAAA
1 AGGAAAAAAAACAAA
31756729 GACATTCGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 12 0.35
26 15 0.44
27 2 0.06
28 5 0.15
ACGTcount: A:0.66, C:0.04, G:0.24, T:0.06
Consensus pattern (27 bp):
AGGAAAAAAAACAAAAATTGGAGAGAA
Found at i:31756725 original size:25 final size:24
Alignment explanation
Indices: 31756664--31756728 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
31756654 GAAAGAGAGG
31756664 AAGAAGAAAACAAAAATTGAGAGAA
1 AAGAAGAAAAC-AAAATTGAGAGAA
* * *
31756689 AGGAAAAAAAACAGAATTGGAGAGAA
1 AAG-AAGAAAACAAAATT-GAGAGAA
31756715 AAGAAGAAAACAAA
1 AAGAAGAAAACAAA
31756729 GACATTCGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 16 0.50
26 16 0.50
ACGTcount: A:0.68, C:0.05, G:0.22, T:0.06
Consensus pattern (24 bp):
AAGAAGAAAACAAAATTGAGAGAA
Found at i:31773130 original size:52 final size:52
Alignment explanation
Indices: 31773068--31773174 Score: 214
Period size: 52 Copynumber: 2.1 Consensus size: 52
31773058 TTGCAATAGC
31773068 AACTAGCAACTAGCTTCTCATTAACCAATAAATTTATTCACAAAGTCAAAAT
1 AACTAGCAACTAGCTTCTCATTAACCAATAAATTTATTCACAAAGTCAAAAT
31773120 AACTAGCAACTAGCTTCTCATTAACCAATAAATTTATTCACAAAGTCAAAAT
1 AACTAGCAACTAGCTTCTCATTAACCAATAAATTTATTCACAAAGTCAAAAT
31773172 AAC
1 AAC
31773175 CTTATATAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (52 bp):
AACTAGCAACTAGCTTCTCATTAACCAATAAATTTATTCACAAAGTCAAAAT
Found at i:31776884 original size:58 final size:58
Alignment explanation
Indices: 31776814--31776939 Score: 243
Period size: 58 Copynumber: 2.2 Consensus size: 58
31776804 ATGTAAAAGG
*
31776814 GAAATAGAGAGCTTTCTTTGCCAAATAAATTAACCCGAAAAGCAGAGGATGGAAATCA
1 GAAATATAGAGCTTTCTTTGCCAAATAAATTAACCCGAAAAGCAGAGGATGGAAATCA
31776872 GAAATATAGAGCTTTCTTTGCCAAATAAATTAACCCGAAAAGCAGAGGATGGAAATCA
1 GAAATATAGAGCTTTCTTTGCCAAATAAATTAACCCGAAAAGCAGAGGATGGAAATCA
31776930 GAAATATAGA
1 GAAATATAGA
31776940 TCAATTTTAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
58 67 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.21
Consensus pattern (58 bp):
GAAATATAGAGCTTTCTTTGCCAAATAAATTAACCCGAAAAGCAGAGGATGGAAATCA
Found at i:31778059 original size:24 final size:22
Alignment explanation
Indices: 31778027--31778072 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
31778017 CCCTACCCGA
31778027 ATTTATAATAATGATTTTATTTTT
1 ATTTATAATAAT-ATTTT-TTTTT
* *
31778051 ATTTTTAATACTATTTTTTTTT
1 ATTTATAATAATATTTTTTTTT
31778073 GCTTGTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 5 0.25
24 10 0.50
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTATAATAATATTTTTTTTT
Found at i:31779251 original size:18 final size:18
Alignment explanation
Indices: 31779228--31779272 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
31779218 GAATTCAAAT
*
31779228 CACATTTAAAATGATAAA
1 CACATTTAAAACGATAAA
31779246 CACATTTAAAACGATAAA
1 CACATTTAAAACGATAAA
*
31779264 CACCTTTAA
1 CACATTTAA
31779273 TCATTATGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (18 bp):
CACATTTAAAACGATAAA
Found at i:31783403 original size:6 final size:6
Alignment explanation
Indices: 31783394--31783424 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
31783384 TATATGTATT
31783394 GAAATA GAAATA GAAATA GAAATA GAAATA G
1 GAAATA GAAATA GAAATA GAAATA GAAATA G
31783425 CATACAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
GAAATA
Found at i:31790454 original size:16 final size:16
Alignment explanation
Indices: 31790435--31790469 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
31790425 ATATTAATGG
*
31790435 TATTTAATTTTAAAAT
1 TATTTAATATTAAAAT
31790451 TATTTAATATTAAAAT
1 TATTTAATATTAAAAT
31790467 TAT
1 TAT
31790470 ACAAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTTAATATTAAAAT
Found at i:31795619 original size:30 final size:30
Alignment explanation
Indices: 31795526--31795772 Score: 215
Period size: 29 Copynumber: 8.3 Consensus size: 30
31795516 GATAATTCAA
31795526 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
31795556 GG-TAAAATGTAATTTTAGG-AAAGTTTA-G
1 GGTTAAAATGTAATTTT-GGAAAAGTTTAGG
* *
31795584 GGTTAAAATGTAATTTTGTATAAGTTTAGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
* *
31795614 GGTT-AAATGTAATTTTGGTAAAGTTTTA-A
1 GGTTAAAATGTAATTTTGGAAAAG-TTTAGG
* * * *
31795643 GGTTAAAATGTGATTTTGGGATAG-TTCGAG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAG-G
* * * *
31795673 GGTCAAAATATAATTTT-AAAAAG-TTCGAG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAG-G
* * *
31795702 GGTTAAAATATAATTTT-AAATAAGTTTTGGG
1 GGTTAAAATGTAATTTTGGAA-AAG-TTTAGG
**
31795733 GGTTAAAATGGGATTTTGGAAAAGTTTAGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
*
31795763 GGTCAAAATG
1 GGTTAAAATG
31795773 AGATTTTTAA
Statistics
Matches: 180, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
28 6 0.03
29 91 0.51
30 60 0.33
31 18 0.10
32 5 0.03
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
GGTTAAAATGTAATTTTGGAAAAGTTTAGG
Found at i:31795749 original size:31 final size:30
Alignment explanation
Indices: 31795714--31795784 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
31795704 TTAAAATATA
* * *
31795714 ATTTT-AAATAAGTTTTGGGGGTTAAAATGGG
1 ATTTTGAAA-AAG-TTTAGGGGTCAAAATGAG
*
31795745 ATTTTGGAAAAGTTTAGGGGTCAAAATGAG
1 ATTTTGAAAAAGTTTAGGGGTCAAAATGAG
*
31795775 ATTTTTAAAA
1 ATTTTGAAAA
31795785 GATAAGGGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
30 23 0.70
31 8 0.24
32 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (30 bp):
ATTTTGAAAAAGTTTAGGGGTCAAAATGAG
Found at i:31798022 original size:39 final size:39
Alignment explanation
Indices: 31797988--31798624 Score: 438
Period size: 39 Copynumber: 16.4 Consensus size: 39
31797978 TCTGCCCCTA
* * * **
31797988 GCTCGGGGTAAGAGATTTGCTGATAGTGACCTGCCTTAG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAG
* * *
31798027 GCTCGAGGTAAGAGATTGGCTTATGGTGATCTGCCCTAG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAG
** * * *
31798066 GCTCAAGGTAAGAGATCGGAT-A-GTTGCAATCTGCCCCAA-
1 GCTCGGGGTAAGAGATTGGCTGATGGTG--ATCTG-CCCAAG
* * * * **
31798105 GCTCGGGGTAAGAGATCGGATGGTTGCAATCTGCCC-AG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAG
* *
31798143 GCTCGGGGTAAGAGATTGGCTGATGGTTATCTGCCCTAG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAG
* * *
31798182 GCTCGGTGTAAGAGATT-G--GATGGCTACAATCTACCTC-AG
1 GCTCGGGGTAAGAGATTGGCTGATGG-T--GATCTGCC-CAAG
*
31798221 GCTCGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCAA-
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTG-CCCAAG
* * *
31798260 GCTCGGGGTAAGAGATTGACTAATGGCGATCTGCCCAAG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAG
* *
31798299 GATCGGGGTAAGAGA-T--CGGATGGCTGCAATCTGCCCCAA-
1 GCTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTG-CCCAAG
* * *
31798338 GCTCGGGGTAAGAGATTGACTAATGGTGATCTGTCTCAA-
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTG-CCCAAG
*
31798377 -CTCGGGGTAAGAGATT-G--GATGGTTACATTCTGCCCAA-
1 GCTCGGGGTAAGAGATTGGCTGATGG-T-GA-TCTGCCCAAG
* * * *
31798414 GCTTGAGGTAAGAGATTGGTTGATGGTGATCTGCCCCAG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAG
* *
31798453 GCTTGGGGTAAGAGATTGGTTGATGGTGATCTGCCCCAA-
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTG-CCCAAG
* * * *
31798492 GCTCGAGGTAAGAGTTTGGCTGATGGTGATCTGTCCTAG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAG
* * ** * **
31798531 GCTTGGGGTAAAAGATCAGATGACT-GCAATCTGCCCTAA-
1 GCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCC-AAG
* *
31798570 GCTCGGGGTAAAAGATTGACTGATGGTGATCTGTCCCAA-
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTG-CCCAAG
* *
31798609 GCTCGAGGTAAAAGAT
1 GCTCGGGGTAAGAGAT
31798625 CAGACGGTTA
Statistics
Matches: 481, Mismatches: 79, Indels: 76
0.76 0.12 0.12
Matches are distributed among these distances:
35 4 0.01
36 11 0.02
37 11 0.02
38 87 0.18
39 325 0.68
40 25 0.05
41 8 0.02
42 10 0.02
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (39 bp):
GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCAAG
Found at i:31798307 original size:194 final size:192
Alignment explanation
Indices: 31798025--31798505 Score: 599
Period size: 194 Copynumber: 2.5 Consensus size: 192
31798015 GACCTGCCTT
* * ** * *
31798025 AGGCTCGAGGTAAGAGATTGGCTTATGGTGATCTGCCCTAGGCTCAAGGTAAGAGATCGGATAGT
1 AGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAGAGAT-TGATAAT
* * * *
31798090 TGCAATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGTTGCAATCTG-CCCAGGCTCGGGGTAA
65 GGCGATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCAATCTGCCCCAAGCTCGGGGTAA
* * * * *
31798154 GAGATTGGCTGATGGTTATCTGCC-CTAGGCTCGGTGTAAGAGATTGGATGGCTACAATCTACCT
130 GAGATTGACTAATGGTGATCTGCCTC-A-ACTCGGGGTAAGAGATTGGATGGCTACAATCTACC-
31798218 C
192 C
* * *
31798219 AGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGGGGTAAGAGATTGACTAAT
1 AGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATTGA-TAAT
*
31798284 GGCGATCTG-CCCAAGGATCGGGGTAAGAGATCGGATGGCTGCAATCTGCCCCAAGCTCGGGGTA
65 GGCGATCTGCCCCAA-GCTCGGGGTAAGAGATCGGATGGCTGCAATCTGCCCCAAGCTCGGGGTA
* * * *
31798348 AGAGATTGACTAATGGTGATCTGTCTCAACTCGGGGTAAGAGATTGGATGGTTACATTCTGCCC
129 AGAGATTGACTAATGGTGATCTGCCTCAACTCGGGGTAAGAGATTGGATGGCTACAATCTACCC
* * * * * *
31798412 AAGCTTGAGGTAAGAGATTGGTTGATGGTGATCTGCCCCAGGCTTGGGGTAAGAGATTGGTTGAT
1 AGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATT-GATAAT
* *
31798477 GGTGATCTGCCCCAAGCTCGAGGTAAGAG
65 GGCGATCTGCCCCAAGCTCGGGGTAAGAG
31798506 TTTGGCTGAT
Statistics
Matches: 246, Mismatches: 35, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
193 82 0.33
194 127 0.52
195 36 0.15
196 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (192 bp):
AGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAGAGATTGATAATG
GCGATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCAATCTGCCCCAAGCTCGGGGTAAG
AGATTGACTAATGGTGATCTGCCTCAACTCGGGGTAAGAGATTGGATGGCTACAATCTACCC
Found at i:31798313 original size:117 final size:117
Alignment explanation
Indices: 31797967--31798624 Score: 659
Period size: 117 Copynumber: 5.6 Consensus size: 117
31797957 TAAGATGTTT
* * * * * * ** *
31797967 GATGGTTGTAATCTGCCCCTAGCTCGGGGTAAGAGATTTGCTGATAGTGACCTGCCTTAGGCTCG
1 GATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCG
* **
31798032 AGGTAAGAGATTGGCTTATGGTGATCTGCCCTAGGCTCAAGGTAAGAGATCG
66 AGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAGAGATCG
* * * * * * ** *
31798084 GATAGTTGCAATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGTTGCAATCTG-CCCAGGCTCG
1 GATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCG
* * * *
31798148 GGGTAAGAGATTGGCTGATGGTTATCTGCCCTAGGCTCGGTGTAAGAGATTG
66 AGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAGAGATCG
* * * * *
31798200 GATGGCTACAATCTACCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCG
1 GATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCG
* * * * * *
31798265 GGGTAAGAGATTGACTAATGGCGATCTGCCCAAGGATCGGGGTAAGAGATCG
66 AGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAGAGATCG
* * * *
31798317 GATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACTAATGGTGATCTGTCTCAA-CTCG
1 GATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCG
* * * * * *
31798381 GGGTAAGAGATT-G--GATGGTTACATTCTGCCC-AAGCTTGAGGTAAGAGATTGG
66 AGGTAAGAGATTGGCTGATGG-T-GA-TCTGCCCTAGGCTCGGGGTAAGAGA-TCG
* * *
31798433 TTGATGG-TG--ATCTGCCCCAGGCTTGGGGTAAGAGATTGGTTGATGGTGATCTGCCCCAAGCT
1 --GATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCT
* * * * *
31798495 CGAGGTAAGAGTTTGGCTGATGGTGATCTGTCCTAGGCTTGGGGTAAAAGATCA
64 CGAGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAGAGATCG
* * * * *
31798549 GATGACTGCAATCTGCCCTAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGTCCCAAGCTCG
1 GATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCG
*
31798614 AGGTAAAAGAT
66 AGGTAAGAGAT
31798625 CAGACGGTTA
Statistics
Matches: 440, Mismatches: 86, Indels: 30
0.79 0.15 0.05
Matches are distributed among these distances:
113 4 0.01
114 4 0.01
115 59 0.13
116 140 0.32
117 222 0.50
118 6 0.01
119 5 0.01
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (117 bp):
GATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCG
AGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAGAGATCG
Found at i:31798466 original size:154 final size:153
Alignment explanation
Indices: 31797990--31798526 Score: 373
Period size: 155 Copynumber: 3.5 Consensus size: 153
31797980 TGCCCCTAGC
* * * ** * * *
31797990 TCGGGGTAAGAGATTTGCTGATAGTGACCTGCCTTAGGCTCGAGGTAAGAGATTGGCTTATGGTG
1 TCGGGGTAAGAGATTCG-TGATGGTGATCTGCCCCAAGCTCGAGGTAAGAGATTGACTAATGGTG
* * ** * * * *
31798055 ATCTG-CCCTAGGCTCAAGGTAAGAGA-TCG-GATAGTTGCAATCTGCCCCAAGCTCGGGGTAAG
65 ATCTGTCTC-A-ACTCGGGGTAAGAGATTGGCGAT-GGT-C-ATTTGCCCCAAGCTCGAGGTAAG
* ** * * *
31798117 AGATCGGA-TGGTTGCAATCTGCCC-AGGC
125 AGAT-TGACTAATGGCGATCTGCCCAAGGA
* * * * *
31798145 TCGGGGTAAGAGATTGGCTGATGGTTATCTGCCCTAGGCTCG-GTGTAAGAGATTG---GATGGC
1 TCGGGGTAAGAGATTCG-TGATGGTGATCTGCCCCAAGCTCGAG-GTAAGAGATTGACTAATGG-
* ** * * *
31798206 TACAATCTACCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGGGGTAA
63 T--GATCTGTCTCA-ACTCGGGGTAAGAGATTGGC-GATGGTCATTTGCCCCAAGCTCGAGGTAA
31798271 GAGATTGACTAATGGCGATCTGCCCAAGGA
124 GAGATTGACTAATGGCGATCTGCCCAAGGA
*
31798301 TCGGGGTAAGAGA-TCG-GATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACTAATGG
1 TCGGGGTAAGAGATTCGTGATGG-TG--ATCTGCCCCAAGCTCGAGGTAAGAGATTGACTAATGG
*
31798364 TGATCTGTCTCAACTCGGGGTAAGAGATT-G-GATGGTTACATTCTG-CCCAAGCTTGAGGTAAG
63 TGATCTGTCTCAACTCGGGGTAAGAGATTGGCGATGG-T-CATT-TGCCCCAAGCTCGAGGTAAG
** * * * *
31798426 AGATTGGTTGATGGTGATCTGCCCCAGGC
125 AGATTGACTAATGGCGATCTGCCCAAGGA
* * * * *
31798455 TTGGGGTAAGAGATTGGTTGATGGTGATCTGCCCCAAGCTCGAGGTAAGAGTTTGGCTGATGGTG
1 TCGGGGTAAGAGATTCG-TGATGGTGATCTGCCCCAAGCTCGAGGTAAGAGATTGACTAATGGTG
31798520 ATCTGTC
65 ATCTGTC
31798527 CTAGGCTTGG
Statistics
Matches: 314, Mismatches: 45, Indels: 47
0.77 0.11 0.12
Matches are distributed among these distances:
152 9 0.03
153 7 0.02
154 100 0.32
155 127 0.40
156 55 0.18
157 8 0.03
158 4 0.01
159 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (153 bp):
TCGGGGTAAGAGATTCGTGATGGTGATCTGCCCCAAGCTCGAGGTAAGAGATTGACTAATGGTGA
TCTGTCTCAACTCGGGGTAAGAGATTGGCGATGGTCATTTGCCCCAAGCTCGAGGTAAGAGATTG
ACTAATGGCGATCTGCCCAAGGA
Found at i:31798610 original size:271 final size:269
Alignment explanation
Indices: 31798106--31798624 Score: 602
Period size: 271 Copynumber: 1.9 Consensus size: 269
31798096 CTGCCCCAAG
* * * *
31798106 CTCGGGGTAAGAGATCGGATGGTTGCAATCTGCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTT
1 CTCGGGGTAAGAGATCGGATGGTTACAATCTGCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTG
* * * * *
31798171 ATCTGCCCTAGGCTCGGTGTAAGAGATTGGATGGCTACAATCTACCTCAGGCTCGGGGTAAGAGA
66 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGGCTA-AATCTACCCCAAGCTCGAGGTAAGAGA
* * * *
31798236 TTGGCTGATGGTGATTTGCCCCAAGCTCGGGGTAAGAGATTGACTAATGGCGATCTGCCCAAGGA
130 TTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATAGACTAATGGCAATCTGCCCAAGGA
* * *
31798301 TCGGGGTAAGAGATCGGATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACTAATGGTG
195 TCGGGGTAAAAGATCGGATGGCTG-AATCTGCCCCAAGCTCGAGGTAAAAGATTGACTAATGGTG
31798366 ATCTGTCTCAA
259 ATCTGTCTCAA
* * * *
31798377 CTCGGGGTAAGAGATTGGATGGTTACATTCTGCCCAAGCTTGAGGTAAGAGATTGGTTGATGGTG
1 CTCGGGGTAAGAGATCGGATGGTTACAATCTGCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTG
* * *
31798442 ATCTGCCCCAGGCTTGGGGTAAGAGATTGGTTGATGG-T-GATCTGCCCCAAGCTCGAGGTAAGA
66 ATCTGCCCCAGGCTCGGGGTAAGAGATT-G--GATGGCTAAATCTACCCCAAGCTCGAGGTAAGA
* * * * * *
31798505 GTTTGGCTGATGGTGATCTGTCCTAGGCTTGGGGTAAAAGATCAGA-TGACT-GCAATCTGCCCT
128 GATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGAT-AGACT-AATGGCAATCTGCCC-
* * *
31798568 AA-GCTCGGGGTAAAAGATTGACTGATGG-TG-ATCTGTCCCAAGCTCGAGGTAAAAGAT
190 AAGGATCGGGGTAAAAGA-T--CGGATGGCTGAATCTGCCCCAAGCTCGAGGTAAAAGAT
31798625 CAGACGGTTA
Statistics
Matches: 207, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
271 185 0.89
272 8 0.04
273 3 0.01
274 11 0.05
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (269 bp):
CTCGGGGTAAGAGATCGGATGGTTACAATCTGCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTG
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGGCTAAATCTACCCCAAGCTCGAGGTAAGAGAT
TGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATAGACTAATGGCAATCTGCCCAAGGAT
CGGGGTAAAAGATCGGATGGCTGAATCTGCCCCAAGCTCGAGGTAAAAGATTGACTAATGGTGAT
CTGTCTCAA
Found at i:31810699 original size:29 final size:29
Alignment explanation
Indices: 31810667--31810870 Score: 137
Period size: 30 Copynumber: 6.9 Consensus size: 29
31810657 AATTTTAAGA
*
31810667 AAGTTTAGGGTTAAAATATGATTTTGGAG
1 AAGTTTAGGGTCAAAATATGATTTTGGAG
* * *
31810696 AAGTTTAGGGTTC-AAATGA-AATTTGGGAA
1 AAGTTTAGGG-TCAAAAT-ATGATTTTGGAG
* *
31810725 AAGTTTTAGAGTCAAAATGTGATTTTAGGA-
1 AAG-TTTAGGGTCAAAATATGATTTT-GGAG
* * * *
31810755 AAGTTCAAGGGTCAAAATATAATTTTGAAA
1 AAGTT-TAGGGTCAAAATATGATTTTGGAG
* * * *
31810785 AAGTTCAGGGTCATAATGTAATTTTGGAG
1 AAGTTTAGGGTCAAAATATGATTTTGGAG
* * *
31810814 AAGTTTTGGTGGTCAAAAT-GGAATTTTGAAG
1 AAG-TTTAG-GGTCAAAATATG-ATTTTGGAG
*
31810845 AAGTTTGAGGGTCAAAATAGGATTTT
1 AAGTTT-AGGGTCAAAATATGATTTT
31810871 TTTTTTAAAA
Statistics
Matches: 137, Mismatches: 25, Indels: 25
0.73 0.13 0.13
Matches are distributed among these distances:
29 52 0.38
30 60 0.44
31 25 0.18
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.34
Consensus pattern (29 bp):
AAGTTTAGGGTCAAAATATGATTTTGGAG
Found at i:31810733 original size:59 final size:57
Alignment explanation
Indices: 31810628--31810870 Score: 177
Period size: 59 Copynumber: 4.1 Consensus size: 57
31810618 TTAAAACGTA
* * * * ** *
31810628 ATTTTGGAAAAATTTAGAGGTAAAAATGTAATTTTAAGAAAGTTTAGGGTTAAAATATG
1 ATTTTGGAGAAGTTTAG-GGTCAAAATGAAATTTGGA-AAAGTTTAGGGTCAAAATATG
* *
31810687 ATTTTGGAGAAGTTTAGGGTTC-AAATGAAATTTGGGAAAAGTTTTAGAGTCAAAATGTG
1 ATTTTGGAGAAGTTTAGGG-TCAAAATGAAATTT-GGAAAAG-TTTAGGGTCAAAATATG
* * * * * *
31810746 ATTTTAGGA-AAGTTCAAGGGTCAAAAT-ATAATTTTGAAAAAGTTCAGGGTCATAATGTA
1 ATTTT-GGAGAAGTT-TAGGGTCAAAATGA-AA-TTTGGAAAAGTTTAGGGTCAAAATATG
* * * *
31810805 ATTTTGGAGAAGTTTTGGTGGTCAAAATGGAATTTTGAAGAAGTTTGAGGGTCAAAATAGG
1 ATTTTGGAGAAG-TTTAG-GGTCAAAATGAAATTTGGAA-AAGTTT-AGGGTCAAAATATG
31810866 ATTTT
1 ATTTT
31810871 TTTTTTAAAA
Statistics
Matches: 145, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
58 19 0.13
59 71 0.49
60 37 0.26
61 18 0.12
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (57 bp):
ATTTTGGAGAAGTTTAGGGTCAAAATGAAATTTGGAAAAGTTTAGGGTCAAAATATG
Found at i:31810839 original size:31 final size:30
Alignment explanation
Indices: 31810650--31810871 Score: 122
Period size: 29 Copynumber: 7.4 Consensus size: 30
31810640 TTTAGAGGTA
* *
31810650 AAAATGTAATTTT-AAGAAAGTTT-AGGGTT
1 AAAATGGAATTTTGAAG-AAGTTTGAGGGTC
* *
31810679 AAAATATG-ATTTTGGAGAAGTTT-AGGGTTC
1 AAAAT-GGAATTTTGAAGAAGTTTGAGGG-TC
* * * *
31810709 -AAATGAAATTTGGGAA-AAGTTTTAGAGTC
1 AAAATGGAATTT-TGAAGAAGTTTGAGGGTC
* **
31810738 AAAATGTG-ATTTT-AGGAAAGTTCAAGGGTC
1 AAAATG-GAATTTTGAAG-AAGTTTGAGGGTC
** * *
31810768 AAAATATAATTTTGAAAAAG-TTCAGGGTC
1 AAAATGGAATTTTGAAGAAGTTTGAGGGTC
* * *
31810797 ATAATGTAATTTTGGAGAAGTTTTG-GTGGTC
1 AAAATGGAATTTTGAAGAAG-TTTGAG-GGTC
31810828 AAAATGGAATTTTGAAGAAGTTTGAGGGTC
1 AAAATGGAATTTTGAAGAAGTTTGAGGGTC
*
31810858 AAAATAGGATTTTT
1 AAAAT-GGAATTTT
31810872 TTTTTAAAAA
Statistics
Matches: 146, Mismatches: 30, Indels: 32
0.70 0.14 0.15
Matches are distributed among these distances:
28 1 0.01
29 59 0.40
30 54 0.37
31 32 0.22
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTGAAGAAGTTTGAGGGTC
Found at i:31810860 original size:30 final size:29
Alignment explanation
Indices: 31810627--31810871 Score: 135
Period size: 30 Copynumber: 8.2 Consensus size: 29
31810617 GTTAAAACGT
* * *
31810627 AATTTTGGAA-AAATTTAGAGGTAAAAATGT
1 AATTTT-GAAGAAGTTTAG-GGTCAAAATGG
* *
31810657 AATTTT-AAGAAAGTTTAGGGTTAAAATATG
1 AATTTTGAAG-AAGTTTAGGGTCAAAAT-GG
* *
31810687 -ATTTTGGAGAAGTTTAGGGTTC-AAATGA
1 AATTTTGAAGAAGTTTAGGG-TCAAAATGG
* *
31810715 AATTTGGGAA-AAGTTTTAGAGTCAAAATGTG
1 AATTT-TGAAGAAG-TTTAGGGTCAAAATG-G
* * **
31810746 -ATTTT-AGGAAAGTTCAAGGGTCAAAATAT
1 AATTTTGAAG-AAGTT-TAGGGTCAAAATGG
* * * *
31810775 AATTTTGAAAAAGTTCAGGGTCATAATGT
1 AATTTTGAAGAAGTTTAGGGTCAAAATGG
* *
31810804 AATTTTGGAGAAGTTTTGGTGGTCAAAATGG
1 AATTTTGAAGAAG-TTTAG-GGTCAAAATGG
31810835 AATTTTGAAGAAGTTTGAGGGTCAAAATAGG
1 AATTTTGAAGAAGTTT-AGGGTCAAAAT-GG
*
31810866 ATTTTT
1 AATTTT
31810872 TTTTTAAAAA
Statistics
Matches: 164, Mismatches: 32, Indels: 37
0.70 0.14 0.16
Matches are distributed among these distances:
28 3 0.02
29 60 0.37
30 71 0.43
31 30 0.18
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (29 bp):
AATTTTGAAGAAGTTTAGGGTCAAAATGG
Found at i:31811641 original size:22 final size:21
Alignment explanation
Indices: 31811616--31811656 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31811606 TGTTTTGCTT
31811616 ATTTCCTTTTATTATTTTTTAG
1 ATTT-CTTTTATTATTTTTTAG
* *
31811638 ATTTGTTTTATTTTTTTTT
1 ATTTCTTTTATTATTTTTT
31811657 TAAAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (21 bp):
ATTTCTTTTATTATTTTTTAG
Found at i:31812158 original size:24 final size:23
Alignment explanation
Indices: 31812093--31812158 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 23
31812083 ATTTTGCTTC
31812093 TTTTGTATTGATTTCGAATCTGA
1 TTTTGTATTGATTTCGAATCTGA
* *
31812116 TCTCTTGT-GT-ATTTTGAATCACT-A
1 T-T-TTGTATTGATTTCGAAT--CTGA
31812140 TTTTGTATTGATTTCGAAT
1 TTTTGTATTGATTTCGAAT
31812159 GCTAGAATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
22 4 0.12
23 11 0.33
24 12 0.36
25 6 0.18
ACGTcount: A:0.21, C:0.11, G:0.15, T:0.53
Consensus pattern (23 bp):
TTTTGTATTGATTTCGAATCTGA
Found at i:31815568 original size:32 final size:32
Alignment explanation
Indices: 31815521--31815793 Score: 312
Period size: 32 Copynumber: 8.2 Consensus size: 32
31815511 TTCATATGAT
* *
31815521 CTATTAATCTATGAACAATATGCTCGTAAGAG
1 CTATCAATCTATGAACAATAAGCTCGTAAGAG
* * *
31815553 CTATCAATCTGTGAACAATTGTGAACAGTAAGCTCATAGGAG
1 CTATCAATC--T-----A-TG--AACAATAAGCTCGTAAGAG
31815595 CTATCAATCTATGAACAATAAGCTCGTAAGAG
1 CTATCAATCTATGAACAATAAGCTCGTAAGAG
*
31815627 CTGTCAAATCTATGAACAATAAGCTCGTAAGAG
1 CTATC-AATCTATGAACAATAAGCTCGTAAGAG
* *
31815660 TTATCGATCTATGAACAATAAGCTCGTAAGAG
1 CTATCAATCTATGAACAATAAGCTCGTAAGAG
*
31815692 CTGTCAAATCTATGAACAATAAGCTCGTAAGAG
1 CTATC-AATCTATGAACAATAAGCTCGTAAGAG
* * *
31815725 CTGTCGATCTATGAACAATAAGCTCGTAGGAG
1 CTATCAATCTATGAACAATAAGCTCGTAAGAG
* *
31815757 CTGTCAATCTATGAACAATAAGCTCGAAAGAG
1 CTATCAATCTATGAACAATAAGCTCGTAAGAG
31815789 CTATC
1 CTATC
31815794 TATATGTGAA
Statistics
Matches: 208, Mismatches: 21, Indels: 24
0.82 0.08 0.09
Matches are distributed among these distances:
32 115 0.55
33 61 0.29
34 3 0.01
35 1 0.00
39 1 0.00
40 3 0.01
42 24 0.12
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (32 bp):
CTATCAATCTATGAACAATAAGCTCGTAAGAG
Found at i:31815579 original size:42 final size:42
Alignment explanation
Indices: 31815532--31815613 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
31815522 TATTAATCTA
* * *
31815532 TGAACAATATGCTCGTAAGAGCTATCAATCTGTGAACAATTG
1 TGAACAATAAGCTCATAAGAGCTATCAATCTATGAACAATTG
* *
31815574 TGAACAGTAAGCTCATAGGAGCTATCAATCTATGAACAAT
1 TGAACAATAAGCTCATAAGAGCTATCAATCTATGAACAAT
31815614 AAGCTCGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (42 bp):
TGAACAATAAGCTCATAAGAGCTATCAATCTATGAACAATTG
Found at i:31815678 original size:65 final size:65
Alignment explanation
Indices: 31815574--31815793 Score: 361
Period size: 65 Copynumber: 3.4 Consensus size: 65
31815564 TGAACAATTG
* * * *
31815574 TGAACAGTAAGCTCATAGGAGCTATCAATCTATGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
1 TGAACAATAAGCTCGTAAGAGCTATCGATCTATGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
*
31815639 TGAACAATAAGCTCGTAAGAGTTATCGATCTATGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
1 TGAACAATAAGCTCGTAAGAGCTATCGATCTATGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
* *
31815704 TGAACAATAAGCTCGTAAGAGCTGTCGATCTATGAACAATAAGCTCGTAGGAGCTGTC-AATCTA
1 TGAACAATAAGCTCGTAAGAGCTATCGATCTATGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
*
31815768 TGAACAATAAGCTCGAAAGAGCTATC
1 TGAACAATAAGCTCGTAAGAGCTATC
31815794 TATATGTGAA
Statistics
Matches: 145, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 30 0.21
65 115 0.79
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (65 bp):
TGAACAATAAGCTCGTAAGAGCTATCGATCTATGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
Found at i:31815744 original size:97 final size:97
Alignment explanation
Indices: 31815574--31815793 Score: 334
Period size: 97 Copynumber: 2.3 Consensus size: 97
31815564 TGAACAATTG
* * *
31815574 TGAACAGTAAGCTCATAGGAGCTATCAATCTATGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
1 TGAACAATAAGCTCGTAAGAGCTATCAATCTATGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
* *
31815639 TGAACAATAAGCTCGTAAGAGTTATCGATCTA
66 TGAACAATAAGCTCGTAAGAGCTATCAATCTA
* *
31815671 TGAACAATAAGCTCGTAAGAGCTGTCAAATCTATGAACAATAAGCTCGTAAGAGCTGTC-GATCT
1 TGAACAATAAGCTCGTAAGAGCTATC-AATCTATGAACAATAAGCTCGTAAGAGCTGTCAAATCT
* *
31815735 ATGAACAATAAGCTCGTAGGAGCTGTCAATCTA
65 ATGAACAATAAGCTCGTAAGAGCTATCAATCTA
*
31815768 TGAACAATAAGCTCGAAAGAGCTATC
1 TGAACAATAAGCTCGTAAGAGCTATC
31815794 TATATGTGAA
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
97 79 0.71
98 32 0.29
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (97 bp):
TGAACAATAAGCTCGTAAGAGCTATCAATCTATGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
TGAACAATAAGCTCGTAAGAGCTATCAATCTA
Found at i:31815805 original size:32 final size:32
Alignment explanation
Indices: 31815574--31815790 Score: 326
Period size: 32 Copynumber: 6.7 Consensus size: 32
31815564 TGAACAATTG
* * * *
31815574 TGAACAGTAAGCTCATAGGAGCTATCAATCTA
1 TGAACAATAAGCTCGTAAGAGCTGTCAATCTA
31815606 TGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
1 TGAACAATAAGCTCGTAAGAGCTGTC-AATCTA
* * *
31815639 TGAACAATAAGCTCGTAAGAGTTATCGATCTA
1 TGAACAATAAGCTCGTAAGAGCTGTCAATCTA
31815671 TGAACAATAAGCTCGTAAGAGCTGTCAAATCTA
1 TGAACAATAAGCTCGTAAGAGCTGTC-AATCTA
*
31815704 TGAACAATAAGCTCGTAAGAGCTGTCGATCTA
1 TGAACAATAAGCTCGTAAGAGCTGTCAATCTA
*
31815736 TGAACAATAAGCTCGTAGGAGCTGTCAATCTA
1 TGAACAATAAGCTCGTAAGAGCTGTCAATCTA
*
31815768 TGAACAATAAGCTCGAAAGAGCT
1 TGAACAATAAGCTCGTAAGAGCT
31815791 ATCTATATGT
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
32 107 0.64
33 61 0.36
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (32 bp):
TGAACAATAAGCTCGTAAGAGCTGTCAATCTA
Found at i:31823145 original size:12 final size:12
Alignment explanation
Indices: 31823130--31823159 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31823120 AAACGAGTCA
31823130 ATAAACGAGCTT
1 ATAAACGAGCTT
31823142 ATAAACGAGCTT
1 ATAAACGAGCTT
*
31823154 TTAAAC
1 ATAAAC
31823160 AAGTTTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:31825282 original size:18 final size:20
Alignment explanation
Indices: 31825256--31825300 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
31825246 AAATAAAAAA
* *
31825256 ATTTGGAATTTTT-ATAA-T
1 ATTTTGAATTTTTGAAAATT
31825274 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
31825294 ATTTTGA
1 ATTTTGA
31825301 TTATCTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 12 0.52
19 3 0.13
20 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:31826172 original size:13 final size:14
Alignment explanation
Indices: 31826156--31826197 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
31826146 TTTCAATTTT
31826156 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
31826169 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
31826184 ATTTTAAATAATAT
1 ATTTT-AATAATAT
31826198 CCTTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:31826182 original size:16 final size:16
Alignment explanation
Indices: 31826160--31826196 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
31826150 AATTTTATTT
31826160 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
31826177 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
31826192 TAATA
1 TAATA
31826197 TCCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:31827028 original size:18 final size:19
Alignment explanation
Indices: 31826984--31827028 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
31826974 TATTCTGTAC
31826984 TATTTATA-T-TATTGAAT
1 TATTTATATTATATTGAAT
*
31827001 TGTTTA-ATTATATTGAA-
1 TATTTATATTATATTGAAT
31827018 TATTTATATTA
1 TATTTATATTA
31827029 AAAGTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 1 0.04
17 11 0.48
18 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TATTTATATTATATTGAAT
Found at i:31828632 original size:11 final size:11
Alignment explanation
Indices: 31828582--31828632 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
31828572 AAAAAATATA
31828582 GTTTTCTTGCTT
1 GTTTTCTTG-TT
* *
31828594 -TTTTTTTATT
1 GTTTTCTTGTT
**
31828604 GTTTTGATGTT
1 GTTTTCTTGTT
31828615 GTTTTCTTGTT
1 GTTTTCTTGTT
31828626 GTTTTCT
1 GTTTTCT
31828633 CACTATTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
10 2 0.06
11 29 0.94
ACGTcount: A:0.04, C:0.08, G:0.16, T:0.73
Consensus pattern (11 bp):
GTTTTCTTGTT
Found at i:31838627 original size:21 final size:22
Alignment explanation
Indices: 31838598--31838640 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
31838588 TATTGATTAT
*
31838598 AAATAGGTTTAA-TAAAGGTTAA
1 AAATAGG-TTAATTAAAGCTTAA
31838620 AAAT-GGTTAATTAAAGCTTAA
1 AAATAGGTTAATTAAAGCTTAA
31838641 TGATGAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (22 bp):
AAATAGGTTAATTAAAGCTTAA
Found at i:31840420 original size:21 final size:19
Alignment explanation
Indices: 31840394--31840444 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
31840384 GGAGTTTTTG
*
31840394 GTATCGGTATATGCATGACTT
1 GTATCGGTAAAT-CAT-ACTT
31840415 GTATCGGTAGAAATCATACTT
1 GTATCGGT--AAATCATACTT
31840436 GTATCGGTA
1 GTATCGGTA
31840445 GAGCTAGCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
21 20 0.74
22 3 0.11
23 3 0.11
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (19 bp):
GTATCGGTAAATCATACTT
Found at i:31844046 original size:22 final size:20
Alignment explanation
Indices: 31844021--31844068 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
31844011 ATATATGAAT
*
31844021 ATAAATAAATTTAATGAAGACA
1 ATAAATAAA-TTAAT-AACACA
*
31844043 ATAAAATACATTAATAACACA
1 AT-AAATAAATTAATAACACA
31844064 ATAAA
1 ATAAA
31844069 AATATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.13
21 7 0.30
22 7 0.30
23 6 0.26
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25
Consensus pattern (20 bp):
ATAAATAAATTAATAACACA
Found at i:31844081 original size:22 final size:21
Alignment explanation
Indices: 31844018--31844078 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
31844008 AAAATATATG
*
31844018 AATATAAATAAATTTAATGAAGAC
1 AATA-AAATAAA-TTAAT-AACAC
*
31844042 AATAAAATACATTAATAACAC
1 AATAAAATAAATTAATAACAC
31844063 AATAAAAATATAATTA
1 AAT-AAAATA-AATTA
31844079 TAATATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 7 0.22
22 11 0.34
23 10 0.31
24 4 0.12
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (21 bp):
AATAAAATAAATTAATAACAC
Found at i:31844119 original size:28 final size:28
Alignment explanation
Indices: 31844066--31844120 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
31844056 ATAACACAAT
* * *
31844066 AAAAATATAATTATAATATTATTTCAAA
1 AAAAATATAATCATAATAATAATTCAAA
*
31844094 AAAAATATAATCATAGTAATAATTCAA
1 AAAAATATAATCATAATAATAATTCAA
31844121 TAAATATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAAATATAATCATAATAATAATTCAAA
Found at i:31844303 original size:21 final size:21
Alignment explanation
Indices: 31844263--31844303 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31844253 AATAAATAAT
*
31844263 AAATCAATGAATAAATATATG
1 AAATCAATGAATAAAAATATG
31844284 AAATGCAAT-AATAAAAATAT
1 AAAT-CAATGAATAAAAATAT
31844304 CTAACATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (21 bp):
AAATCAATGAATAAAAATATG
Found at i:31844452 original size:26 final size:26
Alignment explanation
Indices: 31844423--31844490 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
31844413 CAAATTAAAT
* *
31844423 AAATAATAAAAAAATAGATAACAATA
1 AAATAATAAAAAAATAAATAACAACA
* * **
31844449 AAATGACATGAAAATAAATAACAACA
1 AAATAATAAAAAAATAAATAACAACA
31844475 AAATAAATAAACAAAA
1 AAAT-AATAAA-AAAA
31844491 ACAAAAAAAA
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
26 24 0.80
27 2 0.07
28 4 0.13
ACGTcount: A:0.72, C:0.07, G:0.04, T:0.16
Consensus pattern (26 bp):
AAATAATAAAAAAATAAATAACAACA
Found at i:31844453 original size:41 final size:38
Alignment explanation
Indices: 31844377--31844480 Score: 102
Period size: 41 Copynumber: 2.6 Consensus size: 38
31844367 TAATGATAAA
31844377 TAAATAAATAAACAAATAAGATAATAACAATAAATGCAAAT-
1 TAAATAAATAAA-AAA-AA-ATAATAACAATAAATG-AAATG
*
31844418 TAAATAAATAATAAAAAAATAGATAACAATAAAATGACATG
1 TAAATAAATAA-AAAAAAATA-ATAACAAT-AAATGAAATG
* *
31844459 AAAATAAATAACAACAAAATAA
1 TAAATAAATAA-AAAAAAATAA
31844481 ATAAACAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
39 3 0.05
40 14 0.25
41 37 0.67
42 1 0.02
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (38 bp):
TAAATAAATAAAAAAAAATAATAACAATAAATGAAATG
Found at i:31844484 original size:19 final size:19
Alignment explanation
Indices: 31844460--31844496 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31844450 AATGACATGA
* *
31844460 AAATAAATAACAACAAAAT
1 AAATAAACAAAAACAAAAT
31844479 AAATAAACAAAAACAAAA
1 AAATAAACAAAAACAAAA
31844497 AAAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (19 bp):
AAATAAACAAAAACAAAAT
Found at i:31844576 original size:51 final size:48
Alignment explanation
Indices: 31844509--31844645 Score: 127
Period size: 51 Copynumber: 2.8 Consensus size: 48
31844499 AAAATTAATG
* * *
31844509 CTAAAATAAACAAATAAATATAAATAATAAAAATAATTGAGATTAAGCA
1 CTAAAATAAATAAATAAATATAAATAATAAAAATAATT-AAATTAAACA
* *
31844558 -TGAAAATAAATGATAATAAATAAATAAACAA-AAAAATCAA-TAAATTAAATA
1 CT-AAAATAAAT-A-AATAAAT--ATAAATAATAAAAAT-AATTAAATTAAACA
* *
31844609 CTAAAATAAATAACTAAATATAAATAATAACAATAAT
1 CTAAAATAAATAAATAAATATAAATAATAAAAATAAT
31844646 AATAATAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 19
0.72 0.08 0.19
Matches are distributed among these distances:
47 9 0.13
48 6 0.08
49 14 0.20
50 2 0.03
51 23 0.32
52 8 0.11
53 9 0.13
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.25
Consensus pattern (48 bp):
CTAAAATAAATAAATAAATATAAATAATAAAAATAATTAAATTAAACA
Found at i:31844591 original size:100 final size:101
Alignment explanation
Indices: 31844455--31844645 Score: 269
Period size: 100 Copynumber: 1.9 Consensus size: 101
31844445 AATAAAATGA
*
31844455 CATGAAAATAAATAACAACAAAATAAATAAACAAAAACAAAAAAAAAATT-AATGCTAAAATAAA
1 CATGAAAATAAATAACAACAAAATAAATAAACAAAAA-AAAAAAAAAATTAAATACTAAAATAAA
31844519 CAAATAAATATAAATAATAAAAATAATTGAGATTAAG
65 CAAATAAATATAAATAATAAAAATAATTGAGATTAAG
* * * ** * *
31844556 CATGAAAATAAATGATAA-TAAATAAATAAACAAAAAAATCAATAAATTAAATACTAAAATAAAT
1 CATGAAAATAAATAACAACAAAATAAATAAACAAAAAAAAAAAAAAATTAAATACTAAAATAAAC
* *
31844620 AACTAAATATAAATAATAACAATAAT
66 AAATAAATATAAATAATAAAAATAAT
31844646 AATAATAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
99 9 0.11
100 54 0.68
101 16 0.20
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.22
Consensus pattern (101 bp):
CATGAAAATAAATAACAACAAAATAAATAAACAAAAAAAAAAAAAAATTAAATACTAAAATAAAC
AAATAAATATAAATAATAAAAATAATTGAGATTAAG
Found at i:31844615 original size:13 final size:13
Alignment explanation
Indices: 31844575--31844644 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
31844565 AAATGATAAT
31844575 AAATAAATAAAC-A
1 AAATAAAT-AACTA
31844588 AAA-AAATCAA-TA
1 AAATAAAT-AACTA
*
31844600 AATTAAAT-ACTA
1 AAATAAATAACTA
31844612 AAATAAATAACTA
1 AAATAAATAACTA
31844625 AATATAAATAA-TA
1 AA-ATAAATAACTA
31844638 ACAATAA
1 A-AATAA
31844645 TAATAATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
11 1 0.02
12 18 0.38
13 20 0.42
14 9 0.19
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAATAACTA
Found at i:31844647 original size:26 final size:25
Alignment explanation
Indices: 31844560--31844644 Score: 68
Period size: 25 Copynumber: 3.3 Consensus size: 25
31844550 ATTAAGCATG
*
31844560 AAAATAAATGATAATAAA-TAAATAA-
1 AAAATAAAT-A-ACTAAATTAAATAAT
* *
31844585 ACAAAAAAATCAA-TAAATTAAATACT
1 A-AAATAAAT-AACTAAATTAAATAAT
31844611 AAAATAAATAACTAAATATAAATAAT
1 AAAATAAATAACTAAAT-TAAATAAT
31844637 AACAATAA
1 AA-AATAA
31844645 TAATAATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
24 6 0.12
25 20 0.41
26 18 0.37
27 5 0.10
ACGTcount: A:0.69, C:0.06, G:0.01, T:0.24
Consensus pattern (25 bp):
AAAATAAATAACTAAATTAAATAAT
Found at i:31862388 original size:13 final size:13
Alignment explanation
Indices: 31862370--31862395 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31862360 TTGAATGTTT
31862370 GATGTTTGGGTTA
1 GATGTTTGGGTTA
31862383 GATGTTTGGGTTA
1 GATGTTTGGGTTA
31862396 TATCTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (13 bp):
GATGTTTGGGTTA
Found at i:31865753 original size:39 final size:39
Alignment explanation
Indices: 31865710--31865791 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
31865700 TTACTTAATA
31865710 AAAAAACAAAGAGAACATTTTTAAAATGAACAAAAATTT
1 AAAAAACAAAGAGAACATTTTTAAAATGAACAAAAATTT
**
31865749 AAAAAACAAAGTTAACATTTTTAAAATGAACAAAAATTT
1 AAAAAACAAAGAGAACATTTTTAAAATGAACAAAAATTT
31865788 AAAA
1 AAAA
31865792 TTGGCAGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.62, C:0.07, G:0.06, T:0.24
Consensus pattern (39 bp):
AAAAAACAAAGAGAACATTTTTAAAATGAACAAAAATTT
Found at i:31871295 original size:30 final size:29
Alignment explanation
Indices: 31871225--31871359 Score: 116
Period size: 30 Copynumber: 4.7 Consensus size: 29
31871215 TATTTTATTT
* *
31871225 CAAAATTATATTTT-A-ACCTTAAATTTTC
1 CAAAATTATATTTTGACCCCTT-AACTTTC
* *
31871253 TCAAAATTATATTTTGACCCCTTTACATTC
1 -CAAAATTATATTTTGACCCCTTAACTTTC
* *
31871283 CAAAATTTATATTTTAAACCCTTAACTTTC
1 CAAAA-TTATATTTTGACCCCTTAACTTTC
* * *
31871313 CAAAACTATA--TTGACTCCTAAACTTTTC
1 CAAAATTATATTTTGACCCCTTAAC-TTTC
*
31871341 AAAAATTATATTTTGACCC
1 CAAAATTATATTTTGACCC
31871360 GAAATTTTTT
Statistics
Matches: 84, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
27 9 0.11
28 12 0.14
29 23 0.27
30 36 0.43
31 4 0.05
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (29 bp):
CAAAATTATATTTTGACCCCTTAACTTTC
Found at i:31871354 original size:57 final size:58
Alignment explanation
Indices: 31871221--31871417 Score: 143
Period size: 59 Copynumber: 3.4 Consensus size: 58
31871211 CCCCTATTTT
* * **
31871221 ATTTC-AAAATTATATTTTAACCTTAAATTTTCTCAAAATTATATTTTGACCCCTTTAC
1 ATTTCAAAAATTATATTTTAACCTTAAACTTTCTCAAAACTATA-TTTGACCCCTAAAC
* * *
31871279 ATTCCAAAATTTATATTTTAAACCCTT-AACTTTC-CAAAACTATA-TTGACTCCTAAAC
1 ATTTCAAAAATTATATTTT-AA-CCTTAAACTTTCTCAAAACTATATTTGACCCCTAAAC
* * ** * * * *
31871336 TTTTCAAAAATTATATTTTGACCCGAAATTTTTTAAAAATTGCAT-TTTGACCCCTAAAC
1 ATTTCAAAAATTATATTTTAACCTTAAACTTTCTCAAAACT--ATATTTGACCCCTAAAC
* * * *
31871395 CTTTTAAAAATCACATTTTAACC
1 ATTTCAAAAATTATATTTTAACC
31871418 CTCAAATTTT
Statistics
Matches: 108, Mismatches: 23, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
55 2 0.02
56 6 0.06
57 31 0.29
58 4 0.04
59 53 0.49
60 8 0.07
61 4 0.04
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (58 bp):
ATTTCAAAAATTATATTTTAACCTTAAACTTTCTCAAAACTATATTTGACCCCTAAAC
Found at i:31871382 original size:29 final size:29
Alignment explanation
Indices: 31871336--31871483 Score: 118
Period size: 30 Copynumber: 5.0 Consensus size: 29
31871326 ACTCCTAAAC
* * *
31871336 TTTTCAAAAATTATATTTTGACCCGAAAT
1 TTTTTAAAAATTACATTTTGACCCCAAAT
* *
31871365 TTTTTAAAAATTGCATTTTGACCCCTAAAC
1 TTTTTAAAAATTACATTTTGACCCC-AAAT
* * *
31871395 CTTTTAAAAATCACATTTTAACCCTCAAAT
1 TTTTTAAAAATTACATTTTGACCC-CAAAT
* * *
31871425 TTTTTCAAAATTTC-TTTCTAACCCCAAACT
1 TTTTTAAAAATTACATTT-TGACCCCAAA-T
* * *
31871455 TTTTGAAGAATCACATTTTGACCCACAAA
1 TTTTTAAAAATTACATTTTGACCC-CAAA
31871484 ACTTTCCAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
29 28 0.30
30 57 0.61
31 8 0.09
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.39
Consensus pattern (29 bp):
TTTTTAAAAATTACATTTTGACCCCAAAT
Found at i:31871402 original size:30 final size:29
Alignment explanation
Indices: 31871323--31871488 Score: 97
Period size: 30 Copynumber: 5.6 Consensus size: 29
31871313 CAAAACTATA
* *
31871323 TTGACTCCTAAACTTTTCAAAAATTATATT
1 TTGACCCCTAAACTTTT-AAAAATTACATT
* * *
31871353 TTGA-CCCGAAATTTTTTAAAAATTGCATT
1 TTGACCCCTAAA-CTTTTAAAAATTACATT
*
31871382 TTGACCCCTAAACCTTTTAAAAATCACATT
1 TTGACCCCTAAA-CTTTTAAAAATTACATT
* * * *
31871412 TT-AACCCTCAAATTTTTTCAAAATTTC-TT
1 TTGACCCCT-AAA-CTTTTAAAAATTACATT
* * *
31871441 TCTAACCCC-AAACTTTTTGAAGAATCACATT
1 T-TGACCCCTAAAC-TTTT-AAAAATTACATT
*
31871472 TTGACCCACAAAACTTT
1 TTGACCC-CTAAACTTT
31871489 CCAAAATTGT
Statistics
Matches: 103, Mismatches: 23, Indels: 19
0.71 0.16 0.13
Matches are distributed among these distances:
29 34 0.33
30 54 0.52
31 11 0.11
32 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.39
Consensus pattern (29 bp):
TTGACCCCTAAACTTTTAAAAATTACATT
Found at i:31871435 original size:60 final size:59
Alignment explanation
Indices: 31871323--31871497 Score: 167
Period size: 60 Copynumber: 2.9 Consensus size: 59
31871313 CAAAACTATA
* * * * *
31871323 TTGACTCCTAAA-CTTTTCAAAAATTATATTTTGACCCGAAATTTTTTAAAAATTGCATT
1 TTGACCCCTAAACCTTTTCAAAAATCACATTTTGACCCCAAATTTTTTCAAAATTGC-TT
* *
31871382 TTGACCCCTAAACCTTTT-AAAAATCACATTTTAACCCTCAAATTTTTTCAAAATTTCTT
1 TTGACCCCTAAACCTTTTCAAAAATCACATTTTGACCC-CAAATTTTTTCAAAATTGCTT
* * * * ** *
31871441 TCTAACCCC-AAACTTTTTGAAGAATCACATTTTGACCCACAAAACTTTCCAAAATTG
1 T-TGACCCCTAAACCTTTTCAAAAATCACATTTTGACCC-CAAATTTTTTCAAAATTG
31871498 TGATTTTGCC
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
59 38 0.40
60 58 0.60
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (59 bp):
TTGACCCCTAAACCTTTTCAAAAATCACATTTTGACCCCAAATTTTTTCAAAATTGCTT
Found at i:31871592 original size:18 final size:18
Alignment explanation
Indices: 31871569--31871610 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
31871559 AAATTAATCC
*
31871569 CTTTTTTTATATTT-TCAT
1 CTTTTTTTAGATTTCTC-T
31871587 CTTTTTTTAGATTTCTCT
1 CTTTTTTTAGATTTCTCT
31871605 CTTTTT
1 CTTTTT
31871611 ATTTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (18 bp):
CTTTTTTTAGATTTCTCT
Found at i:31875662 original size:18 final size:18
Alignment explanation
Indices: 31875639--31875681 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
31875629 GAATAGGTTT
31875639 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
31875657 TTAATTTAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
31875675 TTAATTA
1 TTAATTA
31875682 TCCTTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:31879503 original size:18 final size:18
Alignment explanation
Indices: 31879475--31879530 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
31879465 TAAATTAATT
31879475 AATTT-TAAAATATA-AA
1 AATTTATAAAATATATAA
*
31879491 ATATTTATAAAATTATATGA
1 A-ATTTATAAAA-TATATAA
*
31879511 AATTTAAAAAATATATAA
1 AATTTATAAAATATATAA
31879529 AA
1 AA
31879531 CATTTAGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 13 0.39
19 13 0.39
20 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATTTATAAAATATATAA
Found at i:31886954 original size:23 final size:23
Alignment explanation
Indices: 31886928--31886971 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
31886918 AACCCGATCG
31886928 AAAATTCCA-ACAAAAAAAAAGAC
1 AAAA-TCCACACAAAAAAAAAGAC
*
31886951 AAAATCCACACACAAAAAAAG
1 AAAATCCACACAAAAAAAAAG
31886972 GGAAAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.68, C:0.20, G:0.05, T:0.07
Consensus pattern (23 bp):
AAAATCCACACAAAAAAAAAGAC
Found at i:31886977 original size:23 final size:23
Alignment explanation
Indices: 31886927--31886977 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
31886917 AAACCCGATC
31886927 GAAAATTCCAACAAAAAAAAAGA
1 GAAAATTCCAACAAAAAAAAAGA
* * *
31886950 CAAAA-TCCACACACAAAAAAAGG
1 GAAAATTCCA-ACAAAAAAAAAGA
31886973 GAAAA
1 GAAAA
31886978 AAACAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.67, C:0.18, G:0.10, T:0.06
Consensus pattern (23 bp):
GAAAATTCCAACAAAAAAAAAGA
Found at i:31889270 original size:23 final size:23
Alignment explanation
Indices: 31889260--31889363 Score: 154
Period size: 23 Copynumber: 4.5 Consensus size: 23
31889250 TTCATTTAAC
31889260 TTAATCGAACATGTTCACAAACA
1 TTAATCGAACATGTTCACAAACA
31889283 TTAATCGAACATGTTCACAAACA
1 TTAATCGAACATGTTCACAAACA
*
31889306 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACAAACA
* * *
31889329 TTAAACGAACATATTCATAAACA
1 TTAATCGAACATGTTCACAAACA
*
31889352 TATAATTGAACA
1 T-TAATCGAACA
31889364 CATTCACGAA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
23 65 0.89
24 8 0.11
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (23 bp):
TTAATCGAACATGTTCACAAACA
Found at i:31889296 original size:46 final size:47
Alignment explanation
Indices: 31889244--31889363 Score: 156
Period size: 46 Copynumber: 2.6 Consensus size: 47
31889234 AATGTTCACA
** *
31889244 AACATGTTCATTTAAC-TTAATCGAACATGTTCACAAACATTAATCG
1 AACATGTTCATCAAACATTAATCGAACATGTTCACAAACATTAAACG
*
31889290 AACATGTTCA-CAAACATTAATCGAACATGTTCACGAACATTAAACG
1 AACATGTTCATCAAACATTAATCGAACATGTTCACAAACATTAAACG
* *
31889336 AACATATTCAT-AAACATATAATTGAACA
1 AACATGTTCATCAAACAT-TAATCGAACA
31889364 CATTCACGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
45 3 0.05
46 53 0.82
47 9 0.14
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.28
Consensus pattern (47 bp):
AACATGTTCATCAAACATTAATCGAACATGTTCACAAACATTAAACG
Found at i:31889483 original size:12 final size:12
Alignment explanation
Indices: 31889466--31889501 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
31889456 TCATTAATAA
31889466 ATAAACGAGCTT
1 ATAAACGAGCTT
**
31889478 ATAAACGAGCCA
1 ATAAACGAGCTT
31889490 ATAAACGAGCTT
1 ATAAACGAGCTT
31889502 GTTCGTGAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:31922430 original size:50 final size:49
Alignment explanation
Indices: 31922340--31922858 Score: 249
Period size: 50 Copynumber: 10.6 Consensus size: 49
31922330 TTTCATTACC
* * * * * *
31922340 ATGAAGGGATAGTTTTAAGCCGCAACGACTAATCC-AGTACCACGAAGATA
1 ATGAAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTGTACCACGAAGA-A
* * ** * *
31922390 ATGGAGGGAGAGGCTTAAGTCGCAACGGCGAACCTTGTACCTC-AAG-C
1 ATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACGAAGAA
* * ** * * * *
31922437 ATGAAGGGAAATATTTAAATAACAATGACGAATCTAGTACCACGAAGATA
1 ATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACGAAGA-A
* * * * * *
31922487 ATGGAGGGAAAGGTTTAAGTCGCAACGGTGAACCTTTTACCTCAGAAG-C
1 ATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCAC-GAAGAA
* * *
31922536 ATGAAGGGAAAGATTTAAGCCGTAACGGCGAA-TTTAGTACCACGAAGACA
1 ATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTT-GTACCACGAAGA-A
* * *
31922586 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCACAAAGACA
1 ATGAAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTGTACCACGAAGA-A
* *** * * *
31922636 ATGGAGGGAAATG-TTTAAGTCGCAATAACGAACCTTATACCTCAGAAG-C
1 ATGAAGGGAAA-GATTTAAGTCGCAACGGCGAACCTTGTACCAC-GAAGAA
* * * * *
31922685 ATGAAGGGAAAGGTTTAAGTTGCAACGGCGGACCTAGTACCTC-AA-AA
1 ATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACGAAGAA
* * * * * *
31922732 GCATGGAA-GG-AATATTTAAG-CTGCAACGACGAATCTAGTACCTCGAAGAC
1 --AT-GAAGGGAAAGATTTAAGTC-GCAACGGCGAACCTTGTACCACGAAGAA
** * * * * * *
31922782 ACAAAGGAAAAGGTTTAAGTCGCAACGACAAACCTTGTACCTC-AGAGAC
1 ATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACGA-AGAA
* *
31922831 ATGAAAGGAAA-ATTTTAAGCCGCAACGG
1 ATGAAGGGAAAGA-TTTAAGTCGCAACGG
31922859 TAAATTTAGT
Statistics
Matches: 351, Mismatches: 92, Indels: 53
0.71 0.19 0.11
Matches are distributed among these distances:
47 34 0.10
48 40 0.11
49 129 0.37
50 140 0.40
51 8 0.02
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (49 bp):
ATGAAGGGAAAGATTTAAGTCGCAACGGCGAACCTTGTACCACGAAGAA
Found at i:31922505 original size:97 final size:98
Alignment explanation
Indices: 31922339--31922857 Score: 468
Period size: 97 Copynumber: 5.3 Consensus size: 98
31922329 GTTTCATTAC
* * * * * * *
31922339 CATGAAGGGATAGT-TTTAAGCCGCAACGACTAATCCAGTACCACGAAGATAATGGAGGGAGAGG
1 CATGAAGGGA-AATATTTAAGTCGCAACGACGAATCTAGTACCACGAAGACAATGAAGGGAAAGG
*
31922403 CTTAAGTCGCAACGGCGAACCTTGTACCTC-AAG
65 TTTAAGTCGCAACGGCGAACCTTGTACCTCAAAG
* ** * * *
31922436 CATGAAGGGAAATATTTAAATAACAATGACGAATCTAGTACCACGAAGATAATGGAGGGAAAGGT
1 CATGAAGGGAAATATTTAAGTCGCAACGACGAATCTAGTACCACGAAGACAATGAAGGGAAAGGT
* *
31922501 TTAAGTCGCAACGGTGAACCTTTTACCTCAGAAG
66 TTAAGTCGCAACGGCGAACCTTGTACCTCA-AAG
* * * * * *
31922535 CATGAAGGGAAAGATTTAAGCCGTAACGGCGAATTTAGTACCACGAAGACAATGAAGGGAAAGAT
1 CATGAAGGGAAATATTTAAGTCGCAACGACGAATCTAGTACCACGAAGACAATGAAGGGAAAGGT
* * *
31922600 TTAAGCCGCAACGGCGAATCC-AGTACCACAAAG
66 TTAAGTCGCAACGGCGAA-CCTTGTACCTCAAAG
* * ** * *
31922633 ACAATGGAGGGAAATGTTTAAGTCGCAATAACGAACCTTA-TACCTCAGAAG-C-ATGAAGGGAA
1 -C-ATGAAGGGAAATATTTAAGTCGCAACGACGAATC-TAGTACCAC-GAAGACAATGAAGGGAA
* * *
31922695 AGGTTTAAGTTGCAACGGCGGACCTAGTACCTCAAAAG
62 AGGTTTAAGTCGCAACGGCGAACCTTGTACCTC-AAAG
* *
31922733 CATGGAA-GG-AATATTTAAG-CTGCAACGACGAATCTAGTACCTCGAAGACACA--AAGGAAAA
1 CAT-GAAGGGAAATATTTAAGTC-GCAACGACGAATCTAGTACCACGAAGACA-ATGAAGGGAAA
* * *
31922793 GGTTTAAGTCGCAACGACAAACCTTGTACCTCAGAG
63 GGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAG
* *
31922829 ACATGAAAGGAAA-ATTTTAAGCCGCAACG
1 -CATGAAGGGAAATA-TTTAAGTCGCAACG
31922858 GTAAATTTAG
Statistics
Matches: 344, Mismatches: 57, Indels: 41
0.78 0.13 0.09
Matches are distributed among these distances:
96 15 0.04
97 145 0.42
98 23 0.07
99 119 0.35
100 36 0.10
101 6 0.02
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (98 bp):
CATGAAGGGAAATATTTAAGTCGCAACGACGAATCTAGTACCACGAAGACAATGAAGGGAAAGGT
TTAAGTCGCAACGGCGAACCTTGTACCTCAAAG
Found at i:31922553 original size:49 final size:50
Alignment explanation
Indices: 31922404--31922858 Score: 316
Period size: 49 Copynumber: 9.3 Consensus size: 50
31922394 AGGGAGAGGC
*
31922404 TTAAGTCGCAACGGCGAACCTTGTACCTC--AAG-CATGAAGGGAAATAT
1 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGACATGAAGGGAAAGAT
* ** * * * * * * * *
31922451 TTAAATAACAATGACGAATCTAGTACCAC-GAAGATAATGGAGGGAAAGGT
1 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGA-CATGAAGGGAAAGAT
* *
31922501 TTAAGTCGCAACGGTGAACCTTTTACCTCAGAAG-CATGAAGGGAAAGAT
1 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGACATGAAGGGAAAGAT
* * * *
31922550 TTAAGCCGTAACGGCGAA-TTTAGTACCAC-GAAGACAATGAAGGGAAAGAT
1 TTAAGTCGCAACGGCGAACCTT-GTACCTCAGAAGAC-ATGAAGGGAAAGAT
* * * *
31922600 TTAAGCCGCAACGGCGAATCC-AGTACCACA-AAGACAATGGAGGGAAATG-T
1 TTAAGTCGCAACGGCGAA-CCTTGTACCTCAGAAGAC-ATGAAGGGAAA-GAT
*** * *
31922650 TTAAGTCGCAATAACGAACCTTATACCTCAGAAG-CATGAAGGGAAAGGT
1 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGACATGAAGGGAAAGAT
* * * * *
31922699 TTAAGTTGCAACGGCGGACCTAGTACCTCAAAAG-CATGGAA-GG-AATAT
1 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGACAT-GAAGGGAAAGAT
* * * ** * *
31922747 TTAAG-CTGCAACGACGAATCTAGTACCTC-GAAGACACAAAGGAAAAGGT
1 TTAAGTC-GCAACGGCGAACCTTGTACCTCAGAAGACATGAAGGGAAAGAT
* * *
31922796 TTAAGTCGCAACGACAAACCTTGTACCTCAG-AGACATGAAAGGAAA-ATT
1 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGACATGAAGGGAAAGA-T
*
31922845 TTAAGCCGCAACGG
1 TTAAGTCGCAACGG
31922859 TAAATTTAGT
Statistics
Matches: 313, Mismatches: 73, Indels: 42
0.73 0.17 0.10
Matches are distributed among these distances:
47 26 0.08
48 40 0.13
49 128 0.41
50 111 0.35
51 8 0.03
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (50 bp):
TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGACATGAAGGGAAAGAT
Found at i:31922625 original size:149 final size:147
Alignment explanation
Indices: 31922463--31922872 Score: 454
Period size: 149 Copynumber: 2.8 Consensus size: 147
31922453 AAATAACAAT
* ** *
31922463 GACGAATCTAGTACCACGAAGATAATGGAGGGAAAGGTTTAAGTCGCAACGGTGAACCTTTTACC
1 GACGAATCTAGTACCACGAAGACAATGGAGGGAAAGGTTTAAGTCGCAACGACGAACCTTATACC
* *
31922528 TCAGAAGCATGAAGGGAAAGATTTAAGCCGTAACGGCGAATTTAGTACCAC-GAAGACAAT-GAA
66 TCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATTTAGTACCACAAAAG-C-ATGGAA
31922591 GGGAAAGATTTAAGCCGCAAC
129 -GG-AAGATTTAAGCCGCAAC
* * * * **
31922612 GGCGAATCCAGTACCACAAAGACAATGGAGGGAAATGTTTAAGTCGCAATAACGAACCTTATACC
1 GACGAATCTAGTACCACGAAGACAATGGAGGGAAAGGTTTAAGTCGCAACGACGAACCTTATACC
* ** * ** *
31922677 TCAGAAGCATGAAGGGAAAGGTTTAAGTTGCAACGGCGGACCTAGTACCTCAAAAGCATGGAAGG
66 TCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATTTAGTACCACAAAAGCATGGAAGG
* *
31922742 AATATTTAAGCTGCAAC
131 AAGATTTAAGCCGCAAC
* * * * *
31922759 GACGAATCTAGTACCTCGAAGACACA--AAGGAAAAGGTTTAAGTCGCAACGACAAACCTTGTAC
1 GACGAATCTAGTACCACGAAGACA-ATGGAGGGAAAGGTTTAAGTCGCAACGACGAACCTTATAC
* **
31922822 CTCAG-AGACATGAAAGGAAA-ATTTTAAGCCGCAACGGTAAATTTAGTACCA
65 CTCAGAAG-CATGAAGGGAAAGA-TTTAAGCCGCAACGGCGAATTTAGTACCA
31922873 TGCAGATTGA
Statistics
Matches: 214, Mismatches: 42, Indels: 13
0.80 0.16 0.05
Matches are distributed among these distances:
145 2 0.01
146 67 0.31
147 35 0.16
148 5 0.02
149 102 0.48
150 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (147 bp):
GACGAATCTAGTACCACGAAGACAATGGAGGGAAAGGTTTAAGTCGCAACGACGAACCTTATACC
TCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATTTAGTACCACAAAAGCATGGAAGG
AAGATTTAAGCCGCAAC
Found at i:31939328 original size:30 final size:30
Alignment explanation
Indices: 31939292--31939356 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
31939282 CAACTTAACA
* *
31939292 AACAAATGTCTCTAAAATAGTAACAAAATT
1 AACAAATATCTCTAAAATAATAACAAAATT
*
31939322 AACAAATATCTCTAAAATAATAATAAAATT
1 AACAAATATCTCTAAAATAATAACAAAATT
31939352 AACAA
1 AACAA
31939357 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.26
Consensus pattern (30 bp):
AACAAATATCTCTAAAATAATAACAAAATT
Found at i:31940691 original size:17 final size:18
Alignment explanation
Indices: 31940669--31940705 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
31940659 AAAAATTTAG
31940669 TTTTT-GCTCAAAAGTGC
1 TTTTTGGCTCAAAAGTGC
31940686 TTTTTGGCTCAAAAGTGC
1 TTTTTGGCTCAAAAGTGC
31940704 TT
1 TT
31940706 CTGAGAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (18 bp):
TTTTTGGCTCAAAAGTGC
Found at i:31942960 original size:28 final size:28
Alignment explanation
Indices: 31942879--31942960 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
31942869 TCTTTAAAAA
*
31942879 TTAAAAAATTTAAATAAACATAAAAATTATT
1 TTAAAAAA-TT-AA-AAATATAAAAATTATT
* * *
31942910 TTAAAAAATTGAAAGTATTAAAATTATT
1 TTAAAAAATTAAAAATATAAAAATTATT
*
31942938 TT-AAAAGTATAAAAATATAAAAA
1 TTAAAAAAT-TAAAAATATAAAAA
31942961 AAATATATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.12
28 26 0.62
29 1 0.02
30 2 0.05
31 8 0.19
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (28 bp):
TTAAAAAATTAAAAATATAAAAATTATT
Found at i:31946360 original size:23 final size:22
Alignment explanation
Indices: 31946334--31946384 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
31946324 ATATATTCAT
31946334 TTATAATAATTTAATATTTATAA
1 TTATAATAATTT-ATATTTATAA
* * *
31946357 TTATTAGAATTTATATTTGTAA
1 TTATAATAATTTATATTTATAA
31946379 TT-TAAT
1 TTATAAT
31946385 TCTATTATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 2 0.09
22 11 0.48
23 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
TTATAATAATTTATATTTATAA
Found at i:31949727 original size:6 final size:6
Alignment explanation
Indices: 31949705--31949772 Score: 54
Period size: 6 Copynumber: 12.0 Consensus size: 6
31949695 GTTTAAATTG
* * * *
31949705 ATTTAA ATTTAT TTTTAA ATTTAA ATTTAT CTTT-- -TTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* *
31949750 ATTT-G CTTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA
31949773 TTAAAAAAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
3 3 0.06
5 3 0.06
6 42 0.88
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (6 bp):
ATTTAA
Found at i:31949742 original size:21 final size:18
Alignment explanation
Indices: 31949705--31949771 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 18
31949695 GTTTAAATTG
31949705 ATTTAAATTTATTTTTAA
1 ATTTAAATTTATTTTTAA
31949723 ATTTAAATTTATCTTTTTTAA
1 ATTTAAATTTA---TTTTTAA
**
31949744 ATTTAAATTT-GCTTTAA
1 ATTTAAATTTATTTTTAA
31949761 ATTTAAATTTA
1 ATTTAAATTTA
31949772 ATTAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 15 0.35
18 11 0.26
21 17 0.40
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (18 bp):
ATTTAAATTTATTTTTAA
Found at i:31949796 original size:20 final size:20
Alignment explanation
Indices: 31949759--31949798 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31949749 AATTTGCTTT
*
31949759 AAATTTAAATTTAATTAAAA
1 AAATTTAAATTGAATTAAAA
* *
31949779 AAATTTACATTGATTTAAAA
1 AAATTTAAATTGAATTAAAA
31949799 CTTAGTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
AAATTTAAATTGAATTAAAA
Found at i:31950513 original size:4 final size:4
Alignment explanation
Indices: 31950506--31950551 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
31950496 TTTAATTAAT
*
31950506 AATA AATA AATA AA-A CTAAT- AATA ATTA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA --AATA AATA AATA AATA AATA AATA AATA AA
31950552 AGAAACCAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
3 4 0.11
4 30 0.83
5 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:31950527 original size:20 final size:20
Alignment explanation
Indices: 31950502--31950539 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31950492 ACGTTTTAAT
31950502 TAATAATAAATAAATAAAAC
1 TAATAATAAATAAATAAAAC
*
31950522 TAATAATAATTAAATAAA
1 TAATAATAAATAAATAAA
31950540 TAAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
TAATAATAAATAAATAAAAC
Found at i:31951710 original size:30 final size:29
Alignment explanation
Indices: 31951595--31951699 Score: 156
Period size: 29 Copynumber: 3.6 Consensus size: 29
31951585 CTCTGGAGGT
31951595 CCCTAAACTGTCCAAAAATTACATTTTTAC
1 CCCTAAACT-TCCAAAAATTACATTTTTAC
* * *
31951625 TCCTGAACTTCCAAAAATTCCATTTTTAAC
1 CCCTAAACTTCCAAAAATTACATTTTT-AC
*
31951655 CCCAAAACTTCCAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTACATTTTTAC
31951684 CCCTAAACTTCCAAAA
1 CCCTAAACTTCCAAAA
31951700 GTCTTGATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
29 34 0.52
30 32 0.48
ACGTcount: A:0.38, C:0.29, G:0.02, T:0.31
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTACATTTTTAC
Found at i:31951816 original size:59 final size:59
Alignment explanation
Indices: 31951753--31951869 Score: 139
Period size: 59 Copynumber: 2.0 Consensus size: 59
31951743 CTGGATTTTT
* * * *
31951753 AAAAATTTTATTTTTGGTCTCGA-TTTTTCCAAAATTTACCATTTTA-CCTCCGGATGTCC
1 AAAAA-TTTAGTTTTGATCTCAAGTTTTTCCAAAAGTTACCATTTTACCCT-CGGATGTCC
* * *
31951812 AAAAATTTCGTTTTGATCTCAAGTTTTTCTAAAAGTTACCGTTTTACCCTCGGATGTC
1 AAAAATTTAGTTTTGATCTCAAGTTTTTCCAAAAGTTACCATTTTACCCTCGGATGTC
31951870 TATAGTTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
58 13 0.27
59 33 0.67
60 3 0.06
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.43
Consensus pattern (59 bp):
AAAAATTTAGTTTTGATCTCAAGTTTTTCCAAAAGTTACCATTTTACCCTCGGATGTCC
Found at i:31952320 original size:97 final size:98
Alignment explanation
Indices: 31952181--31952365 Score: 241
Period size: 97 Copynumber: 1.9 Consensus size: 98
31952171 AAAAACTTTA
* * ** *
31952181 AAATCGAGGCAATATTCTTTTATTTCGAGTTTTGAAAATTTGTGTCTTAACTTACTAGGCACGA-
1 AAATCGAGGCAATATTCTTTTATCTCGAGTTCTGAAAATTTGTACCTAAACTTACTAGGCACGAC
31952245 TTTTTCTTCAAATCGAAATAATCGAATATCCTT
66 TTTTTCTTCAAATCGAAATAATCGAATATCCTT
* **
31952278 AAATCGAGGCAATGTT-TCTTTATCTCTGA-TTCTGAAAATTTGTACCTAAACTTACTAGGTGCG
1 AAATCGAGGCAATATTCT-TTTATCTC-GAGTTCTGAAAATTTGTACCTAAACTTACTAGGCACG
* *
31952341 ACTTTTTCTTTAAATCGAGATAATC
64 ACTTTTTCTTCAAATCGAAATAATC
31952366 CAACATCATT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
96 1 0.01
97 51 0.68
98 23 0.31
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (98 bp):
AAATCGAGGCAATATTCTTTTATCTCGAGTTCTGAAAATTTGTACCTAAACTTACTAGGCACGAC
TTTTTCTTCAAATCGAAATAATCGAATATCCTT
Found at i:31957574 original size:12 final size:12
Alignment explanation
Indices: 31957550--31957607 Score: 73
Period size: 12 Copynumber: 4.7 Consensus size: 12
31957540 ACTCGGATTC
31957550 AAAGAACAAAAGA
1 AAAGAA-AAAAGA
31957563 AAAGAAAAAAGA
1 AAAGAAAAAAGA
31957575 AAAGAAAAACA-A
1 AAAGAAAAA-AGA
*
31957587 AAAAAAAAAAGAA
1 AAAGAAAAAAG-A
31957600 AAAGAAAA
1 AAAGAAAA
31957608 GGAGAGGTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 1 0.03
12 24 0.60
13 15 0.38
ACGTcount: A:0.84, C:0.03, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:31957577 original size:6 final size:6
Alignment explanation
Indices: 31957557--31957607 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
31957547 TTCAAAGAAC
* *
31957557 AAAAG- AAAAGA AAAA-A GAAAAGA AAAACAA AAAAAA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA -AAAAGA AAAA-GA AAAAGA AAAAGA AAAAGA
31957605 AAA
1 AAA
31957608 GGAGAGGTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 6 0.15
6 28 0.70
7 6 0.15
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:31957591 original size:19 final size:19
Alignment explanation
Indices: 31957567--31957607 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
31957557 AAAAGAAAAG
*
31957567 AAAAAAGAAAAGAAAAACA
1 AAAAAAAAAAAGAAAAACA
*
31957586 AAAAAAAAAAAGAAAAAGA
1 AAAAAAAAAAAGAAAAACA
31957605 AAA
1 AAA
31957608 GGAGAGGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAGAAAAACA
Found at i:31958957 original size:51 final size:50
Alignment explanation
Indices: 31958795--31958958 Score: 143
Period size: 51 Copynumber: 3.3 Consensus size: 50
31958785 AAACACGACA
* *
31958795 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTATCGTAAAGATACAAAAG
1 GGAAAGATCTAAGA-CGCAACGGCGGATCCAGTATAGCAAAGATACAAAAG
* * * * ** * * *
31958846 GGAAAGGTCTAAGTCGCAACGGTGGA-CC-GTATACCTCAGAAACATGACG
1 GGAAAGATCTAAGACGCAACGGCGGATCCAGTATAGCAAAGATACA-AAAG
* ** *
31958895 GGAAATATCTAAGACTGCAACGGCAAATCCAGTATTGCAAAGATACAAAAG
1 GGAAAGATCTAAGAC-GCAACGGCGGATCCAGTATAGCAAAGATACAAAAG
*
31958946 GGAAAGGTCTAAG
1 GGAAAGATCTAAG
31958959 TTGTAACGGT
Statistics
Matches: 83, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
48 10 0.12
49 16 0.19
50 19 0.23
51 27 0.33
52 11 0.13
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.16
Consensus pattern (50 bp):
GGAAAGATCTAAGACGCAACGGCGGATCCAGTATAGCAAAGATACAAAAG
Found at i:31958957 original size:100 final size:99
Alignment explanation
Indices: 31958784--31959084 Score: 381
Period size: 100 Copynumber: 3.0 Consensus size: 99
31958774 TCAACACCGT
* *
31958784 GAAACACGACAGGAAAGATCTAAGACCGCAACGGCGGATCCAGTATCGTAAAGATACAAAAGGGA
1 GAAACA-GACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTATCGCAAAGATACAAAAGGGA
31958849 AAGGTCTAAGTCGCAACGGTGGACCGTATACCTCA
65 AAGGTCTAAGTCGCAACGGTGGACCGTATACCTCA
* * ** *
31958884 GAAACATGACGGGAAATATCTAAGACTGCAACGGCAAATCCAGTATTGCAAAGATACAAAAGGGA
1 GAAACA-GACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTATCGCAAAGATACAAAAGGGA
* * *
31958949 AAGGTCTAAGTTGTAACGGTGGACCGTGTA-CTCCA
65 AAGGTCTAAGTCGCAACGGTGGACCGTATACCT-CA
* * * * * *
31958984 GAAAC-GACGAGAAAGATTTAAGACCGCAACGGCGGATCTAGTACCACAAAGATACAAAAGAGAA
1 GAAACAGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTATCGCAAAGATACAAAAGGGAA
* * * *
31959048 AGGTCTAAGTCGCAACAGCGGACCTTATACCCCA
66 AGGTCTAAGTCGCAACGGTGGACCGTATACCTCA
31959082 GAA
1 GAA
31959085 GAAGGGAATG
Statistics
Matches: 170, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
98 76 0.45
99 3 0.02
100 91 0.54
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.15
Consensus pattern (99 bp):
GAAACAGACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTATCGCAAAGATACAAAAGGGAA
AGGTCTAAGTCGCAACGGTGGACCGTATACCTCA
Found at i:31959550 original size:6 final size:6
Alignment explanation
Indices: 31959528--31959595 Score: 54
Period size: 6 Copynumber: 12.0 Consensus size: 6
31959518 GTTTAAATTG
* * * *
31959528 ATTTAA ATTTAC TTTTAA ATTTAA ATTTAT CTTT-- -TTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* *
31959573 ATTT-G CTTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA
31959596 TTAAAAAAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
3 3 0.06
5 3 0.06
6 42 0.88
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.56
Consensus pattern (6 bp):
ATTTAA
Found at i:31959566 original size:21 final size:18
Alignment explanation
Indices: 31959528--31959594 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 18
31959518 GTTTAAATTG
31959528 ATTTAAATTTACTTTTAA
1 ATTTAAATTTACTTTTAA
31959546 ATTTAAATTTATCTTTTTTAA
1 ATTTAAATTTA-C--TTTTAA
*
31959567 ATTTAAATTTGC-TTTAA
1 ATTTAAATTTACTTTTAA
31959584 ATTTAAATTTA
1 ATTTAAATTTA
31959595 ATTAAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
17 15 0.34
18 11 0.25
19 1 0.02
20 1 0.02
21 16 0.36
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (18 bp):
ATTTAAATTTACTTTTAA
Found at i:31961497 original size:30 final size:30
Alignment explanation
Indices: 31961430--31961647 Score: 189
Period size: 30 Copynumber: 7.4 Consensus size: 30
31961420 AAAGGTCCCT
* *
31961430 AAACTATCCAAAAATTATATTTTT-ACTCCC-
1 AAACT-TCTAAAAATTACATTTTTAAC-CCCA
* * * *
31961460 GAACTTCTAAAAATTCCATTTTTAACCTCG
1 AAACTTCTAAAAATTACATTTTTAACCCCA
*
31961490 AAACTTCTAAAAATTACATTTTT-ACCCTCT
1 AAACTTCTAAAAATTACATTTTTAACCC-CA
* * * *
31961520 AAATTTC-AAAAATTCCATTTTTGACCCTA
1 AAACTTCTAAAAATTACATTTTTAACCCCA
** *
31961549 AAACTTCCCAAAATTACATTTTT-ACCCCC
1 AAACTTCTAAAAATTACATTTTTAACCCCA
* * *
31961578 GAACTTCTAAAAATTTCATTTTTGACCCCA
1 AAACTTCTAAAAATTACATTTTTAACCCCA
*
31961608 AAACTTCTAAAAATTACA-TTTT-ACCCCT
1 AAACTTCTAAAAATTACATTTTTAACCCCA
*
31961636 AAACTTCCAAAA
1 AAACTTCTAAAA
31961648 GTCCCAATTT
Statistics
Matches: 155, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
28 16 0.10
29 67 0.43
30 72 0.46
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (30 bp):
AAACTTCTAAAAATTACATTTTTAACCCCA
Found at i:31961531 original size:59 final size:58
Alignment explanation
Indices: 31961430--31961716 Score: 258
Period size: 59 Copynumber: 4.9 Consensus size: 58
31961420 AAAGGTCCCT
* * * * * *
31961430 AAACTATCCAAAAATTATATTTTTACTCCCGAACTTCTAAAAATTCCATTTTTAACCTCG
1 AAACT-TCTAAAAATTACATTTTTAC-CCCTAAATTCCAAAAATTCCATTTTTAACCTCA
* *
31961490 AAACTTCTAAAAATTACATTTTTACCCTCTAAATTTCAAAAATTCCATTTTTGACC-CTA
1 AAACTTCTAAAAATTACATTTTTACCC-CTAAATTCCAAAAATTCCATTTTTAACCTC-A
** * * * * * *
31961549 AAACTTCCCAAAATTACATTTTTACCCCCGAACTTCTAAAAATTTCATTTTTGACCCCA
1 AAACTTCTAAAAATTACATTTTTA-CCCCTAAATTCCAAAAATTCCATTTTTAACCTCA
* * * *
31961608 AAACTTCTAAAAATTACA-TTTTACCCCTAAACTTCCAAAAGTCCCAATTTTACCCTCA
1 AAACTTCTAAAAATTACATTTTTACCCCTAAA-TTCCAAAAATTCCATTTTTAACCTCA
* ** *
31961666 AAACTT-TCAAAAACTACCCTTTTACCCC-AAATGTCCAAAAATTCTATTTTT
1 AAACTTCT-AAAAATTACATTTTTACCCCTAAAT-TCCAAAAATTCCATTTTT
31961717 GCTCCTGATT
Statistics
Matches: 186, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
57 8 0.04
58 57 0.31
59 112 0.60
60 9 0.05
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (58 bp):
AAACTTCTAAAAATTACATTTTTACCCCTAAATTCCAAAAATTCCATTTTTAACCTCA
Found at i:31961735 original size:58 final size:60
Alignment explanation
Indices: 31961673--31961833 Score: 186
Period size: 59 Copynumber: 2.8 Consensus size: 60
31961663 TCAAAACTTT
* * * *
31961673 CAAAAACTACCCTTTTA-CCCCAAATGTCCAAAAATTCTATTTTTGCTCCTGA-TTTTTC
1 CAAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCTATTTTTGATACTGATTTTTTC
* * ** *
31961731 CAAAAATTACAATTTTACCCCCGAATGTCCAAAAATT-TCGTTTTGATATTGATTTTTTC
1 CAAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCTATTTTTGATACTGATTTTTTC
* * *
31961790 TAAAAGTTACCATTTTACCCCCAAATGTCAAAAAATTC-ATTTTT
1 CAAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCTATTTTT
31961834 TAACCTCGAA
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
58 24 0.29
59 60 0.71
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (60 bp):
CAAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCTATTTTTGATACTGATTTTTTC
Found at i:31974253 original size:15 final size:15
Alignment explanation
Indices: 31974235--31974271 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
31974225 ATTTAATTAT
31974235 TTTTTAAATATTGTA
1 TTTTTAAATATTGTA
*
31974250 TTTTAAAATATTGTA
1 TTTTTAAATATTGTA
*
31974265 TTGTTAA
1 TTTTTAA
31974272 TTGCAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (15 bp):
TTTTTAAATATTGTA
Found at i:31974383 original size:22 final size:23
Alignment explanation
Indices: 31974318--31974386 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 23
31974308 ATTTATTTAA
31974318 TATAATTAAAATATATTAATTAAATAT
1 TATAATT-AAA-ATATT--TTAAATAT
* * *
31974345 TATAATTGAATTTTTTTAAA-AT
1 TATAATTAAAATATTTTAAATAT
31974367 TATAATTAAAATATTTTAAA
1 TATAATTAAAATATTTTAAA
31974387 CATATACAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 19 0.53
23 5 0.14
25 3 0.08
26 2 0.06
27 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
TATAATTAAAATATTTTAAATAT
Found at i:31975367 original size:18 final size:17
Alignment explanation
Indices: 31975338--31975371 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
31975328 ACATCTTCCA
31975338 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
31975355 TTAAATCTATAATTATT
1 TTAAAT-TATAATTATT
31975372 AAAACTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:31978070 original size:16 final size:18
Alignment explanation
Indices: 31978031--31978064 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31978021 TAAGTTTATA
31978031 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
31978048 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
31978065 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:31979088 original size:30 final size:30
Alignment explanation
Indices: 31979052--31979111 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
31979042 CAATCTTTGT
* * *
31979052 ATTTTAATTTAGTTAATTTTTATTTTTATA
1 ATTTTAAATTAGTTAATTTTAATGTTTATA
*
31979082 ATTTTAAATTGGTTAATTTTAATGTTTATA
1 ATTTTAAATTAGTTAATTTTAATGTTTATA
31979112 CCTTTTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.62
Consensus pattern (30 bp):
ATTTTAAATTAGTTAATTTTAATGTTTATA
Found at i:31986058 original size:21 final size:21
Alignment explanation
Indices: 31986034--31986077 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
31986024 AAACTACAAC
31986034 AAGC-CAAATATAAAAGTGAAA
1 AAGCACAAATAT-AAAGTGAAA
* *
31986055 AAGCAGAAATATAAAGTTAAA
1 AAGCACAAATATAAAGTGAAA
31986076 AA
1 AA
31986078 AGAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.16
Consensus pattern (21 bp):
AAGCACAAATATAAAGTGAAA
Found at i:31989906 original size:16 final size:16
Alignment explanation
Indices: 31989888--31989937 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
31989878 GAGATGAGAG
31989888 GGGAGTAAAAGTTTT-
1 GGGAGTAAAAGTTTTA
* **
31989903 GGG-GGAAAAGTGGTA
1 GGGAGTAAAAGTTTTA
*
31989918 AGGAGTAAAAGTTTTA
1 GGGAGTAAAAGTTTTA
31989934 GGGA
1 GGGA
31989938 AAAAGTAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 3
0.69 0.22 0.08
Matches are distributed among these distances:
14 8 0.32
15 5 0.20
16 12 0.48
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (16 bp):
GGGAGTAAAAGTTTTA
Found at i:31990263 original size:18 final size:20
Alignment explanation
Indices: 31990230--31990266 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
31990220 TCTTTGCATG
31990230 AGTATAATAGTATAATATTA
1 AGTATAATAGTATAATATTA
31990250 AGTAT-ATA-TATAATATT
1 AGTATAATAGTATAATATT
31990267 TATTCATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (20 bp):
AGTATAATAGTATAATATTA
Found at i:31992265 original size:18 final size:18
Alignment explanation
Indices: 31992242--31992285 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
31992232 TAAACTATAT
*
31992242 TTTATTATAATATAAT-TA
1 TTTATTA-AACATAATGTA
31992260 TTTATTAAACATAATGTA
1 TTTATTAAACATAATGTA
31992278 TTT-TTAAA
1 TTTATTAAA
31992286 TTAATACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTATTAAACATAATGTA
Found at i:31996018 original size:2 final size:2
Alignment explanation
Indices: 31996011--31996040 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31996001 GAACAAAACA
31996011 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
31996041 CTGAATGAAA
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:31997527 original size:2 final size:2
Alignment explanation
Indices: 31997520--31997544 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31997510 AAATCCCACA
31997520 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
31997545 GTTTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31997688 original size:19 final size:19
Alignment explanation
Indices: 31997664--31997706 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
31997654 GCTTTATTTG
31997664 ACAAAATCATTTTGATATA
1 ACAAAATCATTTTGATATA
31997683 ACAAAATCATTTTGATATA
1 ACAAAATCATTTTGATATA
*
31997702 GCAAA
1 ACAAA
31997707 CTCTATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.33
Consensus pattern (19 bp):
ACAAAATCATTTTGATATA
Found at i:31999330 original size:41 final size:41
Alignment explanation
Indices: 31999273--31999353 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
31999263 GTCTCACATA
*
31999273 AAGGTACCAACCAAGTAAAGAAGTCTAAGGTTTGCGTTCTG
1 AAGGTACCAACCAAGTAAAGAAGTCTAAGGTTTGCATTCTG
*
31999314 AAGGTATCAACCAAGTAAAGAAGTCTAAGGTTTGCATTCT
1 AAGGTACCAACCAAGTAAAGAAGTCTAAGGTTTGCATTCT
31999354 TACTTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (41 bp):
AAGGTACCAACCAAGTAAAGAAGTCTAAGGTTTGCATTCTG
Found at i:32008975 original size:78 final size:78
Alignment explanation
Indices: 32008882--32009037 Score: 285
Period size: 78 Copynumber: 2.0 Consensus size: 78
32008872 ACTTTCCAAT
*
32008882 TTTTAGGCAAAGGGTGAGAATTGGAATAATTACGCATGTAATTACACCGGAATCTAATTTTAAAA
1 TTTTAGGCAAAGGGTGAGAATTGGAATAATTACGCATGTAATTACACCGGAATCCAATTTTAAAA
32008947 AAATATTTTTATA
66 AAATATTTTTATA
* *
32008960 TTTTAGGTAGAGGGTGAGAATTGGAATAATTACGCATGTAATTACACCGGAATCCAATTTTAAAA
1 TTTTAGGCAAAGGGTGAGAATTGGAATAATTACGCATGTAATTACACCGGAATCCAATTTTAAAA
32009025 AAATATTTTTATA
66 AAATATTTTTATA
32009038 CAAGTTATAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (78 bp):
TTTTAGGCAAAGGGTGAGAATTGGAATAATTACGCATGTAATTACACCGGAATCCAATTTTAAAA
AAATATTTTTATA
Found at i:32017442 original size:3 final size:3
Alignment explanation
Indices: 32017434--32017460 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32017424 TGATAGTTTT
32017434 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
32017461 GTGGTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32017963 original size:21 final size:20
Alignment explanation
Indices: 32017935--32017977 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
32017925 AAATAGGGTT
*
32017935 TTGATATTTTTAAA-TAAGGG
1 TTGATA-TTTCAAATTAAGGG
32017955 TTGAGTATTTCAAATTAAGGG
1 TTGA-TATTTCAAATTAAGGG
32017976 TT
1 TT
32017978 ATGGAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (20 bp):
TTGATATTTCAAATTAAGGG
Found at i:32019936 original size:2 final size:2
Alignment explanation
Indices: 32019929--32019970 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
32019919 ATTATTATTA
32019929 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32019970 A
1 A
32019971 AAAGATTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32023777 original size:62 final size:62
Alignment explanation
Indices: 32023706--32023833 Score: 220
Period size: 62 Copynumber: 2.1 Consensus size: 62
32023696 TTGCTTCTCA
**
32023706 ATTAAATGAAACAATATGTTAAAACTAATGTGTACAAAAATATTCAAATGAACTTAGATTTT
1 ATTAAATGAAACAATATGCCAAAACTAATGTGTACAAAAATATTCAAATGAACTTAGATTTT
* *
32023768 ATTAAATGAAACAATATGCCAAAACTAATGTGTACAAAAATATTCAAATGAATTTCGATTTT
1 ATTAAATGAAACAATATGCCAAAACTAATGTGTACAAAAATATTCAAATGAACTTAGATTTT
32023830 ATTA
1 ATTA
32023834 TCGACAGAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (62 bp):
ATTAAATGAAACAATATGCCAAAACTAATGTGTACAAAAATATTCAAATGAACTTAGATTTT
Found at i:32023926 original size:21 final size:22
Alignment explanation
Indices: 32023902--32023950 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
32023892 TCAAAATTTT
**
32023902 GAGAATTT-TGAGAGCTTTAGA
1 GAGAATTTGTGAGAAATTTAGA
*
32023923 GAGAAATTTGTGTGAAATTTAGA
1 GAG-AATTTGTGAGAAATTTAGA
32023946 GAGAA
1 GAGAA
32023951 AATTGAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 3 0.13
22 7 0.30
23 13 0.57
ACGTcount: A:0.39, C:0.02, G:0.29, T:0.31
Consensus pattern (22 bp):
GAGAATTTGTGAGAAATTTAGA
Found at i:32023947 original size:23 final size:23
Alignment explanation
Indices: 32023917--32023962 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
32023907 TTTTGAGAGC
* *
32023917 TTTAGAGAGAAATTTGTGTGAAA
1 TTTAGAGAGAAAATTGAGTGAAA
32023940 TTTAGAGAGAAAATTGAGTGAAA
1 TTTAGAGAGAAAATTGAGTGAAA
32023963 AAAATAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.30
Consensus pattern (23 bp):
TTTAGAGAGAAAATTGAGTGAAA
Found at i:32024194 original size:31 final size:32
Alignment explanation
Indices: 32024126--32024191 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
32024116 GTGTGCACTC
*
32024126 TTTTGGGCAAAAGCGCTTCCACGTGGGCGTCA
1 TTTTGGGCAAAAGCGCTTCCACGTGGACGTCA
*
32024158 TTTTGGGTAAAA-CGC-TCCTACGTGGACGT-A
1 TTTTGGGCAAAAGCGCTTCC-ACGTGGACGTCA
32024188 TTTT
1 TTTT
32024192 TGGTGCACAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 8 0.26
31 12 0.39
32 11 0.35
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (32 bp):
TTTTGGGCAAAAGCGCTTCCACGTGGACGTCA
Found at i:32026853 original size:18 final size:17
Alignment explanation
Indices: 32026832--32026871 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
32026822 CTCCAATAAT
32026832 CAATACAAACTATCTTCC
1 CAAT-CAAACTATCTTCC
**
32026850 CAATTGAACTATCTTCC
1 CAATCAAACTATCTTCC
32026867 CAATC
1 CAATC
32026872 TAACCATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.35, C:0.33, G:0.03, T:0.30
Consensus pattern (17 bp):
CAATCAAACTATCTTCC
Found at i:32027068 original size:17 final size:18
Alignment explanation
Indices: 32027034--32027068 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32027024 ATCTTAGTTT
*
32027034 AGGATTTTTATCATTTAA
1 AGGAGTTTTATCATTTAA
32027052 AGGAGTTTTAT-ATTTAA
1 AGGAGTTTTATCATTTAA
32027069 TTATTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (18 bp):
AGGAGTTTTATCATTTAA
Found at i:32037037 original size:41 final size:40
Alignment explanation
Indices: 32036989--32037089 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
32036979 TCGACCTCGA
** *
32036989 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
32037029 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
32037067 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
32037090 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:32043962 original size:101 final size:100
Alignment explanation
Indices: 32043706--32043994 Score: 483
Period size: 101 Copynumber: 2.9 Consensus size: 100
32043696 ATCCAACTTG
* *
32043706 CTAAGGCCTTAAGGTGGTTGGTTTTGCAATAAACATACAGTGTTCTGCACCAATGGTCCCTTTGT
1 CTAAGGCC-TAAGGTGGTCGGTTTTGCAATAAACATACAGTGTTCTGCACCAATGGTCCTTTTGT
*
32043771 TGCTAGTATTTTCTGTTTAAACCTCGGTGAATGATA
65 TGCTAGTATTTTCTGTTTAAACCTCAGTGAATGATA
*
32043807 CTAAGGCCTAAGGTGGTC-GTTTTGCAATAAACATAGAGTGTTCTGCACCAATGGTCCTTTTGTT
1 CTAAGGCCTAAGGTGGTCGGTTTTGCAATAAACATACAGTGTTCTGCACCAATGGTCCTTTTGTT
*
32043871 GCTAGTA-TTTCTGTTTAAACCTCAGTGAATGATG
66 GCTAGTATTTTCTGTTTAAACCTCAGTGAATGATA
32043905 CTATAAGGCCTAAGGTGGTCGGTTTTGCAATAAACATACAGTGTTCTGCACCAATGGTCCTTTTG
1 C--TAAGGCCTAAGGTGGTCGGTTTTGCAATAAACATACAGTGTTCTGCACCAATGGTCCTTTTG
*
32043970 TTGCCAGTATTTTCTGTTTAAACCT
64 TTGCTAGTATTTTCTGTTTAAACCT
32043995 TGGTGAATAA
Statistics
Matches: 177, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
98 26 0.15
99 51 0.29
100 26 0.15
101 59 0.33
102 15 0.08
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (100 bp):
CTAAGGCCTAAGGTGGTCGGTTTTGCAATAAACATACAGTGTTCTGCACCAATGGTCCTTTTGTT
GCTAGTATTTTCTGTTTAAACCTCAGTGAATGATA
Found at i:32050014 original size:21 final size:23
Alignment explanation
Indices: 32049977--32050031 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 23
32049967 AAATTTAAAA
32049977 TATTAAAAATATATTTTAT-AATT
1 TATTAAAAATATATTTT-TGAATT
32050000 T-TTAAAAATAT-TTTTTGAATT
1 TATTAAAAATATATTTTTGAATT
32050021 TAATTAAAAAT
1 T-ATTAAAAAT
32050032 TTAAAATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.03
21 9 0.31
22 10 0.34
23 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTAAAAATATATTTTTGAATT
Found at i:32054504 original size:11 final size:11
Alignment explanation
Indices: 32054477--32054516 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
32054467 TTATTTTTCC
32054477 ATATAATTTAT
1 ATATAATTTAT
*
32054488 AAATAATTTAT
1 ATATAATTTAT
* *
32054499 GTATAATATAT
1 ATATAATTTAT
32054510 ATATAAT
1 ATATAAT
32054517 CAAAATCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
ATATAATTTAT
Found at i:32054993 original size:4 final size:4
Alignment explanation
Indices: 32054984--32055013 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
32054974 ATTACAAAAA
32054984 TATT TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TATT TA
32055014 ATAATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:32058623 original size:57 final size:56
Alignment explanation
Indices: 32058544--32058658 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 56
32058534 GATATCCTTA
32058544 ATCTCTTTAGGAAAATTCTGTTCATCTAATATGATCTTATTTTATCTCATAGTAACT
1 ATCTCTTTAGGAAAATTCTGTTCATCTAATATGATCTTATTTTA-CTCATAGTAACT
* * *
32058601 ATCTCTTTAGGATAATTTTGTTCATCTAATATGATCTTATTTTACTCATGGTAACT
1 ATCTCTTTAGGAAAATTCTGTTCATCTAATATGATCTTATTTTACTCATAGTAACT
32058657 AT
1 AT
32058659 TACATCGTCC
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 13 0.24
57 42 0.76
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.47
Consensus pattern (56 bp):
ATCTCTTTAGGAAAATTCTGTTCATCTAATATGATCTTATTTTACTCATAGTAACT
Found at i:32059724 original size:253 final size:253
Alignment explanation
Indices: 32059276--32059782 Score: 757
Period size: 253 Copynumber: 2.0 Consensus size: 253
32059266 ATGCAATGAG
* * * * *
32059276 GGCATCACGAGAATGGGTTAGGGGAATTTCACGGATCATGGATTAAAGCTCGTGATCATTATGCA
1 GGCATCACGAGAATGGGTCAGGGGAATCTCACAGATCATGGATAAAAGCTCGTGATCATTATGAA
* * * *
32059341 TGAAACATCCTATGGAGGTCAACTGATGTTCTCTTTTATAATGATAGTCCCCAATGGCTAATTAT
66 TGAAACATCCCATGGAGGTCAACTGATGTTCTCTTTTATAATGATAATCCCCAATAGCCAATTAT
* * * *
32059406 TAAGGTAATTTGGAAGATTTCATGCTAACCGAAGATCCAACACTTCCTTTGGTTGGATTGGAAAG
131 TAAGGCAAATTAGAAGATTTCATGCCAACCGAAGATCCAACACTTCCTTTGGTTGGATTGGAAAG
* *
32059471 ATATGACTCATGACAAATACAAGTCGTATATTTTGACGTCTAACTATAGACGAGAGTT
196 ATAAGACTCATGACAAATACAAGTCGTATATTTCGACGTCTAACTATAGACGAGAGTT
* ** *
32059529 GGCATCACGAGAATGGGTCAGGGGAATCTCATAGATTGTGGATAAAAGC-CTGTGATCATTGTGA
1 GGCATCACGAGAATGGGTCAGGGGAATCTCACAGATCATGGATAAAAGCTC-GTGATCATTATGA
* *
32059593 ATGAAACATCCCATGGAGGTTAACTGATGTTC-CTTTTTATAATGATAATCCTCAATAGCCAATT
65 ATGAAACATCCCATGGAGGTCAACTGATGTTCTC-TTTTATAATGATAATCCCCAATAGCCAATT
*
32059657 GTTAAGGCAAATTAGAAGATTTCATGCCAACCGAAGATCCAACACTTCCTTTGGTTGGATTGGAA
129 ATTAAGGCAAATTAGAAGATTTCATGCCAACCGAAGATCCAACACTTCCTTTGGTTGGATTGGAA
* * *
32059722 AGATAAGGCTCATGATAAATACAAGTCGTATATTTCGACGTCTAACTATAGATGAGAGTT
194 AGATAAGACTCATGACAAATACAAGTCGTATATTTCGACGTCTAACTATAGACGAGAGTT
32059782 G
1 G
32059783 TAATATTTAT
Statistics
Matches: 227, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
252 2 0.01
253 225 0.99
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (253 bp):
GGCATCACGAGAATGGGTCAGGGGAATCTCACAGATCATGGATAAAAGCTCGTGATCATTATGAA
TGAAACATCCCATGGAGGTCAACTGATGTTCTCTTTTATAATGATAATCCCCAATAGCCAATTAT
TAAGGCAAATTAGAAGATTTCATGCCAACCGAAGATCCAACACTTCCTTTGGTTGGATTGGAAAG
ATAAGACTCATGACAAATACAAGTCGTATATTTCGACGTCTAACTATAGACGAGAGTT
Found at i:32064613 original size:2 final size:2
Alignment explanation
Indices: 32064606--32064651 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
32064596 GTGGGTTTTC
32064606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32064648 AT AT
1 AT AT
32064652 CCCACACTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32065665 original size:27 final size:28
Alignment explanation
Indices: 32065635--32065692 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
32065625 AAAAGATTGG
* *
32065635 GAATTGAGAATTTAGAA-AAAAAATCAA
1 GAATTGACAATTGAGAATAAAAAATCAA
* *
32065662 GAATTGACAATTGAGAATAACAAATCGA
1 GAATTGACAATTGAGAATAAAAAATCAA
32065690 GAA
1 GAA
32065693 CAATAAGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.21
Consensus pattern (28 bp):
GAATTGACAATTGAGAATAAAAAATCAA
Found at i:32066232 original size:23 final size:24
Alignment explanation
Indices: 32066185--32066233 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
32066175 ATCATTTTTT
*
32066185 AAATACTATTATTTTTTAATATAA
1 AAATACTATTATTTTTAAATATAA
*
32066209 AAATACTATTA-TTTTAAATTTAA
1 AAATACTATTATTTTTAAATATAA
32066232 AA
1 AA
32066234 GTATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATACTATTATTTTTAAATATAA
Done.