Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 5 of 295
Found at i:1483011 original size:16 final size:16
Alignment explanation
Indices: 1482990--1483038 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
1482980 AATGAATGTT
1482990 TTTATTTATATTATTA
1 TTTATTTATATTATTA
* *
1483006 TTTATTTATGTTTAATA
1 TTTATTTAT-ATTATTA
*
1483023 TTT-TTTATATTTTTA
1 TTTATTTATATTATTA
1483038 T
1 T
1483039 GAATTTTATC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 5 0.19
16 14 0.52
17 8 0.30
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTATTTATATTATTA
Found at i:1505482 original size:13 final size:13
Alignment explanation
Indices: 1505464--1505505 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
1505454 AAACTTCTCA
1505464 AAAACACTTTTTC
1 AAAACACTTTTTC
*
1505477 ACAACAC-TTTTC
1 AAAACACTTTTTC
1505489 AAAAGCACTTTTT-
1 AAAA-CACTTTTTC
1505502 AAAA
1 AAAA
1505506 TTATTGCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 13 0.52
14 4 0.16
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.33
Consensus pattern (13 bp):
AAAACACTTTTTC
Found at i:1510657 original size:14 final size:14
Alignment explanation
Indices: 1510640--1510673 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
1510630 AACATAAAAG
1510640 AAAAAACCAAAATT
1 AAAAAACCAAAATT
*
1510654 AAAAAGCCAAAATT
1 AAAAAACCAAAATT
1510668 AAAAAA
1 AAAAAA
1510674 TAAACCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.74, C:0.12, G:0.03, T:0.12
Consensus pattern (14 bp):
AAAAAACCAAAATT
Found at i:1515872 original size:27 final size:26
Alignment explanation
Indices: 1515822--1515893 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
1515812 ACCTAAATCC
* *
1515822 TAAATTCAAAGTTCAATATTTAGGGTT
1 TAAATTCAAAGTTCAAGATCTA-GGTT
* *
1515849 TAAATTCAATGTTCAAGGTCTAGGTT
1 TAAATTCAAAGTTCAAGATCTAGGTT
*
1515875 TAACATTCAAA-TTCGAGAT
1 TAA-ATTCAAAGTTCAAGAT
1515894 TCAAAGTAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 13 0.35
27 24 0.65
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (26 bp):
TAAATTCAAAGTTCAAGATCTAGGTT
Found at i:1519918 original size:19 final size:19
Alignment explanation
Indices: 1519894--1519933 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1519884 AAGGATGGGC
1519894 CGAGTTCCTGAGATAAGCA
1 CGAGTTCCTGAGATAAGCA
1519913 CGAGTTCCTGAGATAAGCA
1 CGAGTTCCTGAGATAAGCA
1519932 CG
1 CG
1519934 TTTATCCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.20
Consensus pattern (19 bp):
CGAGTTCCTGAGATAAGCA
Found at i:1521183 original size:24 final size:24
Alignment explanation
Indices: 1521151--1521196 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1521141 ATTGATGATG
*
1521151 TATTGATATTATATTCATCATACT
1 TATTCATATTATATTCATCATACT
1521175 TATTCATATTATATTCATCATA
1 TATTCATATTATATTCATCATA
1521197 TAGATTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTCATATTATATTCATCATACT
Found at i:1521530 original size:18 final size:18
Alignment explanation
Indices: 1521504--1521538 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1521494 GAGTGTGATC
1521504 GGAAGATATGTTGTCCTT
1 GGAAGATATGTTGTCCTT
* *
1521522 GGAATATATGTTTTCCT
1 GGAAGATATGTTGTCCT
1521539 ATCAACGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (18 bp):
GGAAGATATGTTGTCCTT
Found at i:1523316 original size:18 final size:20
Alignment explanation
Indices: 1523293--1523330 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1523283 CGGTTTGTGT
1523293 GAAGCT-TCG-CTTTTTGAA
1 GAAGCTATCGACTTTTTGAA
*
1523311 GAAGCTATGGACTTTTTGAA
1 GAAGCTATCGACTTTTTGAA
1523331 TAGAATGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (20 bp):
GAAGCTATCGACTTTTTGAA
Found at i:1531273 original size:18 final size:18
Alignment explanation
Indices: 1531241--1531279 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1531231 AAATAAAATA
*
1531241 TTTTTAATATTTTAATTAT
1 TTTTTAATATATTAATT-T
1531260 TTTTTAA-ATATTAATTT
1 TTTTTAATATATTAATTT
1531277 TTT
1 TTT
1531280 GGGGAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 8 0.42
19 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTAATATATTAATTT
Found at i:1533330 original size:21 final size:21
Alignment explanation
Indices: 1533284--1533330 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
1533274 TCGGAATTGG
1533284 GGTTTAATTTTTTTGGGTTGT
1 GGTTTAATTTTTTTGGGTTGT
* * *
1533305 TGTTTGATTTTTGTTTGGTT-T
1 GGTTTAATTTTT-TTGGGTTGT
1533326 GGTTT
1 GGTTT
1533331 TTGATCTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.06, C:0.00, G:0.28, T:0.66
Consensus pattern (21 bp):
GGTTTAATTTTTTTGGGTTGT
Found at i:1533333 original size:23 final size:22
Alignment explanation
Indices: 1533291--1533335 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1533281 TGGGGTTTAA
1533291 TTTTTTTGGGTTGTTGTTTGAT
1 TTTTTTTGGGTTGTTGTTTGAT
*
1533313 TTTTGTTTGGTTTGGTT-TTTGAT
1 TTTT-TTTGGGTT-GTTGTTTGAT
1533336 CTTTAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 13 0.65
24 3 0.15
ACGTcount: A:0.04, C:0.00, G:0.27, T:0.69
Consensus pattern (22 bp):
TTTTTTTGGGTTGTTGTTTGAT
Found at i:1542841 original size:138 final size:136
Alignment explanation
Indices: 1542682--1543103 Score: 578
Period size: 138 Copynumber: 3.1 Consensus size: 136
1542672 GAGAACATAT
1542682 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
*
1542747 AATATAAACAACTATATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAATATTATTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAATATT-TTT
1542812 TAAAAATA
130 TAAAAA-A
* * *
1542820 ATATAATTAATATATAAATTTGATCCATACAAAATATTAATTGTATATATTTTATTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
* * ** ** * **
1542885 AATATAAATC-GTTATATTAATTAATATCACTCAAAGCATAAAAGATATGAAAAATAATATTCGT
66 AATATAAA-CAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAATATTTTT
1542949 TACGAAAAA
130 TA--AAAAA
* *
1542958 ATATAATTAATATATGAATTTGATTCATGCAAAATGTTAATTGTATATATTTTA-CTGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATC-GAATTTAT
* * * *
1543022 TAATATAAACAATTATATTAATTAATTTCGGTAAAAATATAAAATACATGAAAATTAATGTTCTT
65 TAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAATATT-TT
*
1543087 TTGAAAAGA
129 TT-AAAAAA
1543096 ATATAATT
1 ATATAATT
1543104 CTTCTTTTTT
Statistics
Matches: 245, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
137 4 0.02
138 233 0.95
139 7 0.03
140 1 0.00
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.41
Consensus pattern (136 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAATATTTTTT
AAAAAA
Found at i:1551260 original size:6 final size:6
Alignment explanation
Indices: 1551244--1551278 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
1551234 TTTTGATGTA
*
1551244 TATATC GATATC TATATC TATATC TATATC TATAT
1 TATATC TATATC TATATC TATATC TATATC TATAT
1551279 AATATATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.49
Consensus pattern (6 bp):
TATATC
Found at i:1555221 original size:20 final size:19
Alignment explanation
Indices: 1555184--1555243 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
1555174 ACAATAAAAG
* *
1555184 AAAAAAGAGTTAGCGACGA
1 AAAAAAGATTTAGTGACGA
*
1555203 AACAAAAGATTTGGTGACGGA
1 AA-AAAAGATTTAGTGAC-GA
* *
1555224 GAAAATGATTTAGTGACGA
1 AAAAAAGATTTAGTGACGA
1555243 A
1 A
1555244 TGATATTACC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 4 0.12
20 25 0.78
21 3 0.09
ACGTcount: A:0.47, C:0.08, G:0.27, T:0.18
Consensus pattern (19 bp):
AAAAAAGATTTAGTGACGA
Found at i:1556935 original size:43 final size:43
Alignment explanation
Indices: 1556880--1557019 Score: 183
Period size: 43 Copynumber: 3.3 Consensus size: 43
1556870 TTTTAAAAAA
* * *
1556880 AAACGCCACTAAAGACCAGGACCTTTAGCGGCATTTTTCTTGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCATTTTTCTCGC
* *
1556923 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGTTTTTCCCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCATTTTTCTCGC
* * * *
1556966 AAACGCCGCTAAAGACCATGACTTTTAGTGACACTTTTT-TCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCA-TTTTTCTCGC
1557009 AAACGCCGCTA
1 AAACGCCGCTA
1557020 TAAAACAGAC
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 80 0.94
44 5 0.06
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCATTTTTCTCGC
Found at i:1563046 original size:14 final size:14
Alignment explanation
Indices: 1563002--1563040 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1562992 TCATAAACCT
*
1563002 TAAACCCTTAATCA
1 TAAACCCTAAATCA
*
1563016 TATACCCTAAATCA
1 TAAACCCTAAATCA
1563030 TAAACCCTAAA
1 TAAACCCTAAA
1563041 CTATAATGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:1563258 original size:246 final size:247
Alignment explanation
Indices: 1562793--1563363 Score: 739
Period size: 246 Copynumber: 2.3 Consensus size: 247
1562783 TTAAATAATT
* * * * * *
1562793 TAAACTATAATCATAATT--TT-AAGATATTAAAATTAAAATTATCTCTTTTACAATCATATAAT
1 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATATTATCTCTTTTACAATTATATAAG
* * *
1562855 AAATTATTTAAT-ATATAAATTAAAAACACTAATTAATCTAAACCCTTAATCCCTAAACTCTAAA
66 AAAATATTT-ATCATATAAATTAAAAACACTAATTAATCTAAACCCTAAATCCCTAAACTATAAA
* * * *
1562919 CTCTAAAATCTTAAAATATAAACCATTAATCCTGAACCCTTAAACCATAATACATAAACCTTAAA
130 CTCTAAAATCCTAAAACATAAACCATTAATCATGAACCCTTAAACCATAATACATAAAACTTAAA
*
1562984 ATAGTAACTCATAAACCTTAAACCCTTAATCATATACCCTAAATCATAAACCC
195 ATAGTAACTCATAAACCTTAAACCCTTAACCATATACCCTAAATCATAAACCC
* * *
1563037 TAAACTATAATGATTAATTGATTCAATATTTTTAAATTAATATTATCTTTTTTACAATTATATAA
1 TAAACTATAATGA-TAATTAATTCAATATTTTAAAATTAATATTATCTCTTTTACAATTATATAA
* *
1563102 GAAAATATTTATCATATAAATTAAAAACATTAATTAAT-TAAACCCTAAAT-CCTAAAGTATAAA
65 GAAAATATTTATCATATAAATTAAAAACACTAATTAATCTAAACCCTAAATCCCTAAACTATAAA
* ** * * * *
1563165 CTCT-TAATCCTAGACCCCT-AACCCTTAAATCAT-AATCCC-TAAGCCCATAATCCATAAAACT
130 CTCTAAAATCCTA-AAACATAAACCATT-AATCATGAA-CCCTTAA-ACCATAATACATAAAACT
* * *
1563226 TAAAATAGTAACTCGTAAACCTTAAACCCTTAACCATATGCCCTAAATCATAAACCT
191 TAAAATAGTAACTCATAAACCTTAAACCCTTAACCATATACCCTAAATCATAAACCC
*
1563283 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAG
1 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATATTATCTCTTTTACAATTATATAAG
*
1563348 AAAATATTTAACATAT
66 AAAATATTTATCATAT
1563364 GATGTACATC
Statistics
Matches: 285, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
244 12 0.04
245 85 0.30
246 106 0.37
247 15 0.05
248 67 0.24
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (247 bp):
TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATATTATCTCTTTTACAATTATATAAG
AAAATATTTATCATATAAATTAAAAACACTAATTAATCTAAACCCTAAATCCCTAAACTATAAAC
TCTAAAATCCTAAAACATAAACCATTAATCATGAACCCTTAAACCATAATACATAAAACTTAAAA
TAGTAACTCATAAACCTTAAACCCTTAACCATATACCCTAAATCATAAACCC
Found at i:1566397 original size:64 final size:64
Alignment explanation
Indices: 1566324--1566448 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
1566314 GAGTAAATTC
*
1566324 ATATAAAAATTGGATCATTAGGTATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAAT
1 ATATAAAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAAT
* *
1566388 ATATTAAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAATAAATATTC
1 ATATAAAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTC
1566449 TTTGTTATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (64 bp):
ATATAAAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAAT
Found at i:1568300 original size:29 final size:28
Alignment explanation
Indices: 1568267--1568353 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
1568257 TCATAAGAAC
1568267 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
1568296 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
1568320 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
1568350 ATTT
1 ATTT
1568354 CAAATCTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:1568520 original size:67 final size:66
Alignment explanation
Indices: 1568445--1568657 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
1568435 ATTATAATGT
1568445 ATTT-AATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATATGATTAAA-TATTTATTATTGATATTAATAATCTTATTA
1568509 AA
65 AA
* * ** * * * * * * *
1568511 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAAT-ATGATTA-AATATTTATTATTGATATTAATA-ATCTT
1568571 AATTAAAA
61 -ATT-AAA
* * *
1568579 TATATTTAATAATAATTATGTTTAAATATGATTAAGATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATATGATTAA-ATATTTATTATTGATATTAATAATCTTAT
1568644 TAAA
63 TAAA
1568648 ATTTAAATAA
1 ATTTAAATAA
1568658 CATTAACAAT
Statistics
Matches: 105, Mismatches: 26, Indels: 31
0.65 0.16 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.11
67 24 0.23
68 18 0.17
69 20 0.19
70 18 0.17
71 7 0.07
72 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATATGATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:1568548 original size:137 final size:138
Alignment explanation
Indices: 1568401--1568666 Score: 428
Period size: 137 Copynumber: 1.9 Consensus size: 138
1568391 TAAGAATATG
* *
1568401 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* *
1568466 AATATGATTAA-ATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AATATGATTAAGA-TATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
1568530 ATTTCTGCT
130 ATTTCTGCT
****
1568539 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
*
1568603 AATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAA
66 AATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
1568667 TAATCATTTA
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
137 112 0.95
138 6 0.05
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:1568577 original size:18 final size:17
Alignment explanation
Indices: 1568549--1568583 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1568539 AATTATAAGA
*
1568549 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
1568566 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
1568584 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:1568699 original size:137 final size:136
Alignment explanation
Indices: 1568411--1568847 Score: 434
Period size: 156 Copynumber: 3.1 Consensus size: 136
1568401 AATTATTAAG
**** * *
1568411 AATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
* * *
1568476 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAATTTCTGCTAA
66 AATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAATATCT-CTAA
** * *
1568541 TTATAAG
130 CCAAAAC
1568548 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
*
1568613 AGA-TATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAAC-AATAATCAT-T
66 A-ATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAAT-ATC-TCT
*
1568675 TACCAAAAC
128 AACCAAAAC
* *
1568684 AATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATA
1 AA--TT-T--T-A-T-T-A-AA--TTA-T--A-TAT-T-TTA--ATTAAAATATATTTAATAATA
*
1568749 ATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAA
46 ATTATGTTTAAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAA
*
1568814 CAATAAC-AATAATCAT-TTACCAAAAC
111 CAATAACAAAT-ATC-TCTAACCAAAAC
1568840 AATTTTAT
1 AATTTTAT
1568848 GCTAAGGGTA
Statistics
Matches: 258, Mismatches: 18, Indels: 36
0.83 0.06 0.12
Matches are distributed among these distances:
136 10 0.04
137 108 0.42
138 4 0.02
139 1 0.00
141 1 0.00
142 1 0.00
143 1 0.00
144 1 0.00
145 1 0.00
146 2 0.01
148 3 0.01
149 2 0.01
150 1 0.00
151 2 0.01
152 3 0.01
153 2 0.01
154 4 0.02
155 1 0.00
156 110 0.43
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (136 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
AATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAATATCTCTAAC
CAAAAC
Found at i:1568704 original size:156 final size:156
Alignment explanation
Indices: 1568525--1568852 Score: 611
Period size: 156 Copynumber: 2.1 Consensus size: 156
1568515 AAATAACAAT
*
1568525 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
*
1568590 ATAATTATGTTTAAATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
1568655 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
1568681 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1568746 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
1568811 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
1568837 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
1568853 GGGTATTCTA
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 167 1.00
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:1568733 original size:18 final size:18
Alignment explanation
Indices: 1568705--1568753 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
1568695 AATTATAAGA
1568705 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
1568722 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
1568738 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
1568754 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:1568739 original size:16 final size:16
Alignment explanation
Indices: 1568705--1568759 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
1568695 AATTATAAGA
1568705 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
1568722 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
1568738 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
1568752 ATGTTTAA
1 AT-TTTAA
1568760 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:1568969 original size:44 final size:45
Alignment explanation
Indices: 1568904--1568994 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
1568894 ACCTCTATTC
* * *
1568904 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
1568948 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
1568993 CA
1 CA
1568995 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:1568996 original size:16 final size:16
Alignment explanation
Indices: 1568975--1569043 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
1568965 GATTAGCTAT
1568975 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1568991 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
1569008 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1569024 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1569040 TACA
1 TACA
1569044 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:1569017 original size:33 final size:32
Alignment explanation
Indices: 1568975--1569043 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
1568965 GATTAGCTAT
1568975 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
1569008 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
1569040 TACA
1 TACA
1569044 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:1569250 original size:40 final size:41
Alignment explanation
Indices: 1569115--1569272 Score: 246
Period size: 41 Copynumber: 3.9 Consensus size: 41
1569105 GGGTTTAGAC
* *
1569115 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTAGT
* *
1569156 TTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTAGT
*
1569197 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTAGT
* *
1569237 TTTTAGCGGCGTTTTAACAAAAACGCCGCTATTGCT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCT
1569273 ATTTGTTTTG
Statistics
Matches: 111, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 37 0.33
41 74 0.67
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTAGT
Found at i:1573604 original size:20 final size:21
Alignment explanation
Indices: 1573566--1573604 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1573556 TTAAATTTTT
**
1573566 AATTTTTTTAGAATTAATTAG
1 AATTTTTTTAGAAAAAATTAG
1573587 AATTTTTTTA-AAAAAATT
1 AATTTTTTTAGAAAAAATT
1573605 TGGGGGCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
AATTTTTTTAGAAAAAATTAG
Found at i:1575166 original size:18 final size:17
Alignment explanation
Indices: 1575133--1575171 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
1575123 TTGTATAAAT
1575133 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
1575151 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
1575168 TGTG
1 TGTG
1575172 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:1575424 original size:23 final size:23
Alignment explanation
Indices: 1575397--1575494 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
1575387 AGTGTTATTG
1575397 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
1575420 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
1575443 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
1575465 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
1575488 ATCAGTG
1 ATCAGTG
1575495 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:1575463 original size:45 final size:45
Alignment explanation
Indices: 1575399--1575487 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
1575389 TGTTATTGAT
* *
1575399 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
1575444 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1575488 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:1577084 original size:46 final size:47
Alignment explanation
Indices: 1577016--1577112 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 47
1577006 TCCAAAATGA
* * *
1577016 ATTGTTTATAAACTAAATTTAAACTAACTAATCTAGCTTTCTTCCTT
1 ATTGTTTATAAACTAAAATTAAACTAACTAATCCAACTTTCTTCCTT
1577063 ATTG-TTATAAACTAAAATTAAACTAACTAATCCAACTTTCTTCCTT
1 ATTGTTTATAAACTAAAATTAAACTAACTAATCCAACTTTCTTCCTT
1577109 ATTG
1 ATTG
1577113 CTTTGGACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 43 0.91
47 4 0.09
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (47 bp):
ATTGTTTATAAACTAAAATTAAACTAACTAATCCAACTTTCTTCCTT
Found at i:1577701 original size:25 final size:26
Alignment explanation
Indices: 1577673--1577727 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
1577663 TAACAAAAAT
* *
1577673 AAAATTTAACCT-AAAAGGAAAAGAG
1 AAAATCTAACCTAAAAAGGAAAAGAA
* *
1577698 AAAATCTAATCTAAAAATGAAAAGAA
1 AAAATCTAACCTAAAAAGGAAAAGAA
1577724 AAAA
1 AAAA
1577728 AAAAGAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.65, C:0.07, G:0.11, T:0.16
Consensus pattern (26 bp):
AAAATCTAACCTAAAAAGGAAAAGAA
Found at i:1578781 original size:30 final size:31
Alignment explanation
Indices: 1578738--1578803 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
1578728 AACAATCCAA
*
1578738 TGACTTAAATGAAAACTTCT-GAATAGTTCAG
1 TGACTTAAATGAAAACTT-TAAAATAGTTCAG
*
1578769 TGACTT-AATGAAAACTTTAAAATAGTTTAG
1 TGACTTAAATGAAAACTTTAAAATAGTTCAG
1578799 TGACT
1 TGACT
1578804 ATTTTGTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 1 0.03
30 25 0.78
31 6 0.19
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTAAAATAGTTCAG
Found at i:1592163 original size:3 final size:3
Alignment explanation
Indices: 1592157--1592362 Score: 68
Period size: 3 Copynumber: 68.3 Consensus size: 3
1592147 AAAATACAAC
* * *
1592157 AAT AAT AAT AGT AA- AAG ATAT AAT AACCT AAT AAT -AT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AA--T AAT AAT AAT AAT AAT AAT
* * * * * * * *
1592203 AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * *
1592247 AGT AAT AAT AAT AAT AAT AAT AAT AAT -TT ATT AAGT TAT AAT GAA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT
* * * * *
1592292 AAT AAT GAT AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * *
1592336 AAGT AAC AAT GAT AAAT TAT AAT AAT A
1 AA-T AAT AAT AAT -AAT AAT AAT AAT A
1592363 GTGATGAGGA
Statistics
Matches: 149, Mismatches: 37, Indels: 34
0.68 0.17 0.15
Matches are distributed among these distances:
2 15 0.10
3 116 0.78
4 15 0.10
5 3 0.02
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1592163 original size:22 final size:22
Alignment explanation
Indices: 1592112--1592172 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
1592102 ATAAGTAAAT
* *
1592112 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
1592133 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
1592155 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
1592173 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:1592272 original size:39 final size:38
Alignment explanation
Indices: 1592218--1592364 Score: 120
Period size: 39 Copynumber: 3.8 Consensus size: 38
1592208 CAATATGACG
* *
1592218 ATAATAGTAAAAATAATATATTAAATAATAGTAATAATA
1 ATAATAATAATAATAATATATTAAATAATAGTAATAA-A
* *
1592257 ATAATAATAATAATAATTTATTAAGT--TA-TAATGAAA
1 ATAATAATAATAATAATATATTAAATAATAGTAAT-AAA
* * * * * *
1592293 ATAATGATAATGATGATATATTAGATAATAATAGTAAA
1 ATAATAATAATAATAATATATTAAATAATAGTAATAAA
* * *
1592331 ATAATAAGTAACAATGATAAATTATAATAATAGT
1 ATAATAA-TAATAATAATATATTA-AATAATAGT
1592365 GATGAGGATA
Statistics
Matches: 85, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
36 25 0.29
37 4 0.05
38 11 0.13
39 38 0.45
40 7 0.08
ACGTcount: A:0.56, C:0.01, G:0.08, T:0.35
Consensus pattern (38 bp):
ATAATAATAATAATAATATATTAAATAATAGTAATAAA
Found at i:1592519 original size:16 final size:15
Alignment explanation
Indices: 1592490--1592532 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
1592480 TATACGTATG
*
1592490 AAAAATAATGATAGT
1 AAAAATAATAATAGT
1592505 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
1592521 AATAATAATAAT
1 AAAAATAATAAT
1592533 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:1593148 original size:28 final size:28
Alignment explanation
Indices: 1593108--1593181 Score: 116
Period size: 27 Copynumber: 2.7 Consensus size: 28
1593098 GATTTTTTGT
1593108 TCTTGAATCTCAAAAAAAGAAAAATC-CC
1 TCTTGAATCTCAAAAAAA-AAAAATCTCC
*
1593136 TCTTGAATCTC-AAAAAAAAAAATCTCT
1 TCTTGAATCTCAAAAAAAAAAAATCTCC
1593163 TCTTGAATCTCAAAAAAAA
1 TCTTGAATCTCAAAAAAAA
1593182 TCTCCTCTCC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 7 0.16
27 18 0.42
28 18 0.42
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (28 bp):
TCTTGAATCTCAAAAAAAAAAAATCTCC
Found at i:1597731 original size:29 final size:29
Alignment explanation
Indices: 1597698--1597761 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
1597688 CCAAATTAAA
1597698 CACCCCACTAAACCGA-CCACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
1597727 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
1597756 CACCCC
1 CACCCC
1597762 CACACCCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.31, C:0.52, G:0.02, T:0.16
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:1597774 original size:37 final size:37
Alignment explanation
Indices: 1597727--1597801 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
1597717 CTAACTCCAT
*
1597727 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACCACCTCCATCACCCCCA
** * *
1597764 CACCCTACTAAACTGTCTACCACCTCCATCATCCCCA
1 CACCCTACTAAACCATCCACCACCTCCATCACCCCCA
1597801 C
1 C
1597802 TACCTCCATC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.52, G:0.01, T:0.19
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACCACCTCCATCACCCCCA
Found at i:1597901 original size:11 final size:11
Alignment explanation
Indices: 1597885--1597923 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
1597875 GAGATTTTGG
1597885 AGAGGATTTTT
1 AGAGGATTTTT
1597896 AGAGGATTTTT
1 AGAGGATTTTT
*
1597907 GGAGGAATTTTTT
1 AGAGG-A-TTTTT
1597920 AGAG
1 AGAG
1597924 AATACACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.62
12 1 0.04
13 8 0.33
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (11 bp):
AGAGGATTTTT
Found at i:1598248 original size:62 final size:62
Alignment explanation
Indices: 1598127--1598248 Score: 142
Period size: 61 Copynumber: 2.0 Consensus size: 62
1598117 CCCTTTTTTA
* * *
1598127 TTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTTATTATTTCTATATTTGT
1 TTTTGTTATTTTACTATTAAATTAATTAATTTGAGCTTTATTCATATTATTTATATATTTGT
* * *
1598189 TTTTTTTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCATATTA-TTATATTATTT
1 TTTTGTTATTTTACTATTAAATTAATTAATTTGAGCTT-T-ATTCATATTATTTATA-TATTT
1598249 ATTTATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
60 2 0.04
61 25 0.49
62 24 0.47
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.63
Consensus pattern (62 bp):
TTTTGTTATTTTACTATTAAATTAATTAATTTGAGCTTTATTCATATTATTTATATATTTGT
Found at i:1598257 original size:19 final size:18
Alignment explanation
Indices: 1598233--1598269 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
1598223 TTATGTTTCA
1598233 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
1598252 TATTATTATATATTTATT
1 TATTATTATATATTTATT
1598270 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:1598271 original size:21 final size:21
Alignment explanation
Indices: 1598233--1598288 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
1598223 TTATGTTTCA
1598233 TATTATTATATTATTTA-T-T-
1 TATTATTATA-TATTTATTATG
1598252 TATTATTATATATTTATTATG
1 TATTATTATATATTTATTATG
*
1598273 TA-AATATATATATTTA
1 TATTAT-TATATATTTA
1598289 AGCAGTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.19
19 11 0.34
20 3 0.09
21 12 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTATTATATATTTATTATG
Found at i:1598281 original size:17 final size:14
Alignment explanation
Indices: 1598241--1598271 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1598231 CATATTATTA
*
1598241 TATTATTTATTTAT
1 TATTATATATTTAT
1598255 TATTATATATTTAT
1 TATTATATATTTAT
1598269 TAT
1 TAT
1598272 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:1598964 original size:127 final size:127
Alignment explanation
Indices: 1598738--1598970 Score: 430
Period size: 127 Copynumber: 1.8 Consensus size: 127
1598728 CTCAAAATTT
* *
1598738 TTCAAAATAAAGGTAATGTTCGGTATTTAAAGAATTCGAAGAATCGTTCCCTAACGTACTGGGTT
1 TTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTT
1598803 TCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTTAAAAAAAA
66 TCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTTAAAAAAAA
*
1598865 TTCAAAATAAGGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTT
1 TTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTT
*
1598930 TCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
66 TCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
1598971 AGGCTAAAAC
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 102 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (127 bp):
TTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTT
TCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTTAAAAAAAA
Found at i:1603458 original size:19 final size:19
Alignment explanation
Indices: 1603410--1603451 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1603400 AACCAGGACT
1603410 AACATAAATTTCAAATTAA
1 AACATAAATTTCAAATTAA
1603429 AACATAAATTTCAAATTAA
1 AACATAAATTTCAAATTAA
1603448 AACA
1 AACA
1603452 CTAATTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.29
Consensus pattern (19 bp):
AACATAAATTTCAAATTAA
Found at i:1604772 original size:56 final size:58
Alignment explanation
Indices: 1604701--1604810 Score: 161
Period size: 56 Copynumber: 1.9 Consensus size: 58
1604691 CATGCACATG
*
1604701 ATCAAACTAGGAATCACTTTAATTTAGTGGCAATTA-GTTTATA-TATATTATCTTAT
1 ATCAAACTAGCAATCACTTTAATTTAGTGGCAATTACGTTTATATTATATTATCTTAT
* * *
1604757 ATCAAACTAGCAATCACTTTCATTTAGTTGCAATTACCTTTTATATTATATTAT
1 ATCAAACTAGCAATCACTTTAATTTAGTGGCAATTA-CGTTTATATTATATTAT
1604811 AAGTGTTTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
56 33 0.70
58 6 0.13
59 8 0.17
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (58 bp):
ATCAAACTAGCAATCACTTTAATTTAGTGGCAATTACGTTTATATTATATTATCTTAT
Found at i:1607247 original size:60 final size:58
Alignment explanation
Indices: 1607166--1607306 Score: 176
Period size: 59 Copynumber: 2.4 Consensus size: 58
1607156 ATGTAATAAA
* *
1607166 TTTAGGTACCAAATTAGAAAAAAAATGTCAAGTTCATG-TACCCAATTTGTCTCAAAAAAT
1 TTTAGGTACCAAATTA-AAAAAAAATGTCAAGTTCA-GATACCAAATTTGGC-CAAAAAAT
*
1607226 TTTAGGTACCATATTAAAAAAAAATGTCAAGTTCAGATACCAAATTTGGCCAAAAAAT
1 TTTAGGTACCAAATTAAAAAAAAATGTCAAGTTCAGATACCAAATTTGGCCAAAAAAT
* ** *
1607284 GTCTAAATACCCAATTAAAAAAA
1 -TTTAGGTACCAAATTAAAAAAA
1607307 TATCAAATTC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
58 9 0.13
59 47 0.66
60 15 0.21
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.28
Consensus pattern (58 bp):
TTTAGGTACCAAATTAAAAAAAAATGTCAAGTTCAGATACCAAATTTGGCCAAAAAAT
Found at i:1607255 original size:59 final size:59
Alignment explanation
Indices: 1607166--1607283 Score: 177
Period size: 59 Copynumber: 2.0 Consensus size: 59
1607156 ATGTAATAAA
* *
1607166 TTTAGGTACCAAATTAGAAAAAAAATGTCAAGTTCATG-TACCCAATTTGTCTCAAAAAAT
1 TTTAGGTACCAAATTAGAAAAAAAATGTCAAGTTCA-GATACCAAATTTGGC-CAAAAAAT
*
1607226 TTTAGGTACCATATTA-AAAAAAAATGTCAAGTTCAGATACCAAATTTGGCCAAAAAAT
1 TTTAGGTACCAAATTAGAAAAAAAATGTCAAGTTCAGATACCAAATTTGGCCAAAAAAT
1607284 GTCTAAATAC
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
58 9 0.17
59 30 0.56
60 15 0.28
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (59 bp):
TTTAGGTACCAAATTAGAAAAAAAATGTCAAGTTCAGATACCAAATTTGGCCAAAAAAT
Found at i:1608865 original size:25 final size:25
Alignment explanation
Indices: 1608788--1608854 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
1608778 AAGCCCTCCC
*
1608788 AAAA-AAAAAACCTAACCAAAAAAA
1 AAAAGAAAAAACCTAACCCAAAAAA
1608812 AAAAGAAAAAACCTAACCCAAAAAA
1 AAAAGAAAAAACCTAACCCAAAAAA
1608837 AAAAG-AAAAACCTAACCC
1 AAAAGAAAAAACCTAACCC
1608855 CCCTAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
24 17 0.41
25 24 0.59
ACGTcount: A:0.72, C:0.21, G:0.03, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAAACCTAACCCAAAAAA
Found at i:1611376 original size:12 final size:12
Alignment explanation
Indices: 1611359--1611394 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1611349 ATTCATTTGA
1611359 CATTCATGCATT
1 CATTCATGCATT
1611371 CATTCATGCATT
1 CATTCATGCATT
*
1611383 CATTCATACATT
1 CATTCATGCATT
1611395 GCATATCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:1619988 original size:72 final size:71
Alignment explanation
Indices: 1619867--1620061 Score: 230
Period size: 72 Copynumber: 2.7 Consensus size: 71
1619857 GAGTTAAGCC
* * * * * *
1619867 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCATGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCACAGGACACGA
1619931 TGAGGTA
65 TGAGGTA
**
1619938 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCAAGAGGTGAGTTGAGCCACAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCACAGGACACGA
1620003 TGAGGTA
65 TGAGGTA
* * * * *
1620010 ATCTCAATTTTTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCAAGAGGTGAGTTGA
1620062 ACCTTTTAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
71 6 0.06
72 69 0.66
73 30 0.29
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCACAGGACACGAT
GAGGTA
Found at i:1620244 original size:88 final size:88
Alignment explanation
Indices: 1620086--1620421 Score: 458
Period size: 88 Copynumber: 3.8 Consensus size: 88
1620076 ACTTTTTCAA
* * *
1620086 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCAATGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
*
1620151 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* *
1620174 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1620239 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* *
1620262 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCT
* * ** *
1620327 GTTTTTCAAT-TTCTGTCTTTCAAAAAAAA
64 G-TTTTCATTATTATGT-TTT---TGAAAG
* * *
1620356 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1620421 T
66 T
1620422 GTCAAAAAAA
Statistics
Matches: 223, Mismatches: 18, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
88 120 0.54
90 29 0.13
91 12 0.05
92 23 0.10
94 39 0.17
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:1620334 original size:14 final size:14
Alignment explanation
Indices: 1620315--1620349 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
1620305 CGCCGAGGTA
1620315 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
1620329 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
1620343 CTTTCAA
1 TTTTCAA
1620350 AAAAAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:1620458 original size:74 final size:75
Alignment explanation
Indices: 1620351--1620493 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 75
1620341 GTCTTTCAAA
** *
1620351 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
1620415 TTCTGTTGTC
66 TTCTGTTGTC
* * *
1620425 AAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
1620490 TTTC
65 TTTC
1620494 CGTTTTTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 39 0.64
76 22 0.36
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:1620461 original size:168 final size:164
Alignment explanation
Indices: 1620262--1620592 Score: 511
Period size: 168 Copynumber: 2.0 Consensus size: 164
1620252 TTTTTGAAAG
* *
1620262 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* *
1620327 GTTTTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 GTTTTTCAATTTCTG-CCTT---AAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCA
*
1620392 GGACACGCTGAGGTAATTTCAATT-TCTGTTGTCAAAAA
127 AGACACGCTGAGGTAATTTCAATTGT-TGTTGTCAAAAA
*
1620430 AATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
1620495 GTTTTTCAATTTCTGCCTTAAAAAAAATCAACTCATATTGCGATAGATGAGTTGAGCCTCAAGAC
66 GTTTTTCAATTTCTGCCTTAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGAC
* * * *
1620560 ACGTTGAGGTATTTTTAATTGTTGTTTTCAAAA
131 ACGCTGAGGTAATTTCAATTGTTGTTGTCAAAA
1620593 TCAACTCATA
Statistics
Matches: 151, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
164 70 0.46
165 1 0.01
167 3 0.02
168 77 0.51
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (164 bp):
AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCCTTAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGAC
ACGCTGAGGTAATTTCAATTGTTGTTGTCAAAAA
Found at i:1620875 original size:73 final size:72
Alignment explanation
Indices: 1620695--1620875 Score: 229
Period size: 72 Copynumber: 2.5 Consensus size: 72
1620685 AATTTTTATT
* * * * * * *
1620695 TTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGTGGTATTTTCAAT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAAT
*
1620760 TTTTGTG
66 TTCTGTG
* **
1620767 TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAAT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAAT
1620832 TTCTGT-
66 TTCTGTG
*
1620838 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
1620876 ACCTTTTAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
71 2 0.02
72 63 0.68
73 27 0.29
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (72 bp):
TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAAT
TTCTGTG
Found at i:1621049 original size:88 final size:88
Alignment explanation
Indices: 1620900--1621233 Score: 472
Period size: 88 Copynumber: 3.8 Consensus size: 88
1620890 ACTTTTTCAA
*
1620900 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
*
1620965 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
*
1620988 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1621053 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* * * * *
1621076 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCAAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCT
* * ** *
1621141 GTTTTTCAAT-TTCTGTCTTTCAAAAAA
64 G-TTTTCATTATTATGT-TTT-TGAAAG
* * *
1621168 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1621233 T
66 T
1621234 GTCAAAAAAA
Statistics
Matches: 221, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
88 123 0.56
89 2 0.01
90 47 0.21
91 10 0.05
92 39 0.18
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:1621148 original size:14 final size:14
Alignment explanation
Indices: 1621129--1621163 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1621119 CGTCAAGGTA
1621129 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
1621143 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
1621157 CTTTCAA
1 TTTTCAA
1621164 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:1621375 original size:90 final size:88
Alignment explanation
Indices: 1621220--1621393 Score: 235
Period size: 90 Copynumber: 2.0 Consensus size: 88
1621210 GCTGAGGTAA
* *
1621220 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--ACA
*
1621285 CGCCGAGGT-ATTTCAATTTCCGTT
64 CACCGAGGTAATTTCAATTTCCGTT
** *
1621309 TTTCAATTTCTGCCTT-TCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
*
1621373 CACTGAGGTAATTTCAATTTC
64 CACCGAGGTAATTTCAATTTC
1621394 TGTTGTCAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 10 0.13
89 23 0.31
90 40 0.53
91 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (88 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACA
CCGAGGTAATTTCAATTTCCGTT
Found at i:1621381 original size:164 final size:164
Alignment explanation
Indices: 1621076--1621622 Score: 742
Period size: 164 Copynumber: 3.4 Consensus size: 164
1621066 TTTTTGAAAG
* *
1621076 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCAAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1621141 GTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 GTTTTTCAATTTCTG-CTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1621206 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
129 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
*
1621242 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTA-TTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
**
1621306 GTTTTTCAATTTCTGCCTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 GTTTTTCAATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
1621371 CACACTGAGGTAATTTCAATTTCTGTTGTCAAAAA
130 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *
1621406 AATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* * * ** **
1621471 ATTTTTCAA----------AAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAAAC
66 GTTTTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * *
1621526 ATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAA
131 ACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAA
* * * * * *
1621561 AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGG--ACACGCTGGGGTAATTTCAATTTC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTC
1621623 TGTTGTCAAA
Statistics
Matches: 348, Mismatches: 31, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
153 21 0.06
154 59 0.17
155 42 0.12
164 127 0.36
165 49 0.14
166 50 0.14
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (164 bp):
AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:1621396 original size:559 final size:543
Alignment explanation
Indices: 1620778--1621836 Score: 1241
Period size: 559 Copynumber: 1.9 Consensus size: 543
1620768 TTTAATTTCA
1620778 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTTCTGTTTGTC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTTCTG-TTGTC
* *
1620843 -AAGAATCAACTCATATTGCGA-GAGGTG-G-GTT-G-A-A-CC-TTTT-AATTTCTACTTTTTC
65 AAAAAATCAACTCATATTGCGAGGAGGTGAGCCTTAGCACACCCGTTTTCAATTTCTA-TTTTTC
* ** ***
1620898 -AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
129 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAAACACGCCGAGGTATTTTCAATTTC
*
1620962 TGTCTTCATT-ATTATGTTTTTGAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
194 TGT-TT--TTCA--A--------AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * *
1621026 TCACGCCGAGGTATTTTCAATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCGTATTG
245 ACACGCCGAGGTAATTTCAATTTCTGTTGTC---A--A--------AAA-AATCAACTCGTATTG
*
1621091 CGAGAGGCGAGTTGAGCCTCAGGTCACACGTCAAGGTATTTTCAATTTCCGTTTTTCAATTTCTG
296 CGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTCCGTTTTTCAATTTCTG
* *
1621156 TCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTA
361 CCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGCACACGCTGAGCTA
* *
1621219 ATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
425 ATTTCAATTTCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCA
1621283 CACGCCGAGGTATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAATTG
490 CACGCCGAGGTATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAATTG
*
1621337 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC-ACTGAGGTAATTTCAATTTCTGTTGTC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA-TGAGGTAATCTCAATTTCTGTTGTC
* *
1621401 AAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAA
65 -AAAAAATCAACTCATATTGCGA---G-GAGGTGAGCCTTA-G-CACAC-CC---G--TTTTCAA
* * *
1621466 TTTCTATTTTTCAAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAAACATGCT
117 TTTCTATTTTTC-----AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAAACACGCC
*
1621531 GAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC
177 GAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
1621596 AGGACACGCTGGGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAG
242 AGGACACGCCGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAG
*
1621661 TTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAAAAA
307 TTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAA
* * *
1621726 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTT
372 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG--CACACGCTGAGCTAATTTCAATTT
* *
1621791 CTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
435 CTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGC
1621837 TTTAGATCAC
Statistics
Matches: 431, Mismatches: 33, Indels: 68
0.81 0.06 0.13
Matches are distributed among these distances:
558 6 0.01
559 140 0.32
560 62 0.14
562 24 0.06
563 37 0.09
565 5 0.01
566 1 0.00
567 2 0.00
568 1 0.00
569 1 0.00
570 1 0.00
571 1 0.00
572 1 0.00
573 62 0.14
574 5 0.01
580 10 0.02
581 8 0.02
582 1 0.00
583 2 0.00
584 1 0.00
585 2 0.00
586 58 0.13
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (543 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTTCTGTTGTCA
AAAAATCAACTCATATTGCGAGGAGGTGAGCCTTAGCACACCCGTTTTCAATTTCTATTTTTCAA
AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAAACACGCCGAGGTATTTTCAATTTCTG
TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTAATT
TCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
CCAAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTAGGCACACGCTGAGCTAATTTCAATTTCTGTCTGTCAAAAAAATCAAC
TCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTCAATTTCCGTTTTTCA
ATTTCTGCCTTTCAAAAAAATTG
Found at i:1621574 original size:229 final size:230
Alignment explanation
Indices: 1621308--1622083 Score: 804
Period size: 229 Copynumber: 3.2 Consensus size: 230
1621298 CAATTTCCGT
* **
1621308 TTTTCAATTTCTGCCTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
1621373 CACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGC
66 CACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
* *
1621438 CTTAGGTCACACGCCGAGGTATTTTCAATTTCTATTTTTCA-AAAAAAAAATCAACTCATATTGT
131 CTTAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCATAAAAAAAAATCAACTCATATTGC
* ** * *
1621502 GAGAAATGAGTTGAGCCTCAAAACATGCTGAGGTA
196 GAGAAGTGAGTTGAGCCTCATCACGTGCTGAGCTA
* *
1621537 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * *
1621602 CGCTGGGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGC
66 CACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
* *
1621667 CTCAGGTCACACGCCAAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAAAAAAAAATC
131 CTTAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTC-A----------T-AAAAAAAAATC
* *
1621732 AACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTA
184 AACTCATATTGCGAGAAGTGAGTTGAGCC-T--CATCACGTGCTGAGCTA
* *
1621781 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTA-GATC
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-C
* * * * * *** * *
1621845 ACACATTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGAGATGTGAG
65 ACAC--TGAGGTA--ATTTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAG
* * * ** ****
1621910 TTGAGCC-TCGGCTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAGATTCTGTTTTCAAAAA
125 TTGAGCCTTAGG-TCACACGCCGAGGTATTTTCAATTTCTGTTTTTC--A-----TAAAAAAAAA
* * *
1621974 TTAACTCATATTGCGAGAAGTGAGTTGAACCTTAGCTCACGTGCTGAGCTA
182 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA--TCACGTGCTGAGCTA
* *
1622025 TTTTCAATTTCTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTC--TGTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
1622084 TTTTTAATTT
Statistics
Matches: 458, Mismatches: 59, Indels: 42
0.82 0.11 0.08
Matches are distributed among these distances:
229 158 0.34
230 1 0.00
242 37 0.08
243 4 0.01
244 128 0.28
245 4 0.01
246 19 0.04
247 30 0.07
248 12 0.03
249 64 0.14
250 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (230 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
CTTAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCATAAAAAAAAATCAACTCATATTGC
GAGAAGTGAGTTGAGCCTCATCACGTGCTGAGCTA
Found at i:1621617 original size:75 final size:75
Alignment explanation
Indices: 1621308--1621708 Score: 473
Period size: 74 Copynumber: 5.3 Consensus size: 75
1621298 CAATTTCCGT
** **
1621308 TTTTCAATTTCTGCCTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
1621373 CACTGAGGTA
66 CGCTGAGGTA
* * * * * *
1621383 ATTTCAATTTCTG-TTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
1621447 CACGCCGAGGTA
64 CACGCTGAGGTA
* * ** **
1621459 TTTTCAATTTCTATTTTTCAAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAA
1 TTTTCAATTTCTGTTTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
1621524 ACATGCTGAGGTA
63 ACACGCTGAGGTA
*
1621537 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
1621602 CGCTGGGGTA
66 CGCTGAGGTA
* * * * *
1621612 ATTTCAATTTCTG-TTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
**
1621676 CACGCCAAGGTA
64 CACGCTGAGGTA
1621688 TTTTCAATTTCTGTTTTTCAA
1 TTTTCAATTTCTGTTTTTCAA
1621709 TTTCTGCCTT
Statistics
Matches: 272, Mismatches: 45, Indels: 16
0.82 0.14 0.05
Matches are distributed among these distances:
74 83 0.31
75 72 0.26
76 44 0.16
77 10 0.04
78 29 0.11
80 34 0.12
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTA
Found at i:1621707 original size:14 final size:14
Alignment explanation
Indices: 1621688--1621714 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1621678 CGCCAAGGTA
1621688 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
1621702 TTTTCAATTTCTG
1 TTTTCAATTTCTG
1621715 CCTTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:1621720 original size:14 final size:14
Alignment explanation
Indices: 1621689--1621722 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1621679 GCCAAGGTAT
**
1621689 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
1621703 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
1621717 TTTCAA
1 TTTCAA
1621723 AAAAAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:1621783 original size:93 final size:93
Alignment explanation
Indices: 1621630--1621801 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
1621620 TTCTGTTGTC
* * *
1621630 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGCTATTTTCAA
*
1621695 TTTCTGTTTTTCAATTTCTGCCTTTCAA
66 TTTCTGTCTTTCAATTTCTGCCTTTCAA
* * * **
1621723 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCAAGCTATTTTCA
1621787 ATTTCTGTCTTTCAA
65 ATTTCTGTCTTTCAA
1621802 AAAAATCAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (93 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGCTATTTTCAA
TTTCTGTCTTTCAATTTCTGCCTTTCAA
Found at i:1621831 original size:77 final size:77
Alignment explanation
Indices: 1621702--1622293 Score: 345
Period size: 79 Copynumber: 7.2 Consensus size: 77
1621692 CAATTTCTGT
** *
1621702 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCT
*
1621767 CACGCGCTGAGCTA
64 CACACGCTGAGCTA
* * *
1621781 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCA
** *
1621846 CACATTGAGGTA
66 CACGCTGAGCTA
* * * * * * **
1621858 TTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGAGATGTGAGTTGAGCCTCGGCT
1 --TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCT
* *
1621923 CACATG-TCGAGGTA
64 CACACGCT-GAGCTA
** * *
1621937 TTTTCAAAATCTGTTTTTCAGATTCTGTTTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTGTTTTTCA-A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* **
1622002 ACCTTAGCTCACGTGCTGAGCTA
55 GCCTTAGCTCACACGCTGAGCTA
* *
1622025 TTTTCAATTTCTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
1 TTTTCAATTTC--TGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTT-
** * * *
1622090 ATTTTTGCGAGA-GTTGAGTTGA
60 A--GCT-C-ACACGCTGAGCT-A
* * * *
1622112 GTCTTTTAATTTCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC-T-CCA
1 -T-TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGC-
** *
1622173 TCACA-TATCGAGGTA
63 TCACACGCT-GAGCTA
*
1622188 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTC--AA------TTTC-TGTT---TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
1622252 AGCCTTGGCTCACGCGCTGAGCTA
54 AGCCTTAGCTCACACGCTGAGCTA
1622276 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
1622294 AATGTCTATT
Statistics
Matches: 401, Mismatches: 66, Indels: 95
0.71 0.12 0.17
Matches are distributed among these distances:
74 3 0.01
75 1 0.00
76 9 0.02
77 72 0.18
78 3 0.01
79 88 0.22
80 31 0.08
81 1 0.00
82 6 0.01
83 3 0.01
84 29 0.07
85 6 0.01
86 13 0.03
87 44 0.11
88 71 0.18
89 13 0.03
90 8 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (77 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCA
CACGCTGAGCTA
Found at i:1621982 original size:244 final size:243
Alignment explanation
Indices: 1621528--1622293 Score: 869
Period size: 244 Copynumber: 3.1 Consensus size: 243
1621518 CTCAAAACAT
*
1621528 GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-
1 GCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * * * * * *
1621592 TCTCAGGA-CACGC--TGGGGTA-ATTTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATTGTG
66 T-TTA-GATCACACATTGAGGTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCG
* * * * ** *
1621652 AGAGGCGAGTTGAGCCTCAGG-TCACACGCCAAGGTATTTTCAATTTCTGTTTTTCAATTTCTGC
129 AGAGGTGAGTTGAGCCTC-GGCTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTG-
1621716 CTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
192 -TTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
1621772 GCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * *
1621837 TTTAGATCACACATTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGA
66 TTTAGATCACACATTGAGGTA-TTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGA
*
1621902 GATGTGAGTTGAGCCTCGGCTCACATGTCGAGGTATTTTCAAAATCTGTTTTTC-AGATTCTGTT
130 GAGGTGAGTTGAGCCTCGGCTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAG-TTCTG-T
* * * * *
1621966 TTC-AAAAATTAACTCATATTGCGAGAAGTGAGTTGAACCTTAGCTCACGT
193 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
1622016 GCTGAGCTATTTTCAATTTCTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTG
1 GCTGAGCTATTTTCAATTTC--TGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTG
** * *
1622081 AGCTTTTTA-ATTTTTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTATTTTTC--AAAAATCAA
63 AGC--TTTAGA---TCAC-ACA-TTGAGGT-A-T-TTTTCAATTTCTATTTTTCAAAAAAATCAA
* * *
1622142 CTCATATTGCGAGAGGTGAGTTGAACCTC--CATCACATATCGAGGTATTTTCAAAATCTGCTTT
118 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-TCACATGTCGAGGTATTTTCAAAATCTGTTTT
**
1622205 TCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
182 TCAAGTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
1622267 GCTGAGCTATTTTCAATTTCTGTTTTT
1 GCTGAGCTATTTTCAATTTCTGTTTTT
1622294 AATGTCTATT
Statistics
Matches: 447, Mismatches: 51, Indels: 43
0.83 0.09 0.08
Matches are distributed among these distances:
243 2 0.00
244 130 0.29
245 1 0.00
246 19 0.04
247 30 0.07
248 18 0.04
249 81 0.18
250 5 0.01
251 99 0.22
252 37 0.08
253 6 0.01
254 15 0.03
255 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (243 bp):
GCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
TTTAGATCACACATTGAGGTATTTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTCGGCTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTGTTTC
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
Found at i:1622100 original size:30 final size:30
Alignment explanation
Indices: 1622064--1622123 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
1622054 TCAACTCATA
1622064 TTGCGAGAGGTGAGTTGAG-CTTTTTAATTT
1 TTGCGAGAGGTGAGTTGAGTC-TTTTAATTT
*
1622094 TTGCGAGAGTTGAGTTGAGTCTTTTAATTT
1 TTGCGAGAGGTGAGTTGAGTCTTTTAATTT
1622124 CTATTTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (30 bp):
TTGCGAGAGGTGAGTTGAGTCTTTTAATTT
Found at i:1623028 original size:26 final size:25
Alignment explanation
Indices: 1622953--1623016 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
1622943 CCTCCCCAAA
*
1622953 AAAAAACCTAACCAAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAG
1622978 AAAAAACCTAACCCAAAAAGAAAAAG
1 AAAAAACCTAACCCAAAAA-AAAAAG
1623004 -AAAAACCTAACCC
1 AAAAAACCTAACCC
1623017 CCCCAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
25 31 0.84
26 6 0.16
ACGTcount: A:0.69, C:0.22, G:0.05, T:0.05
Consensus pattern (25 bp):
AAAAAACCTAACCCAAAAAAAAAAG
Found at i:1634406 original size:95 final size:95
Alignment explanation
Indices: 1634306--1634496 Score: 364
Period size: 95 Copynumber: 2.0 Consensus size: 95
1634296 ATAATCTATT
* *
1634306 TTTTTTTATCAATTGCTTAATTACATTATTTCAATCAAGTCCTCCACTCACACATTTAGCCCTTT
1 TTTTTTTATCAATTGCCTAATTACATTATTTCAATCAAGTCCTCCACTCACAAATTTAGCCCTTT
1634371 CTAAGTCAAAGGAGTTGATAATTTAAATCA
66 CTAAGTCAAAGGAGTTGATAATTTAAATCA
1634401 TTTTTTTATCAATTGCCTAATTACATTATTTCAATCAAGTCCTCCACTCACAAATTTAGCCCTTT
1 TTTTTTTATCAATTGCCTAATTACATTATTTCAATCAAGTCCTCCACTCACAAATTTAGCCCTTT
1634466 CTAAGTCAAAGGAGTTGATAATTTAAATCA
66 CTAAGTCAAAGGAGTTGATAATTTAAATCA
1634496 T
1 T
1634497 AAAAGTAAAC
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (95 bp):
TTTTTTTATCAATTGCCTAATTACATTATTTCAATCAAGTCCTCCACTCACAAATTTAGCCCTTT
CTAAGTCAAAGGAGTTGATAATTTAAATCA
Found at i:1636207 original size:21 final size:21
Alignment explanation
Indices: 1636172--1636214 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1636162 AAAAAAAACA
*
1636172 ATAATGTTCTAAAAATATTAT
1 ATAATGTTCTAAAAAAATTAT
1636193 ATAAT-TTCTAAAAAAAATTAT
1 ATAATGTTCT-AAAAAAATTAT
1636214 A
1 A
1636215 GGTGGTATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAATGTTCTAAAAAAATTAT
Found at i:1636214 original size:19 final size:20
Alignment explanation
Indices: 1636162--1636214 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
1636152 TCAAACAGGA
**
1636162 AAAAAAAACAATAATGTTCT
1 AAAAAAAATTATAATGTTCT
* *
1636182 AAAAATATTATATAAT-TTCT
1 AAAAAAAAT-TATAATGTTCT
1636202 AAAAAAAATTATA
1 AAAAAAAATTATA
1636215 GGTGGTATGG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 4 0.15
20 17 0.65
21 5 0.19
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAAAATTATAATGTTCT
Found at i:1638957 original size:3 final size:3
Alignment explanation
Indices: 1638949--1638976 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1638939 TGTAGACCAT
1638949 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1638977 AATTTTCCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1639670 original size:19 final size:18
Alignment explanation
Indices: 1639641--1639677 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1639631 TAGATTTTTT
1639641 TAAATTATAATAAAATTA
1 TAAATTATAATAAAATTA
*
1639659 TAAATGTATAATTAAATTA
1 TAAAT-TATAATAAAATTA
1639678 ATACAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
TAAATTATAATAAAATTA
Found at i:1642405 original size:3 final size:3
Alignment explanation
Indices: 1642397--1642425 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1642387 TACGGTTCCT
1642397 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1642426 TATATATCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:1650081 original size:19 final size:19
Alignment explanation
Indices: 1650057--1650095 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1650047 CCCCTACTCT
1650057 TCCCTACATGCATTCCCTA
1 TCCCTACATGCATTCCCTA
1650076 TCCCTACATGCATTCCCTA
1 TCCCTACATGCATTCCCTA
1650095 T
1 T
1650096 GTTACCCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.41, G:0.05, T:0.33
Consensus pattern (19 bp):
TCCCTACATGCATTCCCTA
Found at i:1650295 original size:40 final size:42
Alignment explanation
Indices: 1650240--1650325 Score: 149
Period size: 40 Copynumber: 2.1 Consensus size: 42
1650230 TCAATATCTA
1650240 ACACTCAAACCCACCCCCCA-CCCC-CCACCCCGGCATTCAT
1 ACACTCAAACCCACCCCCCACCCCCACCACCCCGGCATTCAT
*
1650280 ACACTCAAACCCACCCCCCACCCCCACCCCCCCGGCATTCAT
1 ACACTCAAACCCACCCCCCACCCCCACCACCCCGGCATTCAT
1650322 ACAC
1 ACAC
1650326 GGTATGTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
40 20 0.47
41 4 0.09
42 19 0.44
ACGTcount: A:0.26, C:0.60, G:0.05, T:0.09
Consensus pattern (42 bp):
ACACTCAAACCCACCCCCCACCCCCACCACCCCGGCATTCAT
Found at i:1654509 original size:21 final size:21
Alignment explanation
Indices: 1654485--1654564 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
1654475 TCCTGTTCTT
*
1654485 CTTCACCCTCTTCATCATCAC
1 CTTCATCCTCTTCATCATCAC
* * * **
1654506 CTTCATCTTCTTCGTCTTCTT
1 CTTCATCCTCTTCATCATCAC
* * *
1654527 CTTCTTCTTCTTCATCTTCAC
1 CTTCATCCTCTTCATCATCAC
* *
1654548 CCTCAGCCTCTTCATCA
1 CTTCATCCTCTTCATCA
1654565 CCCTCATCTT
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.12, C:0.41, G:0.03, T:0.44
Consensus pattern (21 bp):
CTTCATCCTCTTCATCATCAC
Found at i:1654517 original size:3 final size:3
Alignment explanation
Indices: 1654506--1654545 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
1654496 TCATCATCAC
* * *
1654506 CTT CAT CTT CTT CGT CTT CTT CTT CTT CTT CTT CAT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1654546 ACCCTCAGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.35, G:0.03, T:0.57
Consensus pattern (3 bp):
CTT
Found at i:1661349 original size:30 final size:30
Alignment explanation
Indices: 1661313--1661370 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1661303 ACTTAACAAG
*
1661313 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTATCTAAAATAATAACAAAATTAA
* *
1661343 CAAATGTATTTAAAATAATAATAAAATT
1 CAAATGTATCTAAAATAATAACAAAATT
1661371 TAAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (30 bp):
CAAATGTATCTAAAATAATAACAAAATTAA
Found at i:1661373 original size:18 final size:17
Alignment explanation
Indices: 1661350--1661383 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
1661340 TAACAAATGT
1661350 ATTTAAAATAATAATAAA
1 ATTTAAAATAA-AATAAA
1661368 ATTTAAAATAAAATAA
1 ATTTAAAATAAAATAA
1661384 GTTTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTTAAAATAAAATAAA
Found at i:1662252 original size:15 final size:15
Alignment explanation
Indices: 1662232--1662266 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1662222 ATTCTCAAAT
1662232 CCATCATCATAATCA
1 CCATCATCATAATCA
*
1662247 CCATCATCATAGTCA
1 CCATCATCATAATCA
1662262 CCATC
1 CCATC
1662267 TTCAACTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.37, G:0.03, T:0.26
Consensus pattern (15 bp):
CCATCATCATAATCA
Found at i:1680719 original size:19 final size:19
Alignment explanation
Indices: 1680655--1680715 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
1680645 TAACTCAATA
*
1680655 AAAACATTAAATAATACTT
1 AAAACATTAAATAATTCTT
1680674 AAAACATTAAATAATT-TCT
1 AAAACATTAAATAATTCT-T
* * *
1680693 AAGATATTACATAATTCTT
1 AAAACATTAAATAATTCTT
1680712 AAAA
1 AAAA
1680716 TATTGAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 1 0.03
19 33 0.94
20 1 0.03
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAACATTAAATAATTCTT
Found at i:1682777 original size:100 final size:100
Alignment explanation
Indices: 1682604--1682805 Score: 404
Period size: 100 Copynumber: 2.0 Consensus size: 100
1682594 GGCGAAGGTG
1682604 ACCTGATGGCAAAGCATATGTGTAACAAAAACAAGTCAAGGAGCCCAGAACTAAAGCATTTCCTA
1 ACCTGATGGCAAAGCATATGTGTAACAAAAACAAGTCAAGGAGCCCAGAACTAAAGCATTTCCTA
1682669 AATTCTAAAGAGACACGCAACTCTTTGCTCCTAGA
66 AATTCTAAAGAGACACGCAACTCTTTGCTCCTAGA
1682704 ACCTGATGGCAAAGCATATGTGTAACAAAAACAAGTCAAGGAGCCCAGAACTAAAGCATTTCCTA
1 ACCTGATGGCAAAGCATATGTGTAACAAAAACAAGTCAAGGAGCCCAGAACTAAAGCATTTCCTA
1682769 AATTCTAAAGAGACACGCAACTCTTTGCTCCTAGA
66 AATTCTAAAGAGACACGCAACTCTTTGCTCCTAGA
1682804 AC
1 AC
1682806 ACACTATAAA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (100 bp):
ACCTGATGGCAAAGCATATGTGTAACAAAAACAAGTCAAGGAGCCCAGAACTAAAGCATTTCCTA
AATTCTAAAGAGACACGCAACTCTTTGCTCCTAGA
Found at i:1682819 original size:11 final size:11
Alignment explanation
Indices: 1682803--1682827 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1682793 TTGCTCCTAG
1682803 AACACACTATA
1 AACACACTATA
1682814 AACACACTATA
1 AACACACTATA
1682825 AAC
1 AAC
1682828 TTCTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (11 bp):
AACACACTATA
Found at i:1687837 original size:18 final size:18
Alignment explanation
Indices: 1687816--1687851 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1687806 TAAAAATAAA
1687816 TATTAATTTTTAAATTAT
1 TATTAATTTTTAAATTAT
* *
1687834 TATTTATTTTTAATTTAT
1 TATTAATTTTTAAATTAT
1687852 CTTATTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTAATTTTTAAATTAT
Found at i:1688139 original size:23 final size:24
Alignment explanation
Indices: 1688113--1688160 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1688103 TAATGTATTT
*
1688113 ATATATA-ATAAAAAAACATTGCA
1 ATATATACACAAAAAAACATTGCA
*
1688136 ATATATACACACAAAAACATTGCA
1 ATATATACACAAAAAAACATTGCA
1688160 A
1 A
1688161 AGTGTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.58, C:0.15, G:0.04, T:0.23
Consensus pattern (24 bp):
ATATATACACAAAAAAACATTGCA
Found at i:1689812 original size:11 final size:11
Alignment explanation
Indices: 1689791--1689831 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
1689781 ATTTATTGTT
1689791 ATAAT-AATAA
1 ATAATAAATAA
1689801 ATAATAAATAA
1 ATAATAAATAA
1689812 ATAA-ATAATAA
1 ATAATA-AATAA
1689823 AGTAATAAA
1 A-TAATAAA
1689832 ACCCATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.22
11 15 0.56
12 5 0.19
13 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
ATAATAAATAA
Found at i:1689829 original size:15 final size:14
Alignment explanation
Indices: 1689793--1689831 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
1689783 TTATTGTTAT
1689793 AATAATAAATAATA
1 AATAATAAATAATA
1689807 AATAAATAAATAATA
1 AAT-AATAAATAATA
1689822 AAGTAATAAA
1 AA-TAATAAA
1689832 ACCCATCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 19 0.83
16 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AATAATAAATAATA
Found at i:1701539 original size:21 final size:20
Alignment explanation
Indices: 1701515--1701555 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1701505 ACTTCGAACT
1701515 CTAAACCTTAAATACTAAACC
1 CTAAACCTTAAA-ACTAAACC
* *
1701536 CTAAACTTTAAACCTAAACC
1 CTAAACCTTAAAACTAAACC
1701556 ATAGACCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.24
Consensus pattern (20 bp):
CTAAACCTTAAAACTAAACC
Found at i:1701610 original size:21 final size:20
Alignment explanation
Indices: 1701581--1701621 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1701571 GAACCCCAAG
1701581 TTCAAGGTTTGAGGTTCTATA
1 TTCAAGGTTTGAGGTT-TATA
* *
1701602 TTCATGGTTTGGGGTTTATA
1 TTCAAGGTTTGAGGTTTATA
1701622 GTTTTAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.46
Consensus pattern (20 bp):
TTCAAGGTTTGAGGTTTATA
Found at i:1706655 original size:20 final size:20
Alignment explanation
Indices: 1706630--1706679 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1706620 TGGCTTAAAA
1706630 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1706650 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1706667 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1706680 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1711293 original size:20 final size:20
Alignment explanation
Indices: 1711268--1711317 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1711258 TGGCTTAAAA
1711268 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1711288 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1711305 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1711318 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1713505 original size:16 final size:17
Alignment explanation
Indices: 1713480--1713528 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
1713470 CACATTAACC
1713480 AAAAAA-TT-AAAATAT
1 AAAAAATTTAAAAATAT
*
1713495 TAAAAATTTAAAAATAT
1 AAAAAATTTAAAAATAT
1713512 AAAAAATATTACAAAAT
1 AAAAAAT-TTA-AAAAT
1713529 TTTTAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 5 0.18
16 2 0.07
17 13 0.46
18 3 0.11
19 5 0.18
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAATTTAAAAATAT
Found at i:1713508 original size:17 final size:18
Alignment explanation
Indices: 1713488--1713538 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
1713478 CCAAAAAATT
1713488 AAAATATTAAAAATTTA-
1 AAAATATTAAAAATTTAC
*
1713505 AAAATATAAAAAATATTAC
1 AAAATATTAAAAAT-TTAC
* *
1713524 AAAATTTTTAAAATT
1 AAAATATTAAAAATT
1713539 ATGGAAAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 13 0.46
18 4 0.14
19 11 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATATTAAAAATTTAC
Found at i:1713616 original size:18 final size:18
Alignment explanation
Indices: 1713583--1713617 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1713573 CTTAAAAATT
* *
1713583 TATTAAAAATTGAATAAA
1 TATTAAAAAATAAATAAA
1713601 TATTAAAAAATAAATAA
1 TATTAAAAAATAAATAA
1713618 GATCATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TATTAAAAAATAAATAAA
Found at i:1714345 original size:27 final size:30
Alignment explanation
Indices: 1714280--1714343 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
1714270 TAAAGAAATT
1714280 TATAATACCTTAACTATTATTAGATTATGC
1 TATAATACCTTAACTATTATTAGATTATGC
*
1714310 TATAATACCTTAACTATTATTAGATTATGT
1 TATAATACCTTAACTATTATTAGATTATGC
1714340 TATA
1 TATA
1714344 CCCATGACGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (30 bp):
TATAATACCTTAACTATTATTAGATTATGC
Found at i:1716167 original size:15 final size:15
Alignment explanation
Indices: 1716147--1716183 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1716137 AGAGACCGAG
1716147 AAAGAAAAAAAAAAA
1 AAAGAAAAAAAAAAA
*
1716162 AAAGAAAAAAGAAAA
1 AAAGAAAAAAAAAAA
1716177 AAAGAAA
1 AAAGAAA
1716184 GGAAACCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAAA
Found at i:1716180 original size:8 final size:8
Alignment explanation
Indices: 1716147--1716183 Score: 60
Period size: 7 Copynumber: 4.9 Consensus size: 8
1716137 AGAGACCGAG
1716147 AAAGAAAA
1 AAAGAAAA
1716155 AAA-AAAA
1 AAAGAAAA
1716162 AAAG-AAA
1 AAAGAAAA
1716169 AAAGAAAA
1 AAAGAAAA
1716177 AAAGAAA
1 AAAGAAA
1716184 GGAAACCAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.52
8 13 0.48
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:1726335 original size:50 final size:50
Alignment explanation
Indices: 1726210--1726458 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
1726200 GATAATAACA
* * ** * * *
1726210 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-TG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
1726261 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1726311 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1726361 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1726416 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1726459 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1726389 original size:100 final size:104
Alignment explanation
Indices: 1726209--1726458 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
1726199 TGATAATAAC
** *
1726209 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATTGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
1726274 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1726311 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
1726374 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
1726416 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1726459 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1726574 original size:13 final size:13
Alignment explanation
Indices: 1726553--1726584 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1726543 GCTTGGATCA
*
1726553 TCATCAAATAAAT
1 TCATAAAATAAAT
1726566 TCATAAAATAAAT
1 TCATAAAATAAAT
1726579 TCATAA
1 TCATAA
1726585 TTGCTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1726830 original size:30 final size:30
Alignment explanation
Indices: 1726795--1726852 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1726785 CCTCGACTCT
*
1726795 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1726825 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1726853 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1732099 original size:32 final size:32
Alignment explanation
Indices: 1732063--1732123 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
1732053 TACTCTAAAG
*
1732063 AAAGGATCCTTTTTTACTATACTTCATCTCAT
1 AAAGGATCCATTTTTACTATACTTCATCTCAT
*
1732095 AAAGGATCCATTTTTACTATGCTTCATCT
1 AAAGGATCCATTTTTACTATACTTCATCT
1732124 TATGGTCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (32 bp):
AAAGGATCCATTTTTACTATACTTCATCTCAT
Found at i:1752287 original size:21 final size:21
Alignment explanation
Indices: 1752263--1752307 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
1752253 TAAATCTAAA
1752263 AATAAATAAAAATTAA-TATTC
1 AATAAATAAAAA-TAAGTATTC
1752284 AATAAATAAAAATAAGTATTC
1 AATAAATAAAAATAAGTATTC
1752305 AAT
1 AAT
1752308 TTTAAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAAATAAAAATAAGTATTC
Found at i:1755326 original size:24 final size:24
Alignment explanation
Indices: 1755270--1755318 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1755260 GTGATTTGTA
1755270 AATATTAAATCCAATTAAAATTCT
1 AATATTAAATCCAATTAAAATTCT
1755294 AATATTAAATCCAATTAAAATTCT
1 AATATTAAATCCAATTAAAATTCT
1755318 A
1 A
1755319 TGTATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (24 bp):
AATATTAAATCCAATTAAAATTCT
Found at i:1756893 original size:8 final size:8
Alignment explanation
Indices: 1756873--1756902 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
1756863 TTCGTCATCA
1756873 TATTTTA-
1 TATTTTAT
1756880 TATTTTAT
1 TATTTTAT
1756888 TATTTTAT
1 TATTTTAT
1756896 TATTTTA
1 TATTTTA
1756903 CATCGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TATTTTAT
Found at i:1756893 original size:15 final size:16
Alignment explanation
Indices: 1756873--1756902 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1756863 TTCGTCATCA
1756873 TATTTTA-TATTTTAT
1 TATTTTATTATTTTAT
1756888 TATTTTATTATTTTA
1 TATTTTATTATTTTA
1756903 CATCGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTATTATTTTAT
Found at i:1762004 original size:38 final size:38
Alignment explanation
Indices: 1761947--1762025 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
1761937 AGTGTGAATA
*
1761947 TGTCTTTAATGTGGATGCATGAATTCTAACCCTTTAAT
1 TGTCCTTAATGTGGATGCATGAATTCTAACCCTTTAAT
*
1761985 TGTCCTTAATGTGGGTGCATGAATTCTAACCCTTTAAT
1 TGTCCTTAATGTGGATGCATGAATTCTAACCCTTTAAT
1762023 TGT
1 TGT
1762026 ACATTACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (38 bp):
TGTCCTTAATGTGGATGCATGAATTCTAACCCTTTAAT
Found at i:1762748 original size:12 final size:11
Alignment explanation
Indices: 1762717--1762742 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1762707 TAGTATGACC
1762717 ATTAATTAAAA
1 ATTAATTAAAA
1762728 ATTAATTAAAA
1 ATTAATTAAAA
1762739 ATTA
1 ATTA
1762743 TTTTAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTAATTAAAA
Found at i:1763523 original size:46 final size:46
Alignment explanation
Indices: 1763466--1763559 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
1763456 AGAATACAAT
1763466 ATTTTATATGAATTGAAACTTATACGCATCATGCCAATAAGTTATA
1 ATTTTATATGAATTGAAACTTATACGCATCATGCCAATAAGTTATA
1763512 ATTTTATATGAATTGAAACTTATACGCATCATGCCAATAAGTTATA
1 ATTTTATATGAATTGAAACTTATACGCATCATGCCAATAAGTTATA
1763558 AT
1 AT
1763560 AAGTACTCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (46 bp):
ATTTTATATGAATTGAAACTTATACGCATCATGCCAATAAGTTATA
Found at i:1766035 original size:16 final size:17
Alignment explanation
Indices: 1766014--1766047 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1766004 AAAACTTATG
*
1766014 AATTTCGAGA-AAAATT
1 AATTTCAAGATAAAATT
1766030 AATTTCAAGATAAAATT
1 AATTTCAAGATAAAATT
1766047 A
1 A
1766048 TTAATTGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (17 bp):
AATTTCAAGATAAAATT
Found at i:1766738 original size:19 final size:19
Alignment explanation
Indices: 1766716--1766753 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1766706 AAAATACAAA
1766716 AAAAAAT-CAAAATATTTAT
1 AAAAAATCCAAAAT-TTTAT
*
1766735 AAAAATTCCAAAATTTTAT
1 AAAAAATCCAAAATTTTAT
1766754 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAAATCCAAAATTTTAT
Done.