Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008252.1 Hibiscus syriacus cultivar Beakdansim tig00110904_pilon, whole genome shotgun sequence
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: 2928487
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 13
Found at i:1606295 original size:83 final size:83
Alignment explanation
Indices: 1606197--1606415 Score: 375
Period size: 83 Copynumber: 2.6 Consensus size: 83
1606187 GGTTTCATAT
* * *
1606197 CAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTAGCACATTTATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCATCTTCCAAA
1606262 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
* *
1606280 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCATCTTCCAAA
1606345 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
* *
1606363 CAAACCAGATCAGATAACTCAAAGACCACTTCTAGAAGATGCTATGGGCACAT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACAT
1606416 GGCATTTGTT
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 128 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCATCTTCCAAA
TTCAATGATTGGTTTTAC
Found at i:1607788 original size:12 final size:12
Alignment explanation
Indices: 1607765--1607814 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
1607755 CCTTGACCCC
1607765 CCTTTTTCTTTTT
1 CCTTTTT-TTTTT
* *
1607778 TCTTTTTTTTTC
1 CCTTTTTTTTTT
*
1607790 CCTCTTTTTTTT
1 CCTTTTTTTTTT
1607802 CCTCTTTTTTTTT
1 CCT-TTTTTTTTT
1607815 TCTTCTTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
12 16 0.53
13 14 0.47
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
CCTTTTTTTTTT
Found at i:1607795 original size:14 final size:13
Alignment explanation
Indices: 1607778--1607814 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
1607768 TTTTCTTTTT
1607778 TCTTTTTTTTTCC
1 TCTTTTTTTTTCC
1607791 -CTCTTTTTTTTCC
1 TCT-TTTTTTTTCC
1607804 TCTTTTTTTTT
1 TCTTTTTTTTT
1607815 TCTTCTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TCTTTTTTTTTCC
Found at i:1607815 original size:14 final size:14
Alignment explanation
Indices: 1607780--1607821 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
1607770 TTCTTTTTTC
1607780 TTTTTTTTTCC-CT
1 TTTTTTTTTCCTCT
*
1607793 CTTTTTTTTCCTCT
1 TTTTTTTTTCCTCT
*
1607807 TTTTTTTTTCTTCT
1 TTTTTTTTTCCTCT
1607821 T
1 T
1607822 CAAGCATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTCCTCT
Found at i:1619744 original size:1 final size:1
Alignment explanation
Indices: 1619738--1619763 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1619728 CTTCCTCCTC
1619738 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
1619764 GCAGGTTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1620195 original size:3 final size:3
Alignment explanation
Indices: 1620181--1620275 Score: 106
Period size: 3 Copynumber: 32.0 Consensus size: 3
1620171 GTTATATCTG
* * *
1620181 TAA TAA -AA TAA TAA TAT TAA TAA TAA TAA TAG TAA TAA CAA -AA CTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* *
1620228 TAA TAA TAA TAA TAA AAA TAA TAA TAA AAA TAA TAA -ATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
1620273 TAA
1 TAA
1620276 AACCAAATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
2 5 0.06
3 70 0.90
4 3 0.04
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:1620254 original size:21 final size:21
Alignment explanation
Indices: 1620182--1620275 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
1620172 TTATATCTGT
* *
1620182 AATAA-AATAATAATATTAAT
1 AATAATAATAATAATAATAAA
* *
1620202 AATAATAATAGTAATAACAAA
1 AATAATAATAATAATAATAAA
*
1620223 ACTAATAATAATAATAATAAA
1 AATAATAATAATAATAATAAA
*
1620244 AATAATAATAAAAATAATAAA
1 AATAATAATAATAATAATAAA
*
1620265 TATAATAATAA
1 AATAATAATAA
1620276 AACCAAATGT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
20 5 0.08
21 58 0.92
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.29
Consensus pattern (21 bp):
AATAATAATAATAATAATAAA
Found at i:1625388 original size:20 final size:20
Alignment explanation
Indices: 1625363--1625413 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
1625353 CATTCATGAG
1625363 GTATCGATACCTGGGAGGTA
1 GTATCGATACCTGGGAGGTA
1625383 GTATCGATACCTGGGAGGTA
1 GTATCGATACCTGGGAGGTA
1625403 GTATCGATACC
1 GTATCGATACC
1625414 AAGGGTACCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (20 bp):
GTATCGATACCTGGGAGGTA
Found at i:1626010 original size:22 final size:22
Alignment explanation
Indices: 1625962--1626012 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1625952 ACACATACAC
*
1625962 ATGATATGTGATAGAAGAGTAG
1 ATGATATGTGATAGAAGAGTAA
*
1625984 A-GATATGTGATCATAAGAG-AA
1 ATGATATGTGAT-AGAAGAGTAA
1626005 ATGATATG
1 ATGATATG
1626013 AATTCATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.43, C:0.02, G:0.27, T:0.27
Consensus pattern (22 bp):
ATGATATGTGATAGAAGAGTAA
Found at i:1631666 original size:15 final size:15
Alignment explanation
Indices: 1631624--1631672 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
1631614 ATATTAGAGC
*
1631624 ATAATAAGCCAAGAT
1 ATAATAAGCCAAAAT
* * *
1631639 AAATATAATCCAACAT
1 ATA-ATAAGCCAAAAT
1631655 ATAATAAGCCAAAAT
1 ATAATAAGCCAAAAT
1631670 ATA
1 ATA
1631673 TCCATCATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.22
Consensus pattern (15 bp):
ATAATAAGCCAAAAT
Found at i:1631862 original size:18 final size:18
Alignment explanation
Indices: 1631839--1631881 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1631829 TAGTCAATCC
* *
1631839 TCATCATCATCACTAGCA
1 TCATCATCAACACTAACA
*
1631857 TCATCATCAACAGTAACA
1 TCATCATCAACACTAACA
1631875 TCATCAT
1 TCATCAT
1631882 ACGGATGCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.28
Consensus pattern (18 bp):
TCATCATCAACACTAACA
Found at i:1633046 original size:2 final size:2
Alignment explanation
Indices: 1633039--1633063 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1633029 GGACATGAAA
1633039 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1633064 TATTGCACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1633572 original size:19 final size:19
Alignment explanation
Indices: 1633550--1633589 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1633540 AAGTTTACTA
*
1633550 TAGTTTCAAAACTTTTTAG
1 TAGTTTCAAAACTTTTGAG
* *
1633569 TAGTTTCTATACTTTTGAG
1 TAGTTTCAAAACTTTTGAG
1633588 TA
1 TA
1633590 ATCTATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (19 bp):
TAGTTTCAAAACTTTTGAG
Found at i:1644090 original size:33 final size:33
Alignment explanation
Indices: 1644048--1644143 Score: 174
Period size: 33 Copynumber: 2.9 Consensus size: 33
1644038 TCTCAGATAA
1644048 ATGAATTTACAAGGTAATATATGTTCAGGAACC
1 ATGAATTTACAAGGTAATATATGTTCAGGAACC
1644081 ATGAATTTACAAGGTAATATATGTTCAGGAACC
1 ATGAATTTACAAGGTAATATATGTTCAGGAACC
* *
1644114 ATGAATTTACAAGGTAATATTTGTTTAGGA
1 ATGAATTTACAAGGTAATATATGTTCAGGA
1644144 TTTTTCTTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (33 bp):
ATGAATTTACAAGGTAATATATGTTCAGGAACC
Found at i:1644803 original size:58 final size:56
Alignment explanation
Indices: 1644654--1644795 Score: 212
Period size: 58 Copynumber: 2.5 Consensus size: 56
1644644 TTATTAAGTC
*
1644654 ATTTATTTATTGAACATGATTAATTAAATTAATTATAATAATTACAAGTTAAAAAA
1 ATTTATTTATTGAACATGATTAATTAAATTAATTATAATAATTAAAAGTTAAAAAA
* * * *
1644710 ATTTATTGGCATTGAACATGATTAATTAAATTAATTATGATTATTAAAAGTTAAAATA
1 ATTTATT--TATTGAACATGATTAATTAAATTAATTATAATAATTAAAAGTTAAAAAA
*
1644768 ATTTATTTATTGAACATGGTTAATTAAA
1 ATTTATTTATTGAACATGATTAATTAAA
1644796 AAATAATTTA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
56 26 0.34
58 51 0.66
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (56 bp):
ATTTATTTATTGAACATGATTAATTAAATTAATTATAATAATTAAAAGTTAAAAAA
Found at i:1644819 original size:58 final size:55
Alignment explanation
Indices: 1644654--1644811 Score: 183
Period size: 58 Copynumber: 2.8 Consensus size: 55
1644644 TTATTAAGTC
*
1644654 ATTTATTTATTGAACATGATTAATTAAATTAA-TTATAATAATTACAAGTTAAAAAA
1 ATTTATTTATTGAACATGATTAATTAAATTAATTTA-AAT-ATTAAAAGTTAAAAAA
* * * *
1644710 ATTTATTGGCATTGAACATGATTAATTAAATTAATTATGATTATTAAAAGTTAAAATA
1 ATTTATT--TATTGAACATGATTAATTAAATTAATT-TAAATATTAAAAGTTAAAAAA
* *
1644768 ATTTATTTATTGAACATGGTTAATTAAAAAATAATTTAAATATT
1 ATTTATTTATTGAACATGATTAATT--AAATTAATTTAAATATT
1644812 TATAAGTTTA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
56 23 0.27
57 6 0.07
58 53 0.62
59 3 0.03
60 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (55 bp):
ATTTATTTATTGAACATGATTAATTAAATTAATTTAAATATTAAAAGTTAAAAAA
Found at i:1648413 original size:100 final size:100
Alignment explanation
Indices: 1648300--1648644 Score: 408
Period size: 102 Copynumber: 3.4 Consensus size: 100
1648290 AAATAGGTTT
* ** * *
1648300 GGTTTTGGTTTTGGGTGTTTAAAAGGATCAAACAAGGGTTTGGAGATGAACATGGATGAATAAAG
1 GGTTTTGGGTTTGGGTGTTTGTAAGGATCAAACAAGGGTTTGGGGATGAACATGGATGAATAAGG
1648365 GTTGAAGGTTTAGGTGTTTGAT-AAAAAACATGTTG
66 GTTGAAGGTTT-GGTGTTTGATCAAAAAACATGTTG
* * *
1648400 GGTATTGGGTTTGGGTGTTTGTAAGGATCAAACAAGGGTTTGGGGATGAACATGAATGAACAAGG
1 GGTTTTGGGTTTGGGTGTTTGTAAGGATCAAACAAGGGTTTGGGGATGAACATGGATGAATAAGG
1648465 GTTG-AGGATTTGGGTGTTTGATCAAAAAA-ATAAGTTG
66 GTTGAAGG-TTT-GGTGTTTGATCAAAAAACAT--GTTG
* ** * * **
1648502 GGTTTTAGGTTTGGGTGTTTGTAAGGATTTAATAAGGATTTGGGGATGAACACAGATGAATAAGG
1 GGTTTTGGGTTTGGGTGTTTGTAAGGATCAAACAAGGGTTTGGGGATGAACATGGATGAATAAGG
* *
1648567 GTTGAGGGTTTGGACGTTTGATCGAAAAAACATGTTG
66 GTTGAAGGTTTGG-TGTTTGATC-AAAAAACATGTTG
* * * **
1648604 GGTTTTGAGTTTTGGTGTTTGTAAAGATCAAATGAGGGTTT
1 GGTTTTGGGTTTGGGTGTTTGTAAGGATCAAACAAGGGTTT
1648645 TAAGGATGAG
Statistics
Matches: 208, Mismatches: 29, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
99 3 0.01
100 76 0.37
101 8 0.04
102 111 0.53
103 8 0.04
104 2 0.01
ACGTcount: A:0.29, C:0.04, G:0.33, T:0.34
Consensus pattern (100 bp):
GGTTTTGGGTTTGGGTGTTTGTAAGGATCAAACAAGGGTTTGGGGATGAACATGGATGAATAAGG
GTTGAAGGTTTGGTGTTTGATCAAAAAACATGTTG
Found at i:1648693 original size:102 final size:100
Alignment explanation
Indices: 1648300--1648698 Score: 385
Period size: 102 Copynumber: 3.9 Consensus size: 100
1648290 AAATAGGTTT
** * * * *
1648300 GGTTTTG-GTTTTGGGTGTTTAAAAGGATCAAACAAGGGTTTGGAGATGAACATGGATGAATAAA
1 GGTTTTGAG-TTTGGGTGTTTGTAAGGATCAAA-TAGGGTTTGGGGATGAACACGGATGAACAAA
*
1648364 GGTTGAAGGTTTAGGTGTTTGAT--AAAAAACATGTTG
64 GGTTG-AGGTTTGGGTGTTTGATCGAAAAAACATGTTG
* * * * * *
1648400 GGTATTGGGTTTGGGTGTTTGTAAGGATCAAACAAGGGTTTGGGGATGAACATGAATGAACAAGG
1 GGTTTTGAGTTTGGGTGTTTGTAAGGATCAAA-TAGGGTTTGGGGATGAACACGGATGAACAAAG
* * *
1648465 GTTGAGGATTTGGGTGTTTGATCAAAAAAATAAGTTG
65 GTTGAGG-TTTGGGTGTTTGATCGAAAAAACATGTTG
** * * * *
1648502 GGTTTT-AGGTTTGGGTGTTTGTAAGGATTTAATAAGGATTTGGGGATGAACACAGATGAATAAG
1 GGTTTTGA-GTTTGGGTGTTTGTAAGGATCAAAT-AGGGTTTGGGGATGAACACGGATGAACAAA
**
1648566 GGTTGAGGGTTTGGACGTTTGATCGAAAAAACATGTTG
64 GGTTGA-GGTTTGGGTGTTTGATCGAAAAAACATGTTG
* * ** **
1648604 GGTTTTGAGTTTTGGTGTTTGTAAAGATCAAATGAGGGTTTTAAGGATGAGGACGGATGAACAAA
1 GGTTTTGAGTTTGGGTGTTTGTAAGGATCAAAT-AGGG-TTTGGGGATGAACACGGATGAACAAA
*
1648669 GGTTGA-GTTTGGGGTGTTTAATCGAAAAAA
64 GGTTGAGGTTT-GGGTGTTTGATCGAAAAAA
1648699 ATAAAGGATT
Statistics
Matches: 248, Mismatches: 41, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
99 3 0.01
100 73 0.29
101 5 0.02
102 139 0.56
103 28 0.11
ACGTcount: A:0.30, C:0.05, G:0.33, T:0.32
Consensus pattern (100 bp):
GGTTTTGAGTTTGGGTGTTTGTAAGGATCAAATAGGGTTTGGGGATGAACACGGATGAACAAAGG
TTGAGGTTTGGGTGTTTGATCGAAAAAACATGTTG
Found at i:1649088 original size:2 final size:2
Alignment explanation
Indices: 1649077--1649485 Score: 140
Period size: 2 Copynumber: 209.0 Consensus size: 2
1649067 ACTAATAAAC
1649077 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
1649115 AA TA TA TA GTA TA TA -A TGG TT TA TA TA TA GTT TA TA TA TA GA
1 TA TA TA TA -TA TA TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA
* * *
1649157 CT- TCA TA TA TA AA CTA TA TA GTT TA TA T- TA -A TA GTT TA TA TA
1 -TA T-A TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA
* * *
1649199 TA TA TA TA TA TA TA -A TA TA AA TA -A TT TA TA T- TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1649238 T- TA TA TA -A TT TT TA TA TA TA GTT TA TA TA -A T- TCA T- TA -A
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA T-A TA TA TA
* * * * *
1649276 TA AA T- TA TA TA GTT TT TA TA TA TA GTA TA TA CA -A TA TA AA CTA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA
* ** *
1649319 TA TA GTA TA TA AA TA GTA TA TGA -A TA GC TA -A TA CA TA GTA TA
1 TA TA -TA TA TA TA TA -TA TA T-A TA TA TA TA TA TA TA TA -TA TA
* * * * * * *
1649361 TA AA TA TA AA T- TA TA TA GTT TA AA TT TA TA TA CTT TA TA TA GTG
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA
*
1649405 TA TA GTT TA TA TA TA T- TA TA T- TA T- TA TA TA -A TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1649444 T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1649482 TA TA
1 TA TA
1649486 ATTGTTTTAA
Statistics
Matches: 301, Mismatches: 55, Indels: 102
0.66 0.12 0.22
Matches are distributed among these distances:
1 30 0.10
2 246 0.82
3 25 0.08
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1649149 original size:11 final size:11
Alignment explanation
Indices: 1649116--1649266 Score: 66
Period size: 11 Copynumber: 13.5 Consensus size: 11
1649106 TATTAATAAA
*
1649116 ATATATAGTAT
1 ATATATAGTTT
*
1649127 ATA-ATGGTTT
1 ATATATAGTTT
1649137 ATATATAGTTT
1 ATATATAGTTT
*
1649148 ATATATAGACTTC
1 ATATATAG--TTT
*
1649161 ATATATA---A
1 ATATATAGTTT
1649169 ACTATATAGTTT
1 A-TATATAGTTT
1649181 ATATTAATAGTTT
1 ATA-T-ATAGTTT
*
1649194 ATATATA-TAT
1 ATATATAGTTT
*
1649204 ATATATA-TAAT
1 ATATATAGT-TT
* *
1649215 ATAAATAATTT
1 ATATATAGTTT
1649226 ATATTATA-TAAATT
1 ATA-TATAGT---TT
*
1649240 ATATA-ATTTTT
1 ATATATA-GTTT
1649251 ATATATAGTTT
1 ATATATAGTTT
1649262 ATATA
1 ATATA
1649267 ATTCATTAAT
Statistics
Matches: 111, Mismatches: 11, Indels: 36
0.70 0.07 0.23
Matches are distributed among these distances:
8 1 0.01
9 6 0.05
10 18 0.16
11 50 0.45
12 9 0.08
13 21 0.19
14 6 0.05
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (11 bp):
ATATATAGTTT
Found at i:1649210 original size:45 final size:45
Alignment explanation
Indices: 1649161--1649304 Score: 109
Period size: 45 Copynumber: 3.3 Consensus size: 45
1649151 TATAGACTTC
* * **
1649161 ATATATAA-ACTATATAGTTTATATTA-ATAGTTTATATATATATAT
1 ATATATAATA-TAAATAATTTATATTATATAAATTATATA-ATATAT
* *
1649206 ATATATAATATAAATAATTTATATTATATAAATTATATAATTTTT
1 ATATATAATATAAATAATTTATATTATATAAATTATATAATATAT
* * * * * * *
1649251 ATATATAGTTTATATAA-TT-CATTA-ATAAATTATATAGTTTTT
1 ATATATAATATAAATAATTTATATTATATAAATTATATAATATAT
*
1649293 ATATATAGTATA
1 ATATATAATATA
1649305 TACAATATAA
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
42 28 0.33
43 4 0.05
44 2 0.02
45 40 0.47
46 11 0.13
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (45 bp):
ATATATAATATAAATAATTTATATTATATAAATTATATAATATAT
Found at i:1652688 original size:24 final size:24
Alignment explanation
Indices: 1652660--1652732 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
1652650 GTAAGTATAT
1652660 TGGTAAAATAAGCTTACGAGCTTA
1 TGGTAAAATAAGCTTACGAGCTTA
* * ** *
1652684 TGGTACAAAT---CGTA-AATATTT
1 TGGTA-AAATAAGCTTACGAGCTTA
1652705 TGGTAAAATAAGCTTACGAGCTTA
1 TGGTAAAATAAGCTTACGAGCTTA
1652729 TGGT
1 TGGT
1652733 TAATAAATGG
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 4 0.12
21 8 0.24
22 3 0.09
23 3 0.09
24 12 0.35
25 4 0.12
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.33
Consensus pattern (24 bp):
TGGTAAAATAAGCTTACGAGCTTA
Found at i:1652732 original size:45 final size:43
Alignment explanation
Indices: 1652577--1652731 Score: 195
Period size: 44 Copynumber: 3.5 Consensus size: 43
1652567 GTAAGCATGC
* * *
1652577 AAATAAGCTTACGAGCTTATGAAATAATGGAAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAATGTAAA-TATATTGGTA
* * *
1652621 AAATAAGCTTTCGGGCTTATGGAATAATTGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAA-TGTAAATATATTGGTA
*
1652665 AAATAAGCTTACGAGCTTATGGTACA-AATCGTAAATATTTTGGTA
1 AAATAAGCTTACGAGCTTATGG-A-ATAAT-GTAAATATATTGGTA
1652710 AAATAAGCTTACGAGCTTATGG
1 AAATAAGCTTACGAGCTTATGG
1652732 TTAATAAATG
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
44 54 0.56
45 42 0.43
46 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (43 bp):
AAATAAGCTTACGAGCTTATGGAATAATGTAAATATATTGGTA
Found at i:1653089 original size:19 final size:19
Alignment explanation
Indices: 1653067--1653111 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
1653057 GAATTTTTAT
1653067 GAATTTATATGTATTTTCG
1 GAATTTATATGTATTTTCG
1653086 GAATTTATATGTATTTTCG
1 GAATTTATATGTATTTTCG
1653105 GAATTTA
1 GAATTTA
1653112 CTGTAGCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (19 bp):
GAATTTATATGTATTTTCG
Found at i:1653747 original size:25 final size:25
Alignment explanation
Indices: 1653713--1653764 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
1653703 GTTTAATGAC
*
1653713 AACACATGGTATTAGGTGGCTTTAA
1 AACACATGGTATTAGGTGGATTTAA
1653738 AACACATGGTATTAGGTGGATTTAA
1 AACACATGGTATTAGGTGGATTTAA
1653763 AA
1 AA
1653765 GGTTATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (25 bp):
AACACATGGTATTAGGTGGATTTAA
Found at i:1654139 original size:33 final size:32
Alignment explanation
Indices: 1654097--1654159 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
1654087 GTTTTAGTAT
1654097 TTAAAATAATATAATTTCATAGAGATCTTAATG
1 TTAAAATAAT-TAATTTCATAGAGATCTTAATG
* * *
1654130 TTAAAATAATTAATTTTATATAGATTTTAA
1 TTAAAATAATTAATTTCATAGAGATCTTAA
1654160 GGTGTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (32 bp):
TTAAAATAATTAATTTCATAGAGATCTTAATG
Found at i:1656843 original size:131 final size:131
Alignment explanation
Indices: 1656621--1656990 Score: 467
Period size: 131 Copynumber: 2.8 Consensus size: 131
1656611 ATAATTTTGA
* * *
1656621 GAGAGAAAACGATAATATCTAATTATTTCCTATCGAGAATAAATGACCT-TTCATGCCTTAAAAC
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATGACCTCTT-ATGCCTTAAAGC
* * * *
1656685 AATCATTTATTACTCCAATCGAAATGAAGAGATATCATTATT-TCGTCTTAAAATTAAATATCGA
65 AATCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTCT-ATCTTAAAAATAAATATCGA
1656749 TTC
129 TTC
* * * * * * *
1656752 GAGTGAAAACAATAATATCTAATGATTTTCAATCAAGAATAAATGGCCTCTTATACCTTAAAGTA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATGACCTCTTATGCCTTAAAGCA
* * *
1656817 ATCATTTATTGCTCCAATCAAAATGAAGAGATATCACTATTCTATCTTAAAAATCAATATTGATT
66 ATCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTCTATCTTAAAAATAAATATCGATT
1656882 C
131 C
* * * * *
1656883 GAGAGAAAATGGTAATATCGAATTATTTCCAAT-AGAGAATAAATGACATCTCATGCCTTAAAGC
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCA-AGAATAAATGACCTCTTATGCCTTAAAGC
* * *
1656947 AATTATTTATTACTCCAATCAAAATGAAAAGATATTACTATTCT
65 AATCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTCT
1656991 CAATATCGAT
Statistics
Matches: 203, Mismatches: 33, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
130 1 0.00
131 199 0.98
132 3 0.01
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (131 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCAAGAATAAATGACCTCTTATGCCTTAAAGCA
ATCATTTATTACTCCAATCAAAATGAAGAGATATCACTATTCTATCTTAAAAATAAATATCGATT
C
Found at i:1659764 original size:23 final size:23
Alignment explanation
Indices: 1659730--1659797 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
1659720 CACCACAGCT
*
1659730 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
1659753 CGTAGAATTGCACCGAAGTGTCG
1 CGTAGAAATGCACCGAAGTGCCA
*
1659776 CGTAGAAATGCACTGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1659798 CTATAAAATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1661787 original size:11 final size:11
Alignment explanation
Indices: 1661761--1661800 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
1661751 AGGGCGTCCT
*
1661761 AAGAAGAAGTAA
1 AAGAA-AAGAAA
1661773 AAGAAAAGAAA
1 AAGAAAAGAAA
1661784 AAGAAAAGAAA
1 AAGAAAAGAAA
1661795 AAGAAA
1 AAGAAA
1661801 GAACGTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:1661796 original size:17 final size:17
Alignment explanation
Indices: 1661761--1661800 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1661751 AGGGCGTCCT
*
1661761 AAGAAGAAGTAAAAGAA
1 AAGAAAAAGTAAAAGAA
1661778 AAGAAAAAG-AAAAGAAA
1 AAGAAAAAGTAAAAG-AA
1661795 AAGAAA
1 AAGAAA
1661801 GAACGTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (17 bp):
AAGAAAAAGTAAAAGAA
Found at i:1661882 original size:15 final size:14
Alignment explanation
Indices: 1661840--1661887 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
1661830 GCCCTAAATT
*
1661840 GAAAAAAGGAAAAA
1 GAAAAAAAGAAAAA
1661854 GAAAAAAAGAAAAA
1 GAAAAAAAGAAAAA
1661868 GAAAAGAATAG-AAAA
1 GAAAA-AA-AGAAAAA
1661883 GAAAA
1 GAAAA
1661888 TAAGGTGGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 18 0.58
15 11 0.35
16 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (14 bp):
GAAAAAAAGAAAAA
Found at i:1662800 original size:65 final size:65
Alignment explanation
Indices: 1662703--1662824 Score: 208
Period size: 65 Copynumber: 1.9 Consensus size: 65
1662693 AATTTACTTG
* * *
1662703 AGATTGGATTTCAACTTCATAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAAACTTACTCA
1 AGATTGGATTTCAACTTCACAACAAAGGATATCCAACTCAAAACCAATTTGGTGAAACTTACTCA
*
1662768 AGATTGGATTTCAACTTCACGACAAAGGATATCCAACTCAAAACCAATTTGGTGAAA
1 AGATTGGATTTCAACTTCACAACAAAGGATATCCAACTCAAAACCAATTTGGTGAAA
1662825 TAACCTTTGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (65 bp):
AGATTGGATTTCAACTTCACAACAAAGGATATCCAACTCAAAACCAATTTGGTGAAACTTACTCA
Found at i:1663100 original size:20 final size:20
Alignment explanation
Indices: 1663075--1663113 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1663065 TTTTCAAGGG
1663075 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
1663095 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
1663114 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:1663182 original size:45 final size:46
Alignment explanation
Indices: 1663133--1663223 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
1663123 GAACATCGAA
* *
1663133 TGCATTTTATACATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATACATCGATGCACAAGACCATGCATCGATGCACTCAG
* *
1663178 TGCATTTGATGCATCGATGCACAAGACTATGCATCGATGCACTCAG
1 TGCATTTGATACATCGATGCACAAGACCATGCATCGATGCACTCAG
1663224 GCTTTTTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 20 0.49
46 21 0.51
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (46 bp):
TGCATTTGATACATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:1669522 original size:192 final size:194
Alignment explanation
Indices: 1669195--1669581 Score: 760
Period size: 192 Copynumber: 2.0 Consensus size: 194
1669185 TCCCTCTCTC
1669195 ACTCTAAATCATACTCTTGCTCAAAATCATCAGAAAATCATCGGTTTCTTCGTTCTTTTCATCTT
1 ACTCTAAATCATACTCTTGCTCAAAATCATCAGAAAATCATCGGTTTCTTCGTTCTTTTCATCTT
1669260 CAAAACCTGCTTATATCATTAAATCATGCAAATCAACTCCTCATCCCTCTCAATCTGAATTTTCA
66 CAAAACCTGCTTATATCATTAAATCATGCAAATCAACTCCTCATCCCTCTCAATCTGAATTTTCA
1669325 AGGTAATATTCAAAAACCTCTATTTTATTGA-TTTTGATTTTAGAACTAGTTTTGATT-GTTCT
131 AGGTAATATTCAAAAACCTCTATTTTATTGATTTTTGATTTTAGAACTAGTTTTGATTAGTTCT
1669387 ACTCTAAATCATACTCTTGCTCAAAATCATCAGAAAATCATCGGTTTCTTCGTTCTTTTCATCTT
1 ACTCTAAATCATACTCTTGCTCAAAATCATCAGAAAATCATCGGTTTCTTCGTTCTTTTCATCTT
1669452 CAAAACCTGCTTATATCATTAAATCATGCAAATCAACTCCTCATCCCTCTCAATCTGAATTTTCA
66 CAAAACCTGCTTATATCATTAAATCATGCAAATCAACTCCTCATCCCTCTCAATCTGAATTTTCA
1669517 AGGTAATATTCAAAAACCTCTATTTTATTGATTTTTGATTTTAGAACTAGTTTTGATTAGTTCT
131 AGGTAATATTCAAAAACCTCTATTTTATTGATTTTTGATTTTAGAACTAGTTTTGATTAGTTCT
1669581 A
1 A
1669582 GGATGAACAT
Statistics
Matches: 193, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
192 161 0.83
193 26 0.13
194 6 0.03
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.40
Consensus pattern (194 bp):
ACTCTAAATCATACTCTTGCTCAAAATCATCAGAAAATCATCGGTTTCTTCGTTCTTTTCATCTT
CAAAACCTGCTTATATCATTAAATCATGCAAATCAACTCCTCATCCCTCTCAATCTGAATTTTCA
AGGTAATATTCAAAAACCTCTATTTTATTGATTTTTGATTTTAGAACTAGTTTTGATTAGTTCT
Found at i:1670786 original size:21 final size:21
Alignment explanation
Indices: 1670744--1670787 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1670734 ACTCCGGGAG
* *
1670744 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
1670765 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
1670786 CT
1 CT
1670788 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:1674951 original size:18 final size:17
Alignment explanation
Indices: 1674927--1674967 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
1674917 TCTTAATTTC
* *
1674927 TTTTTTTTCATTTTCAT
1 TTTTTTTTAATTTTAAT
1674944 TATTTTTTTAATTTTAAT
1 T-TTTTTTTAATTTTAAT
1674962 TTTTTT
1 TTTTTT
1674968 AATTTTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTTTAATTTTAAT
Found at i:1674963 original size:15 final size:15
Alignment explanation
Indices: 1674945--1674973 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1674935 CATTTTCATT
1674945 ATTTTTTTAATTTTA
1 ATTTTTTTAATTTTA
1674960 ATTTTTTTAATTTT
1 ATTTTTTTAATTTT
1674974 TACTTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTTTAATTTTA
Found at i:1674974 original size:16 final size:16
Alignment explanation
Indices: 1674945--1674989 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
1674935 CATTTTCATT
1674945 ATTTTTTTAA-TTTTA
1 ATTTTTTTAATTTTTA
1674960 ATTTTTTTAATTTTTA
1 ATTTTTTTAATTTTTA
*
1674976 CTTTTCTTT-ATTTT
1 ATTTT-TTTAATTTT
1674990 ATTTCCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 10 0.37
16 14 0.52
17 3 0.11
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTTTAATTTTTA
Found at i:1674980 original size:15 final size:15
Alignment explanation
Indices: 1674947--1674990 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1674937 TTTTCATTAT
*
1674947 TTTTTTAATTTTAAT
1 TTTTTTAATTTTAAC
*
1674962 TTTTTTAATTTTTAC
1 TTTTTTAATTTTAAC
*
1674977 TTTTCTTTATTTTA
1 TTTT-TTAATTTTA
1674991 TTTCCTTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTTAATTTTAAC
Found at i:1675812 original size:48 final size:48
Alignment explanation
Indices: 1675749--1675841 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
1675739 AGATCATCAC
* *
1675749 CACCTCAGATCACAACCAATTCTGACTCAAGGCGATTTCAATCAATTT
1 CACCTCAAATCACAACCAATTCCGACTCAAGGCGATTTCAATCAATTT
* * * * *
1675797 CACCTCAAATTACAACCAGTTCCGGCTTAAGTCGATTTCAATCAA
1 CACCTCAAATCACAACCAATTCCGACTCAAGGCGATTTCAATCAA
1675842 CTTTAAAGAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (48 bp):
CACCTCAAATCACAACCAATTCCGACTCAAGGCGATTTCAATCAATTT
Found at i:1677996 original size:21 final size:21
Alignment explanation
Indices: 1677966--1678028 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
1677956 GTCGAGGGTT
*
1677966 TCATAGGTCCTTCGGGACAAC
1 TCATAAGTCCTTCGGGACAAC
**
1677987 TCATAAGTCCTTCGATACATAC
1 TCATAAGTCCTTCGGGACA-AC
* * *
1678009 TCACAAGTCTTTCAGGACAA
1 TCATAAGTCCTTCGGGACAA
1678029 TTTCATATGC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (21 bp):
TCATAAGTCCTTCGGGACAAC
Found at i:1683889 original size:21 final size:20
Alignment explanation
Indices: 1683851--1683889 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1683841 ATGTCATATA
1683851 AAGAATAGGATTTTGAGTTT
1 AAGAATAGGATTTTGAGTTT
1683871 AAGAA-AGTGATTATTGAGT
1 AAGAATAG-GATT-TTGAGT
1683890 AGGAATGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 9 0.53
21 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (20 bp):
AAGAATAGGATTTTGAGTTT
Found at i:1684756 original size:22 final size:21
Alignment explanation
Indices: 1684711--1684768 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
1684701 AGGGTTTCAT
* *
1684711 AGGTCCTT-AGGACAACTCAT
1 AGGTCCTTCGGGACAACTCAC
1684731 AGGTCCTTCGGGACATACTCAC
1 AGGTCCTTCGGGACA-ACTCAC
*
1684753 AGGTCATTCGGGACAA
1 AGGTCCTTCGGGACAA
1684769 TTTCATATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.24
21 6 0.18
22 19 0.58
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (21 bp):
AGGTCCTTCGGGACAACTCAC
Found at i:1687176 original size:2 final size:2
Alignment explanation
Indices: 1687169--1687196 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1687159 CACCTTAAAT
1687169 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1687197 ACGAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1690117 original size:29 final size:29
Alignment explanation
Indices: 1690075--1690132 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
1690065 AGCCCACATG
1690075 TGTCTTCATATTATTAGAAGATTAAATAT
1 TGTCTTCATATTATTAGAAGATTAAATAT
1690104 TGTCTTCATATTATTAGAAGATTAAATAT
1 TGTCTTCATATTATTAGAAGATTAAATAT
1690133 ATTGAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (29 bp):
TGTCTTCATATTATTAGAAGATTAAATAT
Found at i:1692065 original size:21 final size:21
Alignment explanation
Indices: 1692039--1692083 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1692029 AGATTGTTGC
*
1692039 CAGGGTACCGATACTCTACTA
1 CAGGGTACCGATACCCTACTA
*
1692060 CAGGGTACCGATACCCTGCTA
1 CAGGGTACCGATACCCTACTA
1692081 CAG
1 CAG
1692084 TACTGCTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (21 bp):
CAGGGTACCGATACCCTACTA
Found at i:1697594 original size:3 final size:3
Alignment explanation
Indices: 1697586--1697634 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
1697576 ATCTACAAAA
1697586 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1697633 TA
1 TA
1697635 AATTTTAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1698512 original size:2 final size:2
Alignment explanation
Indices: 1698507--1698550 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
1698497 CCTAAGATGT
* * *
1698507 TA TA TA TA TA TA TA TA TA AA CA TA TA TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1698549 TA
1 TA
1698551 AGGTATAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1703862 original size:59 final size:59
Alignment explanation
Indices: 1703403--1703854 Score: 694
Period size: 59 Copynumber: 7.7 Consensus size: 59
1703393 CTTATGGAAG
* * * ** * *
1703403 TTCATACACTTAGTATTAGTTTCTTAAC-TTTTTGCACATAAAGTG-TCTAATATAGAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT-ATACAGAAA
* * *
1703461 TTCATACATTTCGTATGAATTTCTTAACATTTTAGCACACGAAGAGCCCTATACAGAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAA
* * **
1703520 TTCATACACTTAGTATGAATTTCTTAACATCTTAGCACATGAAGTGCCCTATATGGAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAA
* * *
1703579 TCCATACACTTAGTATGTATTTCTTAACATCTTAGCACACGAAGTGCCCTATACAGAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAA
1703638 TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAA
*
1703697 TTCATTCACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATA-AGAAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAG-AAA
1703756 TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAA
1 TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAA
*
1703815 TTAATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
1 TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
1703855 TTAGTGCCAT
Statistics
Matches: 362, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
58 26 0.07
59 332 0.92
60 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (59 bp):
TTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACAGAAA
Found at i:1704344 original size:74 final size:75
Alignment explanation
Indices: 1704222--1704362 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 75
1704212 ACTTCTATAT
* ** * * *
1704222 TATGGTACCGATACCCCCTTCCGGTATTGATACTAAATTTAGGTTCGATGTTTCTTGGTATCGAT
1 TATGGTACCAATACCCCCTTCCGGTATCAATACCAAATTTAGATTCGATGTTGCTTGGTATCGAT
1704287 ACTATAATAC
66 ACTATAATAC
*
1704297 TATGGTACCAATA-CCCCTTTCGGTATCAATACCAAATTTAGATTCGATGTTGCTTGGTATCGAT
1 TATGGTACCAATACCCCCTTCCGGTATCAATACCAAATTTAGATTCGATGTTGCTTGGTATCGAT
1704361 AC
66 AC
1704363 CCTTACCATG
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
74 47 0.80
75 12 0.20
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (75 bp):
TATGGTACCAATACCCCCTTCCGGTATCAATACCAAATTTAGATTCGATGTTGCTTGGTATCGAT
ACTATAATAC
Found at i:1706308 original size:27 final size:27
Alignment explanation
Indices: 1706270--1706330 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
1706260 GTAAGAACAT
* *
1706270 GCAATGGATCTGGTCATAATTTAATAA
1 GCAATGGATCTGATCAGAATTTAATAA
1706297 GCAATGGATCTGATCAGAATTTAATAA
1 GCAATGGATCTGATCAGAATTTAATAA
*
1706324 GTAATGG
1 GCAATGG
1706331 CACATGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (27 bp):
GCAATGGATCTGATCAGAATTTAATAA
Found at i:1710114 original size:16 final size:16
Alignment explanation
Indices: 1710093--1710123 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1710083 TCGAGAAAAC
*
1710093 ATACATCAGCACATAT
1 ATACATCAACACATAT
1710109 ATACATCAACACATA
1 ATACATCAACACATA
1710124 CATATATGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.26, G:0.03, T:0.23
Consensus pattern (16 bp):
ATACATCAACACATAT
Found at i:1711100 original size:134 final size:131
Alignment explanation
Indices: 1710792--1711149 Score: 446
Period size: 134 Copynumber: 2.7 Consensus size: 131
1710782 CCAGTTGTCA
* * * * * *
1710792 TCATCGCGTAGGAACCGTGTCATCCTCCTACCAGACCTCCTCATCACATAGGAGCCATGTCACCC
1 TCATCGCGTAGGAACCGTGTCATCCACCAACCAGACCTCCTCATCACGTAGGAGTCGTGTAACCC
**
1710857 CTAGATAACCAGTCCTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCATGTCATC
66 CTAGATAACCAGTCCTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCATACCATC
*
1710922 T
131 C
* * * * *
1710923 TCATCACCTAGGAACCGTGTCATCCACCGACCAGGCCTCCTCATCACGTAGGAGTCGTGTAACTC
1 TCATCGCGTAGGAACCGTGTCATCCACCAACCAGACCTCCTCATCACGTAGGAGTCGTGTAACCC
* * * *
1710988 CTAGATAGCCAGTCGTCCTCATCATGTAGGAACCGTGTTATCACACTCCCTAAAGATGGCCTACC
66 CTAGATAACCAGTCCTCCTCATCACGTAGGAACCGTGTTAT--CA-TCCCTAAAGATGGCATACC
1711053 ATCC
128 ATCC
* * *
1711057 TCATCGCGTAGGAACCGTGTCATCCACCAACCATATCTCCTCATCACGTAGGAGTCGTGTCACCC
1 TCATCGCGTAGGAACCGTGTCATCCACCAACCAGACCTCCTCATCACGTAGGAGTCGTGTAACCC
* ** ** *
1711122 TTAGACGACCAGAACTCTTCATCACGTA
66 CTAGATAACCAGTCCTCCTCATCACGTA
1711150 TGAGTAGTGT
Statistics
Matches: 190, Mismatches: 34, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
131 93 0.49
133 2 0.01
134 95 0.50
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.24
Consensus pattern (131 bp):
TCATCGCGTAGGAACCGTGTCATCCACCAACCAGACCTCCTCATCACGTAGGAGTCGTGTAACCC
CTAGATAACCAGTCCTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCATACCATC
C
Found at i:1714055 original size:41 final size:41
Alignment explanation
Indices: 1714010--1714091 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
1714000 AAGAGAGAAC
1714010 TTATCAGTTCAGTTTTGGTACATTCGTGTATAAATGTTCAG
1 TTATCAGTTCAGTTTTGGTACATTCGTGTATAAATGTTCAG
* *
1714051 TTATCAGTTCAGTTTTGGTACATTTGTGTATCAATGTTCAG
1 TTATCAGTTCAGTTTTGGTACATTCGTGTATAAATGTTCAG
1714092 CACCGTTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (41 bp):
TTATCAGTTCAGTTTTGGTACATTCGTGTATAAATGTTCAG
Found at i:1716026 original size:19 final size:20
Alignment explanation
Indices: 1716002--1716039 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1715992 TGATAATGAT
1716002 TTGATTTT-GAAAACAAAAG
1 TTGATTTTGGAAAACAAAAG
1716021 TTGATTTTGGAAAACAAAA
1 TTGATTTTGGAAAACAAAA
1716040 TGAAACTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.32
Consensus pattern (20 bp):
TTGATTTTGGAAAACAAAAG
Found at i:1731470 original size:28 final size:29
Alignment explanation
Indices: 1731420--1731480 Score: 115
Period size: 28 Copynumber: 2.1 Consensus size: 29
1731410 CGTGAGAAAA
1731420 TTATCCACGAACGCATGATCTTGTTTCTG
1 TTATCCACGAACGCATGATCTTGTTTCTG
1731449 TTATCCACGAA-GCATGATCTTGTTTCTG
1 TTATCCACGAACGCATGATCTTGTTTCTG
1731477 TTAT
1 TTAT
1731481 TGTGAAAGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.41
Consensus pattern (29 bp):
TTATCCACGAACGCATGATCTTGTTTCTG
Found at i:1733237 original size:22 final size:22
Alignment explanation
Indices: 1733212--1733253 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1733202 TCACAAATTA
1733212 TTAAATTTAAA-ATTATATTTTG
1 TTAAA-TTAAAGATTATATTTTG
*
1733234 TTAAATTAAAGTTTATATTT
1 TTAAATTAAAGATTATATTT
1733254 AGATTTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
TTAAATTAAAGATTATATTTTG
Found at i:1736463 original size:153 final size:147
Alignment explanation
Indices: 1736127--1736427 Score: 449
Period size: 153 Copynumber: 2.0 Consensus size: 147
1736117 ACTTGAGGAG
* *
1736127 ATAACAAGGCAAAAACAAGGTTTAAGAGAGATGTTTAAGTTAAAGGTCAGTATTTTATAATTAGT
1 ATAACAAGGCAAAAACAAGGATT-ACAGAGATGTTTAAGTTAAAGGTCAGTATTTTATAATTAGT
1736192 TAATACAGTTACTGATTACTCAAATATAACAATATTATGATTTTTTTTTCAATTTTTAAATAAGT
65 TAATACAGTTACTGATTACTCAAATATAACAATATTATGATTTTTTTTTCAATTTTTAAATAAGT
1736257 TAAATATGTTATGATTTT
130 TAAATATGTTATGATTTT
* *
1736275 AGGAGATAACAAGGCAAAAACAAGGTTTAAGAGAGATGTTTAAGTTAAAGGTCAGTATTTTATAA
1 -----ATAACAAGGCAAAAACAAGGATT-ACAGAGATGTTTAAGTTAAAGGTCAGTATTTTATAA
1736340 TTAGTTAATACAGTTACTGATTACTCAAATATAACAATATTTAATGATTTTATTTGTTCCAATTT
60 TTAGTTAATACAGTTACTGATTACTCAAATATAACAATA-TT-ATGATTTT-TTT-TT-CAATTT
1736405 TTAAATAAGTTAAATTATGTTAT
120 TTAAATAAGTTAAA-TATGTTAT
1736428 TGAGTTTTTT
Statistics
Matches: 142, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
153 99 0.70
154 2 0.01
155 8 0.06
156 3 0.02
157 2 0.01
158 20 0.14
159 8 0.06
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (147 bp):
ATAACAAGGCAAAAACAAGGATTACAGAGATGTTTAAGTTAAAGGTCAGTATTTTATAATTAGTT
AATACAGTTACTGATTACTCAAATATAACAATATTATGATTTTTTTTTCAATTTTTAAATAAGTT
AAATATGTTATGATTTT
Found at i:1752015 original size:20 final size:23
Alignment explanation
Indices: 1751969--1752015 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1751959 TCAGGTAACA
*
1751969 TAGATTTAGGTAATACATGATAT
1 TAGATTTAGGTAATACATGAGAT
1751992 TAGATTTAGGT-A-ACAT-AGAT
1 TAGATTTAGGTAATACATGAGAT
1752012 TAGA
1 TAGA
1752016 AAATAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 4 0.17
22 1 0.04
23 11 0.48
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.36
Consensus pattern (23 bp):
TAGATTTAGGTAATACATGAGAT
Found at i:1753546 original size:54 final size:53
Alignment explanation
Indices: 1753462--1753742 Score: 305
Period size: 54 Copynumber: 5.2 Consensus size: 53
1753452 ACTATAAGCT
* * * *
1753462 CTAAGTGTGAAACCCATGGAATTCACCATATGTTGATGAGCGACCGTATAGGCA
1 CTAAGTGTGCAACCCA-GAAATTCATCATATGTTGATGAACGACCGTATAGGCA
* *
1753516 CTAAGTGTGCAACCCATGAAATTCATCATATGTTGATGAATGATCGTATAGGCA
1 CTAAGTGTGCAACCCA-GAAATTCATCATATGTTGATGAACGACCGTATAGGCA
* * * * * * **
1753570 CTATGTATGTAACCAACAG-AATTCATAATATGATT-ATAAACAACTATATAGGCA
1 CTAAGTGTGCAACC--CAGAAATTCATCATATG-TTGATGAACGACCGTATAGGCA
*
1753624 CTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCGTATAGGCA
1 CTAAGTGTGCAACCCAGA-AATTCATCATATGTTGATGAACGACCGTATAGGCA
* * **
1753678 GTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAAATACCGTATAGGCA
1 CTAAGTGTGCAACCCA-GAAATTCATCATATGTTGATGAACGACCGTATAGGCA
*
1753732 CTACGTGTGCA
1 CTAAGTGTGCA
1753743 TCTCAAAGAA
Statistics
Matches: 189, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.01
53 2 0.01
54 179 0.95
55 4 0.02
56 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (53 bp):
CTAAGTGTGCAACCCAGAAATTCATCATATGTTGATGAACGACCGTATAGGCA
Found at i:1760296 original size:54 final size:54
Alignment explanation
Indices: 1760237--1760679 Score: 660
Period size: 54 Copynumber: 8.2 Consensus size: 54
1760227 CTATGTGTAC
* *
1760237 TATAGGCACTAAGTGAGCAACCCACGAAATTCATCATATGTTGATAAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
1760291 TATAGGCACTAAGTGTGCAACCCACTG-AATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCAC-GAAATTCATCATATGTTGATGAACGACCG
* * * *
1760345 TATAGGCGCTAAGTGTGCAACCCAC-ATAATTCATAATATGTTTATGAACGACTG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGACCG
* *
1760399 TATATGCACTAAGTGTGCAACCCAC-AGAATTCATCATATGTTGATAAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGACCG
* * * *
1760453 TATAGGCACTAAGTGTGCAATCAAC-ATAATTCATAATATGTTTATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGACCG
* *
1760507 TATAGGCACTAAGTATGCAACCCACGAAATTCATCATATGTTGATGAACGATCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * *
1760561 TATAGGCACTAGGTGTACAACCCACGAAATTCATCATATGTTGATGAACGATCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
*
1760615 TATAGGCACTAAGTGTGCAACCCAAGAAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
1760669 TATAGGCACTA
1 TATAGGCACTA
1760680 CTTATGCATC
Statistics
Matches: 352, Mismatches: 33, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
54 350 0.99
55 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
Found at i:1772054 original size:131 final size:131
Alignment explanation
Indices: 1771919--1772277 Score: 432
Period size: 131 Copynumber: 2.7 Consensus size: 131
1771909 GAGAATAGAA
* * * *
1771919 ATATCTTTTCATTTCGATTGGAGTAATAAATGACTACTCTAAGGTATGAGAGGTTAATTATTTTC
1 ATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTTAATTATTCTC
* * * * * * *
1771984 GATTGGAAATAATTCGATATTATAATTCTCTCTCGAATTAATATTGATTTTTAAGATGGAATATT
66 GATTAGAAATAATTAGATATTATAATTCTCACTCGAATCAATATTGAATTTTAAGACGGAATAGT
1772049 G
131 G
* * * *
1772050 ATATCTCTTAATTTCGATTGGGGCAATAAATGATTGCTTTAAGGTATGAGAGG-TAATTTATTCT
1 ATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTTAA-TTATTCT
** * * ** * * *
1772114 ATATTTGAAATCATTAGATATTATCGTTTTCACTCTAATCGATATTGAATTTTAAGACGGAATAG
65 CGATTAGAAATAATTAGATATTATAATTCTCACTCGAATCAATATTGAATTTTAAGACGGAATAG
1772179 TG
130 TG
* * *
1772181 ATATCTCTTCATTTCGATTGGTGTAATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCTC
1 ATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTTAATTATTCTC
* * *
1772246 GATTAAAAATAATTAGATATTATCATTTTCAC
66 GATTAGAAATAATTAGATATTATAATTCTCAC
1772278 ACTTAAAATT
Statistics
Matches: 191, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
130 3 0.02
131 187 0.98
132 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.41
Consensus pattern (131 bp):
ATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTTAATTATTCTC
GATTAGAAATAATTAGATATTATAATTCTCACTCGAATCAATATTGAATTTTAAGACGGAATAGT
G
Found at i:1776215 original size:2 final size:2
Alignment explanation
Indices: 1776208--1776238 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1776198 CACCTGTATG
1776208 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1776239 CCTCTCGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1777023 original size:54 final size:54
Alignment explanation
Indices: 1776941--1777333 Score: 538
Period size: 54 Copynumber: 7.3 Consensus size: 54
1776931 CGTAGTACCG
* * * * * * * *
1776941 ATACGGTAATTCACAAACTCACTATGAATTACGTAGGGTACACACATAGTGCCA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
*
1776995 ATACGGAAATTCATAAAC-AATTTATGAATTTCTTAGGTTGCACACATAGTGCCA
1 ATACGGAAATTCATAAACTTA-TTATGAATTTCTTAGGTTGCACACATAGTGCCA
* * *
1777049 ATATGAAAATTCATAAACTTATTATGAATTTCTTCGGTTGCACACATAGTGCCA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
* * * **
1777103 ATACGTAAATTCATAAACTTATTATGAATTTCTTAGGTTGTACA-ATAATGTTA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
* * * *
1777156 ATACGAAAATTCATAAAATTATTATGAATTTCATAGGCTGCACACATAGTGCCA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
*
1777210 ATAAGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
*
1777264 ATATGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
*
1777318 ATACGGTAAATGCATA
1 ATACGG-AAATTCATA
1777334 TATGACTCTC
Statistics
Matches: 300, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
53 46 0.15
54 245 0.82
55 9 0.03
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (54 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
Found at i:1777266 original size:161 final size:161
Alignment explanation
Indices: 1776994--1777303 Score: 523
Period size: 161 Copynumber: 1.9 Consensus size: 161
1776984 ACATAGTGCC
* * * *
1776994 AATACGGAAATTCATAAACAATTTATGAATTTCTTAGGTTGCACACATAGTGCCAATATGAAAAT
1 AATACGAAAATTCATAAACAATTTATGAATTTCATAGGCTGCACACATAGTGCCAATAAGAAAAT
* *
1777059 TCATAAACTTATTATGAATTTCTTCGGTTGCACACATAGTGCCAATACGTAAATTCATAAACTTA
66 TCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTA
1777124 TTATGAATTTCTTAGGTTGTACAATAATGTT
131 TTATGAATTTCTTAGGTTGTACAATAATGTT
* *
1777155 AATACGAAAATTCATAAA-ATTATTATGAATTTCATAGGCTGCACACATAGTGCCAATAAGGAAA
1 AATACGAAAATTCATAAACAAT-TTATGAATTTCATAGGCTGCACACATAGTGCCAATAAGAAAA
*
1777219 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATATGGAAATTCATAAACTT
65 TTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTT
1777284 ATTATGAATTTCTTAGGTTG
130 ATTATGAATTTCTTAGGTTG
1777304 CACACATAGT
Statistics
Matches: 139, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
160 2 0.01
161 137 0.99
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (161 bp):
AATACGAAAATTCATAAACAATTTATGAATTTCATAGGCTGCACACATAGTGCCAATAAGAAAAT
TCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTTA
TTATGAATTTCTTAGGTTGTACAATAATGTT
Found at i:1784632 original size:731 final size:731
Alignment explanation
Indices: 1783510--1784953 Score: 2041
Period size: 731 Copynumber: 2.0 Consensus size: 731
1783500 ATGAACATTC
* * * * * * *
1783510 AAGTATGATGCCTATTGAGATGCAAGCTTATGAGGATTCAGCCCACTGCTATAGCATATATGAAT
1 AAGTATGACGCCTATTGAGATACAAGCTTATGAGGATCCAACCCACTGCTATAGCATAGAAGAAG
* *
1783575 AAGAGGATGGAAATCCCAGGTATTATGATATCCTCCAATACATCAGATATCAAAGCTACACTGAG
66 AAGAGGATGAAAATCCCAGGTATTATGATATCCTCCAATACATCAGATAGCAAAGCTACACTGAG
* ** * * **
1783640 CAGGAAACTTAGAATGACAAAAGAATTATTCGAAGAATGGTTGTAGGATATGCGCTTGATGGAGA
131 CAGGAAACTGAGAATGACAAAAGAACGATTCAAAGAATGGGTACAGGATATGCGCTTGATGGAGA
** *
1783705 GATCTTGTGTAAGAAAGGTCATCATAAGGTTTTATTGAGGTGTGTGGATGCTAGAGAAGCTAAAA
196 GATCTTGTACAAGAAAGGTCATCATAAGGTTTTATTGAGGTGTGTGGATGCCAGAGAAGCTAAAA
** * *
1783770 CGATCATTGAAGAAGTGCATAGGGGAGTATGTGGTACTCATACTATTAGACATACAATGGCTAGA
261 CGATCATTGAAGAAGTAAATAGGGGAGTATGTGGTACCCATACTAATAGACATACAATGGCTAGA
* *
1783835 CAAATAATGAGATTTGGGTATTACCGATCAATCATGAAAACAAATTGTATCAATTATGAAAGAAA
326 CAAATAATGAGATTTGGGTATTACCAATCAACCATGAAAACAAATTGTATCAATTATGAAAGAAA
*
1783900 ATGTCACAAGTGCCAGATTTATGGAGACAAGCTCCATACCCCTCCTCATCCATTACACATAATGA
391 ATGTCACAAGTGCCAGATTTATGGAGACAAACTCCATACCCCTCCTCATCCATTACACATAATGA
* *
1783965 TTGCTCCGTGGCCATTCTCTATGTGGGG-AATGAATGACATTGGGAAAATTTCGCCCAAAACTTC
456 ATGCTCCGTGGCCATTCTCTATGTGGGGTAATGAATGACATTGGGAAAATTTCACCCAAAACTTC
* * *
1784029 CAATGGTCATCGTTTTATATTGGTAGTAATAGACTACTACACTAAGTGGGTTGAAGTGACTTCCT
521 CAATGGTCATCGTTTCATATTGGTAGTAATAGACTACTACACTAAGTGGGTAGAAGAGACTTCCT
* * * * *
1784094 ATGCAAATATCACTCAGTCAACAGTTTGCAAGTTCTTAAAGAAA-GAGATTATATACCAGTATGG
586 ATGCAAATATCACCCAGTCAACAATCTACAAATTCTTAAAGAAATG-GATTATATACCA-TATGG
* *
1784158 GTTACCCGAAAGGATCATCACCGACAAGGCATTGAATTTAAATAATAAAATAATGAAATCAGTAT
649 GTTACCCGAAAGGATCATCACCAACAAGGCATTGAATTTAAACAATAAAATAATGAAATCAGTAT
1784223 AGAATCAATATTTAAAGA
714 AGAATCAATATTTAAAGA
* * * *
1784241 AAGTATGACGCCTATTGATATATAAGCTTATGAGTATCCAACCCACTGCTATAGCATAGAAGAGG
1 AAGTATGACGCCTATTGAGATACAAGCTTATGAGGATCCAACCCACTGCTATAGCATAGAAGAAG
* * * *
1784306 AAGAGGATGAAAATCTCATGTATTATGATATCCTGCAATACATTAGATAGCAAAGCTATC-CTGA
66 AAGAGGATGAAAATCCCAGGTATTATGATATCCTCCAATACATCAGATAGCAAAGCTA-CACTGA
* * * * *
1784370 GCATGCAACTGAGAATGATAAAAGAACGATTCAAAGAATGGGTACAGGATATGTGCTTGATGGTG
130 GCAGGAAACTGAGAATGACAAAAGAACGATTCAAAGAATGGGTACAGGATATGCGCTTGATGGAG
* * * * **
1784435 AGATCTTGTACAAGAAAGGTCGTGATCAGGTTTTGTTGAGGTGTGTGTTTGCCAGAGAAGCTAAA
195 AGATCTTGTACAAGAAAGGTCATCATAAGGTTTTATTGAGGTGTGTGGATGCCAGAGAAGCTAAA
* * * *
1784500 ATGATTATTGAAGAAGTAAAT-GTGGGAGTATGTGGTACCCATGCTAATGGACATACAATGGCTA
260 ACGATCATTGAAGAAGTAAATAG-GGGAGTATGTGGTACCCATACTAATAGACATACAATGGCTA
* * * * * * *
1784564 TACAAATAATGAGATTTGGGTATTACTAATCGACCATGGAAATAGATTGTATCAATTATGCAAGA
324 GACAAATAATGAGATTTGGGTATTACCAATCAACCATGAAAACAAATTGTATCAATTATGAAAGA
*
1784629 AAATGTCACAAGTGCCAGATTTATGGAGACAAACTCCATACCCCTCCTCATCCATTACACGTAAT
389 AAATGTCACAAGTGCCAGATTTATGGAGACAAACTCCATACCCCTCCTCATCCATTACACATAAT
* * * *
1784694 GAATGCTCCGTGGCCATTCTCTATGTGGGGTCATGGATGTCATTGGGAAAATTTCACCCAAATCT
454 GAATGCTCCGTGGCCATTCTCTATGTGGGGTAATGAATGACATTGGGAAAATTTCACCCAAAACT
* * *
1784759 TCCAGTGGTCATCGTTTCATATTGGTAGTAATAGACTACTTCACTAAGTTGGTAGAAGAGACTTC
519 TCCAATGGTCATCGTTTCATATTGGTAGTAATAGACTACTACACTAAGTGGGTAGAAGAGACTTC
* * ***
1784824 CTATGCAAATGTCACCCAGTCAACAATCTATAAATTCTTAAAGAAATGGATTATATGTGATATGG
584 CTATGCAAATATCACCCAGTCAACAATCTACAAATTCTTAAAGAAATGGATTATATACCATATGG
*** * * *
1784889 GTTACCCGAAAGGATCATCACCAACAATTTATTGAATTTAAACAATAAGATGATGGAATCAGTAT
649 GTTACCCGAAAGGATCATCACCAACAAGGCATTGAATTTAAACAATAAAATAATGAAATCAGTAT
1784954 GTAAATGTTC
Statistics
Matches: 622, Mismatches: 87, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
730 1 0.00
731 483 0.78
732 137 0.22
733 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (731 bp):
AAGTATGACGCCTATTGAGATACAAGCTTATGAGGATCCAACCCACTGCTATAGCATAGAAGAAG
AAGAGGATGAAAATCCCAGGTATTATGATATCCTCCAATACATCAGATAGCAAAGCTACACTGAG
CAGGAAACTGAGAATGACAAAAGAACGATTCAAAGAATGGGTACAGGATATGCGCTTGATGGAGA
GATCTTGTACAAGAAAGGTCATCATAAGGTTTTATTGAGGTGTGTGGATGCCAGAGAAGCTAAAA
CGATCATTGAAGAAGTAAATAGGGGAGTATGTGGTACCCATACTAATAGACATACAATGGCTAGA
CAAATAATGAGATTTGGGTATTACCAATCAACCATGAAAACAAATTGTATCAATTATGAAAGAAA
ATGTCACAAGTGCCAGATTTATGGAGACAAACTCCATACCCCTCCTCATCCATTACACATAATGA
ATGCTCCGTGGCCATTCTCTATGTGGGGTAATGAATGACATTGGGAAAATTTCACCCAAAACTTC
CAATGGTCATCGTTTCATATTGGTAGTAATAGACTACTACACTAAGTGGGTAGAAGAGACTTCCT
ATGCAAATATCACCCAGTCAACAATCTACAAATTCTTAAAGAAATGGATTATATACCATATGGGT
TACCCGAAAGGATCATCACCAACAAGGCATTGAATTTAAACAATAAAATAATGAAATCAGTATAG
AATCAATATTTAAAGA
Found at i:1785595 original size:16 final size:16
Alignment explanation
Indices: 1785574--1785609 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
1785564 TTGAAGAAAG
1785574 AAAAAGGAAAAAGGAA
1 AAAAAGGAAAAAGGAA
1785590 AAAAAGGAAAAAGGAA
1 AAAAAGGAAAAAGGAA
1785606 AAAA
1 AAAA
1785610 GAAAATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAAGGAAAAAGGAA
Found at i:1785639 original size:7 final size:7
Alignment explanation
Indices: 1785570--1785648 Score: 63
Period size: 7 Copynumber: 11.0 Consensus size: 7
1785560 TCGCTTGAAG
1785570 AAAGAAA
1 AAAGAAA
*
1785577 AAGGAAA
1 AAAGAAA
*
1785584 AAGGAAAA
1 AAAG-AAA
1785592 AAAGGAAA
1 AAA-GAAA
*
1785600 AAGGAAA
1 AAAGAAA
1785607 AAAG-AA
1 AAAGAAA
*
1785613 AATGAAA
1 AAAGAAA
1785620 CAAA-AACA
1 -AAAGAA-A
1785628 AAAGAAA
1 AAAGAAA
1785635 AAAGAAA
1 AAAGAAA
*
1785642 GAAGAAA
1 AAAGAAA
1785649 GAAAAAGAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
6 5 0.08
7 38 0.64
8 15 0.25
9 1 0.02
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.01
Consensus pattern (7 bp):
AAAGAAA
Found at i:1785653 original size:23 final size:22
Alignment explanation
Indices: 1785567--1785653 Score: 70
Period size: 23 Copynumber: 3.8 Consensus size: 22
1785557 ACTTCGCTTG
*
1785567 AAGAAAGAAAAAGGAAAAAGGAAA
1 AAGAAAGAAAAA-G-AAAAGAAAA
*
1785591 AA-AAGGAAAAAGGAAAA-AAGAA
1 AAGAAAGAAAAA-GAAAAGAA-AA
* *
1785613 AATGAAACAAAAACAAAAGAAAA
1 AA-GAAAGAAAAAGAAAAGAAAA
1785636 AAGAAAGAAGAAAGAAAA
1 AAGAAAGAA-AAAGAAAA
1785654 AGAGAACAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
21 1 0.02
22 14 0.27
23 25 0.49
24 11 0.22
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.01
Consensus pattern (22 bp):
AAGAAAGAAAAAGAAAAGAAAA
Found at i:1785653 original size:28 final size:29
Alignment explanation
Indices: 1785573--1785654 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
1785563 CTTGAAGAAA
*
1785573 GAAAAAGGAAAAAGGAAA-AAAAGGA-AAAAG
1 GAAAAAAGAAAAA-GAAACAAAA--ACAAAAG
*
1785603 GAAAAAAGAAAATGAAACAAAAACAAAA-
1 GAAAAAAGAAAAAGAAACAAAAACAAAAG
*
1785631 GAAAAAAGAAAGAAGAAAGAAAAA
1 GAAAAAAGAAA-AAGAAACAAAAA
1785655 GAGAACAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
28 12 0.27
29 18 0.40
30 15 0.33
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.01
Consensus pattern (29 bp):
GAAAAAAGAAAAAGAAACAAAAACAAAAG
Found at i:1787141 original size:114 final size:114
Alignment explanation
Indices: 1786941--1787168 Score: 456
Period size: 114 Copynumber: 2.0 Consensus size: 114
1786931 AAGATTCTGG
1786941 CAATATCCAGTCGCCTTTCCATTTATAGCTTGGACAAGTTAAAATGGGTATTTAGGGAATGTTTA
1 CAATATCCAGTCGCCTTTCCATTTATAGCTTGGACAAGTTAAAATGGGTATTTAGGGAATGTTTA
1787006 ATTATACGAAACCCTAGGAAAATTCCTTCAATAAAAACCCAATCATTGC
66 ATTATACGAAACCCTAGGAAAATTCCTTCAATAAAAACCCAATCATTGC
1787055 CAATATCCAGTCGCCTTTCCATTTATAGCTTGGACAAGTTAAAATGGGTATTTAGGGAATGTTTA
1 CAATATCCAGTCGCCTTTCCATTTATAGCTTGGACAAGTTAAAATGGGTATTTAGGGAATGTTTA
1787120 ATTATACGAAACCCTAGGAAAATTCCTTCAATAAAAACCCAATCATTGC
66 ATTATACGAAACCCTAGGAAAATTCCTTCAATAAAAACCCAATCATTGC
1787169 TGCAAAAAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (114 bp):
CAATATCCAGTCGCCTTTCCATTTATAGCTTGGACAAGTTAAAATGGGTATTTAGGGAATGTTTA
ATTATACGAAACCCTAGGAAAATTCCTTCAATAAAAACCCAATCATTGC
Found at i:1787372 original size:97 final size:97
Alignment explanation
Indices: 1787206--1787400 Score: 381
Period size: 97 Copynumber: 2.0 Consensus size: 97
1787196 AAGAGTACCT
1787206 GAGGCGTGGAGTGAGCACCTGCAGTGTTTTATCTTCGACCATTCTCTAACCCGACTGTCCTTGGT
1 GAGGCGTGGAGTGAGCACCTGCAGTGTTTTATCTTCGACCATTCTCTAACCCGACTGTCCTTGGT
*
1787271 ATCCTCTATAGCCAGGCTGTATCAGAGCAGTG
66 ATCCTCTATAGCCAGGCTGTAGCAGAGCAGTG
1787303 GAGGCGTGGAGTGAGCACCTGCAGTGTTTTATCTTCGACCATTCTCTAACCCGACTGTCCTTGGT
1 GAGGCGTGGAGTGAGCACCTGCAGTGTTTTATCTTCGACCATTCTCTAACCCGACTGTCCTTGGT
1787368 ATCCTCTATAGCCAGGCTGTAGCAGAGCAGTG
66 ATCCTCTATAGCCAGGCTGTAGCAGAGCAGTG
1787400 G
1 G
1787401 TCAGGCCTCG
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.19, C:0.26, G:0.27, T:0.28
Consensus pattern (97 bp):
GAGGCGTGGAGTGAGCACCTGCAGTGTTTTATCTTCGACCATTCTCTAACCCGACTGTCCTTGGT
ATCCTCTATAGCCAGGCTGTAGCAGAGCAGTG
Found at i:1789004 original size:133 final size:133
Alignment explanation
Indices: 1788797--1789494 Score: 676
Period size: 133 Copynumber: 5.3 Consensus size: 133
1788787 GAAAATCGAA
* * ** * * *
1788797 CTCGATTCAATATTCTCTGAAGAACAGCAGAATGAATCAACG-CCTGCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCC-CCATATCTAATTTTCCCTC
* * *
1788861 AAGAAGAAGCGAAACAGATCCCTCCCTTTCAATATTTGATACTCCTGGAGTAACA-TGTAACATG
65 AAGAAGAAGCGAAACAGATCCCTCCCTTTCAAGATTTGATACTCCT-GAGTAACAGTGGAACAAG
1788925 TCTGC
129 TCTGC
* * * *
1788930 CTCAATTCAATCTTTCCTGAAGGATAGTGGAATGAATCAACGTCCCCATATCTAATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCATATCTAATTTTCCCTCA
* * * * * * * * * *
1788995 AGAAAAAGCGGAACAGATCTCTCTCGTTCAAGATTTAATATTCCTGAGAAATAGTGAAACAAGTC
66 AGAAGAAGCGAAACAGATCCCTCCCTTTCAAGATTTGATACTCCTGAGTAACAGTGGAACAAGTC
*
1789060 TAC
131 TGC
* * * *** * *
1789063 CTCGATTCAATCTTCCCTGAAGAAGAGTGAAATGAATTATTATCCCTA-ATCTAA-TTTCCCTTA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCATATCTAATTTTCCCTCA
* * * * * * * * *
1789126 AAAAGAAGCAAAACATATCCCTCTCGTTCAAGCTTTGATATTTCTTGAGTAACAGTGGAATAAGT
66 AGAAGAAGCGAAACAGATCCCTCCCTTTCAAGATTTGATA-CTCCTGAGTAACAGTGGAACAAGT
1789191 CTGC
130 CTGC
* * ** * *
1789195 CTCAATTCAATATTCCCTGAAGAACAG-CAAACGAATCAACGTCCCCATATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCATATCTAATTTTCCCTCA
* * * * * *
1789259 AGAAGGAGTGGAACAGATCCCTCCCTTTCAAGATTTGACACTCCTTGAGTAACAGTGTAGCAAGT
66 AGAAGAAGCGAAACAGATCCCTCCCTTTCAAGATTTGATACTCC-TGAGTAACAGTGGAACAAGT
1789324 CTGC
130 CTGC
* * * *
1789328 CTCGATTCAATCTTCCCTGAAGAACAGTAGAATGAATCAAC-TCCCCAAATTTTATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCATATCTAATTTTCCCTCA
* * **
1789392 AGAAGAAGTGTAACAGATCCCTCGTTTTCAAGATTTGAT-CTTCCCTGAGTAATCA-TGGAACAA
66 AGAAGAAGCGAAACAGATCCCTCCCTTTCAAGATTTGATAC-T-CCTGAGTAA-CAGTGGAACAA
*
1789455 GTCTAC
128 GTCTGC
* * *
1789461 CTCGATTCCATCTT-CCTAAAGAACAATGGAATGA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGA
1789495 GTTAACATTT
Statistics
Matches: 459, Mismatches: 96, Indels: 21
0.80 0.17 0.04
Matches are distributed among these distances:
131 53 0.12
132 83 0.18
133 307 0.67
134 16 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (133 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCATATCTAATTTTCCCTCA
AGAAGAAGCGAAACAGATCCCTCCCTTTCAAGATTTGATACTCCTGAGTAACAGTGGAACAAGTC
TGC
Found at i:1791546 original size:25 final size:23
Alignment explanation
Indices: 1791502--1791551 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
1791492 CCTTATTCTC
*
1791502 ATTAAATATTGGTAAAATAAATA
1 ATTAAATATTGATAAAATAAATA
1791525 ATTAAATACTTAGATAAAATAAATA
1 ATTAAATA-TT-GATAAAATAAATA
1791550 AT
1 AT
1791552 AATCGAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.33
24 2 0.08
25 14 0.58
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (23 bp):
ATTAAATATTGATAAAATAAATA
Found at i:1792256 original size:59 final size:59
Alignment explanation
Indices: 1792135--1792247 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
1792125 TCAGGATTGT
* **
1792135 ACTAAAGGATAAATAGTGCATATGGTGGGCACGACCTTATGTGTCATATTCGGGACTAC
1 ACTAAAGGATAAATAGTGCATATCGTGGGCACGACCTTATGTGTCATATTCAAGACTAC
* *
1792194 ACTAAAGTATAACTAGTGCATATCGTGGGCACGACCTTATGTGTCATATTCAAG
1 ACTAAAGGATAAATAGTGCATATCGTGGGCACGACCTTATGTGTCATATTCAAG
1792248 TTAGCACTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (59 bp):
ACTAAAGGATAAATAGTGCATATCGTGGGCACGACCTTATGTGTCATATTCAAGACTAC
Found at i:1792721 original size:14 final size:13
Alignment explanation
Indices: 1792702--1792736 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
1792692 TCGAATACCT
1792702 AAAAATACATTTTA
1 AAAAATA-ATTTTA
1792716 AAAAATAATTTTA
1 AAAAATAATTTTA
*
1792729 AAAGATAA
1 AAAAATAA
1792737 AAAAGGATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (13 bp):
AAAAATAATTTTA
Found at i:1794718 original size:3 final size:3
Alignment explanation
Indices: 1794710--1794735 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1794700 AAAACAAACA
1794710 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1794736 AAAGGCTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1795249 original size:135 final size:134
Alignment explanation
Indices: 1794869--1795536 Score: 629
Period size: 135 Copynumber: 5.0 Consensus size: 134
1794859 TCGAATTAGA
* * * * **
1794869 AATTTGCTCCACTA-TGTTTTAGGGGAGATCAAACTCGAG-AAATTTTGATCCACTTTGCTGCTC
1 AATTTGCTCCTCTACT-CTTTAAGGGAGATCAAACTCGAGAAAAATTTGATCCACTTCACTGCTC
* * * * * *
1794932 TTCAAGG-AAGGTTAAATCGGA-TTCAATTTGCTTCACTACT-TTTCAAGACA-ACCAAATCTAA
65 TTC-AGGAAAGATTGAATCGAACTT-GATTTGCTTCACTGCTCTTT-AGGA-AGACCAAATCTAA
1794993 AAGAAGAAG
126 AAGAAGAAG
* * * * * **
1795002 TATCTGCTCCACTACTCTTTAAGGGTGATCAAACTCGAGAAAACTTTGATCCACTTCACTATTCT
1 AATTTGCTCCTCTACTCTTTAAGGGAGATCAAACTCGAGAAAAATTTGATCCACTTCACTGCTCT
* * ** * * * *** *
1795067 TCAGGGAAGATTGAATC-ATAATCAATTTACTTTAGTGCTCCCCAGGAAGACCAAATCTAAAAAA
66 TCAGGAAAGATTGAATCGA-ACTTGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTAAAAGA
*
1795131 ATAAG
130 AGAAG
* * *
1795136 AATTTGCTCCTCTACTCTTTATGTGAGATCATACTCGAGAAATAATTTGATCCACTTCACTGCTC
1 AATTTGCTCCTCTACTCTTTAAGGGAGATCAAACTCGAGAAA-AATTTGATCCACTTCACTGCTC
* * *
1795201 TTCAGGAAAGATTGAATCAAACTTGACTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGA
65 TTCAGGAAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTAAAAGA
1795266 AGAAG
130 AGAAG
* * * * * * **
1795271 AATCTT-CTCCGCTATTGTTTAAGGGAGATCAGACTTGAGAAAAAATTTGATCCACTTTACTATT
1 AAT-TTGCTCCTCTACTCTTTAAGGGAGATCAAACTCGAG-AAAAATTTGATCCACTTCACTGCT
* * * *
1795335 CTTCA-GACAAGATTGAATCGAACTTGATTTGCTTCGCTTCTATTTAGGAAAACCAAATCTAAAA
64 CTTCAGGA-AAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTAAAA
1795399 GAAGAAG
128 GAAGAAG
* * * **
1795406 AATATGCT-CTGCTACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCGTTGCT
1 AATTTGCTCCT-CTACTCTTTAAGGGAGATCAAACTCGAGAAAAA-TTTGATCCACTTCACTGCT
* * *
1795470 CTTCAGGGAAGATTGAATCGAACTTGATTTGCTT-AGCTGCTCTTTAGGAAGACAAAATCTGAAA
64 CTTCAGGAAAGATTGAATCGAACTTGATTTGCTTCA-CTGCTCTTTAGGAAGACCAAATCTAAAA
1795534 GAA
128 GAA
1795537 AAATCTGAGT
Statistics
Matches: 435, Mismatches: 83, Indels: 32
0.79 0.15 0.06
Matches are distributed among these distances:
133 36 0.08
134 110 0.25
135 282 0.65
136 7 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (134 bp):
AATTTGCTCCTCTACTCTTTAAGGGAGATCAAACTCGAGAAAAATTTGATCCACTTCACTGCTCT
TCAGGAAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTAAAAGAA
GAAG
Found at i:1795444 original size:270 final size:268
Alignment explanation
Indices: 1794886--1795536 Score: 737
Period size: 270 Copynumber: 2.4 Consensus size: 268
1794876 TCCACTATGT
* * *
1794886 TTTAGGGGAGATCAAACTCGAGAAAT--TTTGATCCACTTTGCTGCTCTTCAAGGAAGGTTAAAT
1 TTTAGGGGAGATCAAACTCGAGAAATAATTTGATCCACTTCGCTGCTCTTC-AGGAAGATTGAAT
* * * * * *
1794949 CGGA-TTCAATTTGCTTCACTACT-TTTCAAGACA-ACCAAATCTAAAAGAAGAAGTATCTGCTC
65 CGAACTT-GATTTGCTTCACTGCTCTTT-AGGA-AGACCAAATCTGAAAGAAGAAGAATCTGCTC
* * **
1795011 CACTACTCTTTAAGGGTGATCAAACTCGAGAAAACTTTGATCCACTTCACTATTCTTCAGGGAAG
127 CACTACTCTTTAAGGGAGATCAAACTCGAGAAAAATTTGATCCACTTCACTATTCTTCAGACAAG
* * * *
1795076 ATTGAATCATAATCAATTTACTTTAGTGCTCCCCAGGAAGACCAAATCTAAAAAAATAAGAATTT
192 ATTGAATCATAATCAATTTACTTTAGTGCTACCCAGGAAAACCAAATCTAAAAAAAGAAGAATAT
1795141 GCTCCTCTACTC
257 GCTCCTCTACTC
* * * *
1795153 TTTATGTGAGATCATACTCGAGAAATAATTTGATCCACTTCACTGCTCTTCAGGAAAGATTGAAT
1 TTTAGGGGAGATCAAACTCGAGAAATAATTTGATCCACTTCGCTGCTCTTCAGG-AAGATTGAAT
* * * *
1795218 CAAACTTGACTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAGAAGAATCTTCTCCGC
65 CGAACTTGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCAC
* * * * *
1795283 TATTGTTTAAGGGAGATCAGACTTGAGAAAAAATTTGATCCACTTTACTATTCTTCAGACAAGAT
130 TACTCTTTAAGGGAGATCAAACTCGAG-AAAAATTTGATCCACTTCACTATTCTTCAGACAAGAT
* ** * * * *** *
1795348 TGAATCGA-ACTTGATTTGC-TTCGCTTCTATTTAGGAAAACCAAATCTAAAAGAAGAAGAATAT
194 TGAATC-ATAATCAATTTACTTTAG-TGCTACCCAGGAAAACCAAATCTAAAAAAAGAAGAATAT
1795411 GCT-CTGCTACTC
257 GCTCCT-CTACTC
* *
1795423 TTTAGGGGAGATCAGACTCGAGAAA-AATTTTGATCCACTTCGTTGCTCTTCAGGGAAGATTGAA
1 TTTAGGGGAGATCAAACTCGAGAAATAA-TTTGATCCACTTCGCTGCTCTTCA-GGAAGATTGAA
*
1795487 TCGAACTTGATTTGCTT-AGCTGCTCTTTAGGAAGACAAAATCTGAAAGAA
64 TCGAACTTGATTTGCTTCA-CTGCTCTTTAGGAAGACCAAATCTGAAAGAA
1795537 AAATCTGAGT
Statistics
Matches: 323, Mismatches: 48, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
267 23 0.07
268 4 0.01
269 105 0.33
270 188 0.58
271 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (268 bp):
TTTAGGGGAGATCAAACTCGAGAAATAATTTGATCCACTTCGCTGCTCTTCAGGAAGATTGAATC
GAACTTGATTTGCTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACT
ACTCTTTAAGGGAGATCAAACTCGAGAAAAATTTGATCCACTTCACTATTCTTCAGACAAGATTG
AATCATAATCAATTTACTTTAGTGCTACCCAGGAAAACCAAATCTAAAAAAAGAAGAATATGCTC
CTCTACTC
Found at i:1796774 original size:10 final size:10
Alignment explanation
Indices: 1796759--1796823 Score: 71
Period size: 10 Copynumber: 6.5 Consensus size: 10
1796749 TCCTTTTCCC
1796759 TTTTTCTCTT
1 TTTTTCTCTT
1796769 TTTTTC-CTT
1 TTTTTCTCTT
*
1796778 TTTTATTTCTT
1 TTTT-TCTCTT
*
1796789 TTTTTGTC-T
1 TTTTTCTCTT
*
1796798 TTTTTCTTTT
1 TTTTTCTCTT
1796808 TTTTTCTTCTT
1 TTTTTC-TCTT
1796819 TTTTT
1 TTTTT
1796824 AGGAAAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
9 14 0.30
10 17 0.37
11 15 0.33
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:1796790 original size:17 final size:19
Alignment explanation
Indices: 1796740--1796790 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
1796730 TTTATTTATT
1796740 TTTTTCT-TTTCCTTTTCCC
1 TTTTTCTATTT-CTTTTCCC
*
1796759 TTTTTCTCTTT-TTTT-CC
1 TTTTTCTATTTCTTTTCCC
1796776 TTTTT-TATTTCTTTT
1 TTTTTCTATTTCTTTT
1796791 TTTGTCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 4 0.14
17 11 0.38
18 4 0.14
19 7 0.24
20 3 0.10
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTCTATTTCTTTTCCC
Found at i:1796790 original size:20 final size:20
Alignment explanation
Indices: 1796765--1796824 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
1796755 TCCCTTTTTC
1796765 TCTTTTTTTCCTTTTTTATT
1 TCTTTTTTTCCTTTTTTATT
* *
1796785 TCTTTTTTTGTCTTTTTTCTT
1 TCTTTTTTT-CCTTTTTTATT
* *
1796806 TTTTTTTCTTCTTTTTTTA
1 TCTTTTT-TTCCTTTTTTA
1796825 GGAAAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 9 0.28
21 21 0.66
22 2 0.06
ACGTcount: A:0.03, C:0.13, G:0.02, T:0.82
Consensus pattern (20 bp):
TCTTTTTTTCCTTTTTTATT
Found at i:1796793 original size:30 final size:30
Alignment explanation
Indices: 1796759--1796823 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
1796749 TCCTTTTCCC
1796759 TTTTTCTCTTTTTTTCCTTTTTTAT-TTCTT
1 TTTTTCTC-TTTTTTCCTTTTTTATCTTCTT
* * *
1796789 TTTTTGTCTTTTTTCTTTTTTTTTCTTCTT
1 TTTTTCTCTTTTTTCCTTTTTTATCTTCTT
1796819 TTTTT
1 TTTTT
1796824 AGGAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.83
Consensus pattern (30 bp):
TTTTTCTCTTTTTTCCTTTTTTATCTTCTT
Found at i:1796800 original size:8 final size:7
Alignment explanation
Indices: 1796739--1796822 Score: 57
Period size: 7 Copynumber: 11.9 Consensus size: 7
1796729 TTTTATTTAT
1796739 TTTTTTC
1 TTTTTTC
*
1796746 -TTTTCC
1 TTTTTTC
**
1796752 TTTTCCC
1 TTTTTTC
1796759 TTTTTCTC
1 TTTTT-TC
1796767 TTTTTTTCC
1 -TTTTTT-C
*
1796776 TTTTTTA
1 TTTTTTC
1796783 TTTCTTT-
1 TTT-TTTC
*
1796790 TTTTGTC
1 TTTTTTC
1796797 TTTTTTC
1 TTTTTTC
1796804 TTTTTT-
1 TTTTTTC
*
1796810 TTTCTTC
1 TTTTTTC
1796817 TTTTTT
1 TTTTTT
1796823 TAGGAAAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
6 12 0.20
7 32 0.52
8 11 0.18
9 6 0.10
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:1796803 original size:17 final size:18
Alignment explanation
Indices: 1796783--1796820 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1796773 TCCTTTTTTA
1796783 TTTCTTTTTTTGTCTT-T
1 TTTCTTTTTTTGTCTTCT
*
1796800 TTTCTTTTTTTTTCTTCT
1 TTTCTTTTTTTGTCTTCT
1796818 TTT
1 TTT
1796821 TTTAGGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (18 bp):
TTTCTTTTTTTGTCTTCT
Found at i:1812469 original size:7 final size:7
Alignment explanation
Indices: 1812452--1812513 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
1812442 TCTTTTTCCC
1812452 CTTTTTCT
1 CTTTTT-T
1812460 CTTTTTT
1 CTTTTTT
1812467 CTTTTTT
1 CTTTTTT
1812474 CTTTTTT
1 CTTTTTT
*
1812481 -TGTTTT
1 CTTTTTT
* * *
1812487 ATCTCTT
1 CTTTTTT
1812494 -TTTTTT
1 CTTTTTT
*
1812500 CCTTTTT
1 CTTTTTT
1812507 CTTTTTT
1 CTTTTTT
1812514 TAGGCAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
6 9 0.20
7 30 0.67
8 6 0.13
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (7 bp):
CTTTTTT
Found at i:1812480 original size:15 final size:15
Alignment explanation
Indices: 1812439--1812514 Score: 71
Period size: 15 Copynumber: 4.8 Consensus size: 15
1812429 TTTATTTTTC
**
1812439 TTTTCTTTTTCCCCT
1 TTTTCTTTTTTTCCT
*
1812454 TTTTCTCTTTTTTCTT
1 TTTTCT-TTTTTTCCT
**
1812470 TTTTCTTTTTTTGTT
1 TTTTCTTTTTTTCCT
1812485 TTATCTCTTTTTTTTCCT
1 TT-T-TC-TTTTTTTCCT
1812503 TTTTCTTTTTTT
1 TTTTCTTTTTTT
1812515 AGGCAAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
15 23 0.45
16 15 0.29
17 3 0.06
18 10 0.20
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.79
Consensus pattern (15 bp):
TTTTCTTTTTTTCCT
Found at i:1812481 original size:33 final size:32
Alignment explanation
Indices: 1812452--1812514 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
1812442 TCTTTTTCCC
*
1812452 CTTTT-TCTC-TTTTTTCTTTTTTCTTTTTTT
1 CTTTTATCTCTTTTTTTCCTTTTTCTTTTTTT
*
1812482 GTTTTATCTCTTTTTTTTCCTTTTTCTTTTTTT
1 CTTTTATCTC-TTTTTTTCCTTTTTCTTTTTTT
1812515 AGGCAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 4 0.14
31 4 0.14
33 20 0.71
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (32 bp):
CTTTTATCTCTTTTTTTCCTTTTTCTTTTTTT
Found at i:1824862 original size:18 final size:20
Alignment explanation
Indices: 1824839--1824875 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
1824829 TGGACCTACA
1824839 AAATAA-AATAA-AATATAT
1 AAATAATAATAATAATATAT
1824857 AAATAATAATAATAATATA
1 AAATAATAATAATAATATA
1824876 AAAAAAGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAATAATAATAATATAT
Found at i:1829942 original size:292 final size:293
Alignment explanation
Indices: 1829383--1829968 Score: 1021
Period size: 292 Copynumber: 2.0 Consensus size: 293
1829373 CCAAGTTTGG
*
1829383 AGATTTCTTCAAAACCAAAACTCCTTTGCTTTTAATGTCTTCAAAGAAAAGTATTTTCCTAACTC
1 AGATTTCTTCAAAACCAAAACTCCCTTGCTTTTAATGTCTTCAAAGAAAAGTATTTTCCTAACTC
* *
1829448 TTCCTTTTTTGATACCAAACTAGGAGATAGAGCCCCTACGCCTGGTCTAGTCTCTTCAAAGAAAA
66 TTCCTTTCTTGATACCAAACTAGGAGATAGAGCCCCTACGCCTAGTCTAGTCTCTTCAAAGAAAA
* *
1829513 AGAATATTAAAAAGATGACTTCTTCTGGATGATTGGTTTTGAGGGAGAAGCTATAATGTTCTTGT
131 AGAATATTAAAAAGATGACTTCTTCTGGATGATTGGTTTTGAAGGAGAAGCTAAAATGTTCTTGT
1829578 ACAAGTGGGGGTGCCTCCCCAATCAATTGGACTTTCTCTTATCATCATAACTTGGATTGTCTTTT
196 ACAAGTGGGGGTGCCTCCCCAATCAATTGGACTTTCTCTTATCATCATAACTTGGATTGTCTTTT
*
1829643 GAATGTGTTAACTTTATAATTCCAAATGCCCCA
261 AAATGTGTTAACTTTATAATTCCAAATGCCCCA
* * *
1829676 AGATTTCTTCAAGACCATAACTCCCTTGCTTTTAATGTCTTCAAAGCAAAGTATTTTCCTAACTC
1 AGATTTCTTCAAAACCAAAACTCCCTTGCTTTTAATGTCTTCAAAGAAAAGTATTTTCCTAACTC
* * * *
1829741 TTCCTTTCTTGATGCCAAACTAGGAGATTGAGCCCCTACGCCTAGTCTAGTCTCTTTAAAGCAAA
66 TTCCTTTCTTGATACCAAACTAGGAGATAGAGCCCCTACGCCTAGTCTAGTCTCTTCAAAGAAAA
* *
1829806 AGAATATT-GAAAGATGACTTCTTCTGGATGATTGGTTTTGAAGGAGAATCTAAAATGTTCTTGT
131 AGAATATTAAAAAGATGACTTCTTCTGGATGATTGGTTTTGAAGGAGAAGCTAAAATGTTCTTGT
*
1829870 ACAAGTGGGGGTGCCTCCCCGATCAATTGGACTTTCTCTTATCATCATAACTTGGATTGTCTTTT
196 ACAAGTGGGGGTGCCTCCCCAATCAATTGGACTTTCTCTTATCATCATAACTTGGATTGTCTTTT
1829935 AAATGTGTTAACTTTATAATTCCAAATGCCCCA
261 AAATGTGTTAACTTTATAATTCCAAATGCCCCA
1829968 A
1 A
1829969 TATGGGATGA
Statistics
Matches: 277, Mismatches: 16, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
292 149 0.54
293 128 0.46
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (293 bp):
AGATTTCTTCAAAACCAAAACTCCCTTGCTTTTAATGTCTTCAAAGAAAAGTATTTTCCTAACTC
TTCCTTTCTTGATACCAAACTAGGAGATAGAGCCCCTACGCCTAGTCTAGTCTCTTCAAAGAAAA
AGAATATTAAAAAGATGACTTCTTCTGGATGATTGGTTTTGAAGGAGAAGCTAAAATGTTCTTGT
ACAAGTGGGGGTGCCTCCCCAATCAATTGGACTTTCTCTTATCATCATAACTTGGATTGTCTTTT
AAATGTGTTAACTTTATAATTCCAAATGCCCCA
Found at i:1838157 original size:2 final size:2
Alignment explanation
Indices: 1838150--1838188 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1838140 TTATGTTGTG
1838150 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1838189 TAAAATCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1838863 original size:17 final size:16
Alignment explanation
Indices: 1838841--1838874 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1838831 TAAAAACAGT
1838841 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1838858 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1838874 A
1 A
1838875 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1842730 original size:20 final size:19
Alignment explanation
Indices: 1842701--1842738 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1842691 AAGGTCAAAG
1842701 TTAAAATGAAAGAGAAAAA
1 TTAAAATGAAAGAGAAAAA
*
1842720 TTAATAATGAAAGATAAAA
1 TTAA-AATGAAAGAGAAAA
1842739 GAAAAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (19 bp):
TTAAAATGAAAGAGAAAAA
Found at i:1849115 original size:17 final size:16
Alignment explanation
Indices: 1849093--1849126 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1849083 TAAAAACAGT
1849093 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1849110 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1849126 A
1 A
1849127 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1864065 original size:21 final size:21
Alignment explanation
Indices: 1864039--1864078 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1864029 CAGAACCCCA
*
1864039 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1864060 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1864079 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1867968 original size:22 final size:21
Alignment explanation
Indices: 1867926--1867965 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1867916 GAGTTTGTTT
*
1867926 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1867947 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1867966 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1877973 original size:20 final size:21
Alignment explanation
Indices: 1877948--1877993 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
1877938 CCCTTCAAGG
*
1877948 AGTATTAATACTCT-AGGTTC
1 AGTATTAATACTCTGAGGGTC
*
1877968 AGTATTGATACTCTGAGGGTC
1 AGTATTAATACTCTGAGGGTC
1877989 AGTAT
1 AGTAT
1877994 CGATACTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (21 bp):
AGTATTAATACTCTGAGGGTC
Found at i:1877992 original size:21 final size:20
Alignment explanation
Indices: 1877948--1878000 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
1877938 CCCTTCAAGG
* *
1877948 AGTATTAATACTCTAGGTTC
1 AGTATTGATACTCTAGGGTC
1877968 AGTATTGATACTCTGAGGGTC
1 AGTATTGATACTCT-AGGGTC
*
1877989 AGTATCGATACT
1 AGTATTGATACT
1878001 TGGACATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (20 bp):
AGTATTGATACTCTAGGGTC
Found at i:1882012 original size:35 final size:35
Alignment explanation
Indices: 1881966--1882070 Score: 192
Period size: 35 Copynumber: 3.0 Consensus size: 35
1881956 GTCTCAACAC
1881966 TCATAAGAAAATCTTTCATACTTAGATCTCCCTTT
1 TCATAAGAAAATCTTTCATACTTAGATCTCCCTTT
* *
1882001 TCATAAGAAAATATTTCATACTTAGATCTACCTTT
1 TCATAAGAAAATCTTTCATACTTAGATCTCCCTTT
1882036 TCATAAGAAAATCTTTCATACTTAGATCTCCCTTT
1 TCATAAGAAAATCTTTCATACTTAGATCTCCCTTT
1882071 CTCTGAGAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (35 bp):
TCATAAGAAAATCTTTCATACTTAGATCTCCCTTT
Found at i:1884099 original size:23 final size:23
Alignment explanation
Indices: 1884064--1884113 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
1884054 TGTAGGAGAA
1884064 ATAAAATATATTATCAATAAAAAAT
1 ATAAAATATATTATC--TAAAAAAT
*
1884089 ATAAAA-A-ATTATCTAAAACAT
1 ATAAAATATATTATCTAAAAAAT
1884110 ATAA
1 ATAA
1884114 TAATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 11 0.46
23 6 0.25
24 1 0.04
25 6 0.25
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAAAATATATTATCTAAAAAAT
Found at i:1888918 original size:28 final size:28
Alignment explanation
Indices: 1888848--1888918 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
1888838 CAATAAGTTT
* *
1888848 AAAAAAAATAAAAATAAAAAATGAGTAG
1 AAAAAAAAGAAAAATAAAAAATGAGAAG
* * * *
1888876 GAAAAAATGATAAATAAAAATTG-GAAG
1 AAAAAAAAGAAAAATAAAAAATGAGAAG
1888903 AAAAAAAAAGAAAAAT
1 -AAAAAAAAGAAAAAT
1888919 GATAATTAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
27 3 0.09
28 30 0.91
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.14
Consensus pattern (28 bp):
AAAAAAAAGAAAAATAAAAAATGAGAAG
Found at i:1888996 original size:17 final size:17
Alignment explanation
Indices: 1888974--1889008 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1888964 TGAAATCAAT
1888974 AATAATGA-AATAATAAA
1 AATAATGATAA-AATAAA
1888991 AATAATGATAAAATAAA
1 AATAATGATAAAATAAA
1889008 A
1 A
1889009 CTTAGAGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (17 bp):
AATAATGATAAAATAAA
Found at i:1890279 original size:3 final size:3
Alignment explanation
Indices: 1890271--1890360 Score: 85
Period size: 3 Copynumber: 28.3 Consensus size: 3
1890261 AACGAAAGAA
*
1890271 AAT AAT AAT AAT AAT AAAT AA- AAT AAAT AACT AATT AAT AA- AAC AAGT
1 AAT AAT AAT AAT AAT -AAT AAT AAT -AAT AA-T AA-T AAT AAT AAT AA-T
*
1890319 AAAT AGAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1890361 CTATAAAATA
Statistics
Matches: 75, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
2 4 0.05
3 54 0.72
4 15 0.20
5 2 0.03
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:1890310 original size:20 final size:19
Alignment explanation
Indices: 1890277--1890360 Score: 68
Period size: 20 Copynumber: 4.4 Consensus size: 19
1890267 AGAAAATAAT
1890277 AATAATAATAAATAAAATA
1 AATAATAATAAATAAAATA
* *
1890296 AATAACTAATTAATAAAACA
1 AATAA-TAATAAATAAAATA
*
1890316 AGTAAATAGA-AAATAATAAT-
1 AAT-AATA-ATAAATAA-AATA
1890336 AATAATAAT-AATAATAAT-
1 AATAATAATAAATAA-AATA
1890354 AATAATA
1 AATAATA
1890361 CTATAAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
18 17 0.31
19 9 0.17
20 23 0.43
21 5 0.09
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
AATAATAATAAATAAAATA
Found at i:1890418 original size:37 final size:36
Alignment explanation
Indices: 1890375--1890667 Score: 333
Period size: 35 Copynumber: 7.9 Consensus size: 36
1890365 AAAATATATA
*
1890375 TTTCAAAAAATATTTTTAAAACTATATATTATATAAT
1 TTTC-AAAAATGTTTTTAAAACTATATATTATATAAT
*
1890412 TTTCAAAAAATGTTTTTTAAAACTATACATTATATAA-
1 TTTC-AAAAATG-TTTTTAAAACTATATATTATATAAT
*
1890449 TTTCAAAAATGTTTTTAAAACTATACATTATATAA-
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAAT
*
1890484 TTTCAAAAATGTTTTTTAAACTATATATTATATAATT
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAA-T
* *
1890521 TTTCAAAATTATTTTTAAAACTATATATTATATAA-
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAAT
* *
1890556 TTTCAAAAATGTTTTAAAAACTATATAATATATAAATGT
1 TTTCAAAAATGTTTTTAAAACTATATATTATAT-AA--T
* *
1890595 TTTC-AAAATGTTTTCAAAAACTATATAATATATAAAT
1 TTTCAAAAATGTTTT-TAAAACTATATATTATAT-AAT
** *
1890632 TTTTGAAAATAGTTTTCTGAAAATTATATATTATAT
1 TTTCAAAAAT-GTTTT-T-AAAACTATATATTATAT
1890668 TTCGTCAAAA
Statistics
Matches: 230, Mismatches: 15, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
35 86 0.37
36 9 0.04
37 51 0.22
38 38 0.17
39 31 0.13
40 15 0.07
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTCAAAAATGTTTTTAAAACTATATATTATATAAT
Found at i:1890536 original size:72 final size:72
Alignment explanation
Indices: 1890375--1890629 Score: 336
Period size: 72 Copynumber: 3.5 Consensus size: 72
1890365 AAAATATATA
*
1890375 TTTCAAAAAATATTTTTAAAACTATATATTATATAATTTTCAAAAAATGTTTTTTAAAACTATAC
1 TTTC-AAAAATATTTTTAAAACTATATATTATATAA-TTTC-AAAAATGTTTTTT-AAACTATAT
1890440 ATTATATAA--
62 ATTATATAATT
* *
1890449 TTTCAAAAATGTTTTTAAAACTATACATTATATAATTTCAAAAATGTTTTTTAAACTATATATTA
1 TTTCAAAAATATTTTTAAAACTATATATTATATAATTTCAAAAATGTTTTTTAAACTATATATTA
1890514 TATAATT
66 TATAATT
* ** *
1890521 TTTCAAAATTATTTTTAAAACTATATATTATATAATTTCAAAAATGTTTTAAAAACTATATAATA
1 TTTCAAAAATATTTTTAAAACTATATATTATATAATTTCAAAAATGTTTTTTAAACTATATATTA
1890586 TATAAATGT
66 TAT-AAT-T
* * *
1890595 TTTC-AAAATGTTTTCAAAAACTATATAATATATAA
1 TTTCAAAAATATTTT-TAAAACTATATATTATATAA
1890630 ATTTTTGAAA
Statistics
Matches: 163, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
70 17 0.10
71 13 0.08
72 66 0.40
73 40 0.25
74 27 0.17
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (72 bp):
TTTCAAAAATATTTTTAAAACTATATATTATATAATTTCAAAAATGTTTTTTAAACTATATATTA
TATAATT
Found at i:1890580 original size:28 final size:27
Alignment explanation
Indices: 1890549--1890602 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1890539 AACTATATAT
*
1890549 TATATAATTTCAAAAATGTTTTAAAAAC
1 TATATAATAT-AAAAATGTTTTAAAAAC
* *
1890577 TATATAATATATAAATGTTTTCAAAA
1 TATATAATATAAAAATGTTTTAAAAA
1890603 TGTTTTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (27 bp):
TATATAATATAAAAATGTTTTAAAAAC
Found at i:1890605 original size:11 final size:11
Alignment explanation
Indices: 1890589--1890613 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1890579 TATAATATAT
1890589 AAATGTTTTCA
1 AAATGTTTTCA
1890600 AAATGTTTTCA
1 AAATGTTTTCA
1890611 AAA
1 AAA
1890614 ACTATATAAT
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:1891425 original size:84 final size:84
Alignment explanation
Indices: 1891319--1892452 Score: 1134
Period size: 84 Copynumber: 13.7 Consensus size: 84
1891309 TGAAATGTAA
* * * * * *
1891319 TCGAACTCGGAGGTCTTCGGTTGGCACATAACCCTTCTCGACTTAAGTTATGTTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
1891384 GCCTTAGAGCTGAGCGTAG
66 GCCTTCGAGCTGAGCGTAG
* * *
1891403 TCAAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
1891468 GTCGTT-GAACTGAGCGTAG
66 G-CCTTCGAGCTGAGCGTAG
* * * * * * ** *
1891487 TCAAACTCAAAGGCCTTTGG-TGACAGATAACCCTTCTAGACTTGAGTTATGCTATAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
1891551 GTCC-TCGAAGCTGAGTGTAA
66 G-CCTTCG-AGCTGAGCGTAG
* ** * * *
1891571 TCGTACTCGGGGGTCTTTGG-T---AGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
1891632 GCCTTTGAGCTGAGCGTAG
66 GCCTTCGAGCTGAGCGTAG
* * * *
1891651 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
1891716 GCCTTGGAGCTGAGCGTAG
66 GCCTTCGAGCTGAGCGTAG
* * * * * * * *
1891735 TTGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * *
1891799 GCCCTCGAAGCTGAGTGTAA
66 GCCTTCG-AGCTGAGCGTAG
** * * * * *
1891819 TCGAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATCATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
1891880 GCCTTGGAGCTGAGCGTAG
66 GCCTTCGAGCTGAGCGTAG
* * *
1891899 TTGAACTCGAAGGTCTTTTGTTGGCGGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
1891964 GCCTTAGAGCTGAGCATAG
66 GCCTTCGAGCTGAGCGTAG
* *
1891983 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * *
1892048 GCCCTT-GAAACTGAGTGTAA
66 G-CCTTCG-AGCTGAGCGTAG
* * * * * ** *
1892068 TCGAACTCGAAGGTC-TTGG-TGACAAATAACCATTCTAGTCTTGTGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
1892131 GCCTTCGAAGCTGAGTGTAA
66 GCCTTCG-AGCTGAGCGTAG
* * * * *
1892151 TCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGACGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
1892212 GCCTTGGAGCTGAGCGTAG
66 GCCTTCGAGCTGAGCGTAG
* * *
1892231 TCCAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC---AGTTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * *
1892293 GCCCTCGAAGCTGAGTGTAA
66 GCCTTCG-AGCTGAGCGTAG
* * * *
1892313 TCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
1892374 GCCTTGGAGCTGAGCGTAG
66 GCCTTCGAGCTGAGCGTAG
* * * * * *
1892393 TCGAACTCAAACGTCTTT-GTTGGCAGATAACTCTTCTAGCCTTGAGTTATGCTGCAAATG
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
1892453 TTGTCTTTTA
Statistics
Matches: 861, Mismatches: 160, Indels: 59
0.80 0.15 0.05
Matches are distributed among these distances:
78 21 0.02
80 94 0.11
81 158 0.18
82 32 0.04
83 179 0.21
84 347 0.40
85 30 0.03
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCCTTCGAGCTGAGCGTAG
Found at i:1891728 original size:332 final size:327
Alignment explanation
Indices: 1891319--1892452 Score: 1314
Period size: 332 Copynumber: 3.4 Consensus size: 327
1891309 TGAAATGTAA
* ** * * * *
1891319 TCGAACTCGGAGGTCTTCGGTTGGCACATAACCCTTCTCGACTTAAGTTATGTTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * * * * *
1891384 GCCTTAGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGA
* * * * * * * *
1891449 GCTATGCTGCAAATGATGTGTCGTTGAA-CTGAGCGTAGTCAAACTCAAAGGCCTTTGGTGACAG
130 GTTATGCTGCAAATGATGTG-CCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTT-G-G-CAG
* * * * * * * * * *
1891513 ATAACCCTTCTAGACTTGAGTTATGCTATAAATGATATGTCCTCGAAGCTGAGTGTAATCGTACT
191 ATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACT
** * * *
1891578 CGGGGGTCTTTGGTAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTTGAGCT
255 CGAAGGTCTTTGGTAGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATGTGCCTTAGAGCT
1891643 GAGCGTAG
320 GAGCGTAG
* * *
1891651 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
1891716 GCCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
* * * * *
1891781 TTATACTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAG
131 TTATGCTGCAAATGATGTG-CCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAG
* *
1891846 CCCTTCTCGACTTAAGCTATGCTGTAAATCATATGCCTTGGAGCTGAGCGTAGTTGAACTCGAAG
195 CCCTTCTCGACTTAAGCTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
** *
1891911 GTCTTTTGTTGGCGGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTAGAGCTG
260 GTC---T-TTGGTAGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATGTGCCTTAGAGCTG
*
1891976 AGCATAG
321 AGCGTAG
*
1891983 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * * * * * *
1892048 GCCCTTGAAACTGAGTGTAATCGAACTCGAAGGTC-TTGGTGACAAATAACCATTCTAGTCTTGT
66 G-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGA
*
1892112 GTTATGCTGTAAATGATGTGCCTTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATA
130 GTTATGCTGCAAATGATGTGCCTT-GAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATA
* * ** * *
1892177 GCCCTTCTCGACTTAAGCTATACTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCCAACTCAAA
194 GCCCTTCTCGACTTAAGCTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
* *
1892242 GGTCTTTGGTTGGCAGATAACCCTTCTCGAC---AGTTATGTTGCAAATGATGTGCCCTCGAAGC
259 GGTCTTTGG-T---AGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATGTGCCTTAG-AGC
* *
1892304 TGAGTGTAA
319 TGAGCGTAG
* * * *
1892313 TCGAACTCGAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * * *
1892374 GCCTTGGAGCTGAGCGTAGTCGAACTCAAACGTCTTTGTTGGCAGATAACTCTTCTAGCCTTGAG
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
1892439 TTATGCTGCAAATG
131 TTATGCTGCAAATG
1892453 TTGTCTTTTA
Statistics
Matches: 684, Mismatches: 105, Indels: 32
0.83 0.13 0.04
Matches are distributed among these distances:
325 27 0.04
326 78 0.11
327 1 0.00
328 29 0.04
329 61 0.09
330 24 0.04
331 46 0.07
332 390 0.57
333 28 0.04
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (327 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
TTATGCTGCAAATGATGTGCCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGC
CCTTCTCGACTTAAGCTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
TCTTTGGTAGATAACCCTTCTCGACTTAAGTTATGTTGCAAATGATGTGCCTTAGAGCTGAGCGT
AG
Found at i:1891795 original size:248 final size:248
Alignment explanation
Indices: 1891339--1892452 Score: 1409
Period size: 248 Copynumber: 4.5 Consensus size: 248
1891329 AGGTCTTCGG
* * * * * *
1891339 TTGGCACATAACCCTTCTCGACTTAAGTTATGTTGTAAATGATATGCCTTAGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * *
1891404 CAAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
66 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
* * * *
1891469 TCGTT-GAACTGAGCGTAGTCAAACTCAAAGGCCTTTGGTGACAGATAACCCTTCTAGACTTGAG
131 -CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAG
** * * *
1891533 TTATGCTATAAATGATATGTCCTCGAAGCTGAGTGTAATCGTACTCGGGGGTCT
195 TTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
* * * *
1891587 TTGGTAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * *
1891652 CGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
66 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
* * *
1891717 CCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGT
131 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAGT
* * *
1891782 TATACTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCT
196 TATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
* *
1891835 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATCATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
* *
1891900 TGAACTCGAAGGTCTTTTGTTGGCGGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
66 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
* * * * * * *
1891965 CCTTAGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAG
131 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAG
* * * * *
1892030 TTATGTTGCAAATGATGTGCCCTTGAAACTGAGTGTAATCGAACTCGAAGGTCT
195 TTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
* * * * * * ** * * *
1892084 TGGTGACAAATAACCATTCTAGTCTTGTGTTATGCTGTAAATGATGTGCCTTCGAAGCTGAGTGT
1 T--TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTT-GGAGCTGAGCGT
* * * * * *
1892149 AATCGAACTCGAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGAC
63 AGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
* * *
1892210 GTGCCTTGGAGCTGAGCGTAGTCCAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC--
128 GTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG-TGACAGATAACCCTTCTAGACTT
* *
1892273 -AGTTATGTTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
192 GAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
* *
1892329 TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
* * * * * *
1892394 CGAACTCAAACGTC-TTTGTTGGCAGATAACTCTTCTAGCCTTGAGTTATGCTGCAAATG
66 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
1892453 TTGTCTTTTA
Statistics
Matches: 752, Mismatches: 105, Indels: 21
0.86 0.12 0.02
Matches are distributed among these distances:
242 23 0.03
243 38 0.05
244 1 0.00
245 88 0.12
247 7 0.01
248 459 0.61
249 74 0.10
251 38 0.05
252 24 0.03
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (248 bp):
TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAGT
TATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCT
Found at i:1896510 original size:5 final size:5
Alignment explanation
Indices: 1896500--1896533 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
1896490 GCAAGTGATG
1896500 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1896534 ATGAAAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1897773 original size:14 final size:15
Alignment explanation
Indices: 1897747--1897776 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1897737 AATTAAAGTT
1897747 TGAAATCAATAATAA
1 TGAAATCAATAATAA
1897762 TGAAAT-AATAATAA
1 TGAAATCAATAATAA
1897776 T
1 T
1897777 AATGATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (15 bp):
TGAAATCAATAATAA
Found at i:1897788 original size:17 final size:16
Alignment explanation
Indices: 1897749--1897789 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
1897739 TTAAAGTTTG
1897749 AAATCAATAATAATGAA
1 AAAT-AATAATAATGAA
1897766 ATAATAATAATAATGATA
1 A-AATAATAATAATGA-A
1897784 AAATAA
1 AAATAA
1897790 AACTTAGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (16 bp):
AAATAATAATAATGAA
Found at i:1899070 original size:3 final size:3
Alignment explanation
Indices: 1899062--1899145 Score: 68
Period size: 3 Copynumber: 27.3 Consensus size: 3
1899052 AACGAAAGAA
*
1899062 AAT AAT AAT ATT AAT AAT AATT AAT AA- AAT AAAT AACT AATT AAT AA-
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AA-T AA-T AAT AAT
*
1899109 AAC AAGT AA- ATAT AA- AAT AAT AAT AAT AAT AAT AAT A
1 AAT AA-T AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
1899146 CTATAAAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.10
3 46 0.68
4 15 0.22
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1899159 original size:9 final size:10
Alignment explanation
Indices: 1899063--1899159 Score: 54
Period size: 9 Copynumber: 10.3 Consensus size: 10
1899053 ACGAAAGAAA
1899063 ATAATAATAT
1 ATAATAATAT
1899073 -TAATAATA-
1 ATAATAATAT
*
1899081 ATTAATAAAAT
1 A-TAATAATAT
1899092 A-AATAACTA-
1 ATAATAA-TAT
1899101 ATTAATAA-A-
1 A-TAATAATAT
*
1899110 ACAAGTAA-AT
1 ATAA-TAATAT
1899120 ATAA-AATA-
1 ATAATAATAT
1899128 ATAATAATA-
1 ATAATAATAT
1899137 ATAATAATACT
1 ATAATAATA-T
1899148 ATAA-AATAT
1 ATAATAATAT
1899157 ATA
1 ATA
1899160 TTTCGAAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 25
0.71 0.04 0.25
Matches are distributed among these distances:
8 8 0.11
9 38 0.54
10 15 0.21
11 10 0.14
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (10 bp):
ATAATAATAT
Found at i:1899194 original size:37 final size:35
Alignment explanation
Indices: 1899153--1899376 Score: 322
Period size: 35 Copynumber: 6.2 Consensus size: 35
1899143 ATACTATAAA
* *
1899153 ATATATATTTCGAAAAATATTTTTAAAACTATATATT
1 ATATA-ATTTC-AAAAATGTTTTTAAAACTATACATT
1899190 ATATAATTTTCAAAAAATGTTTTTTTAAAACTATACATT
1 ATATAA-TTTC-AAAAATG--TTTTTAAAACTATACATT
* *
1899229 ATATAATTTCAAAAATGTTTTTTAAACTATATATT
1 ATATAATTTCAAAAATGTTTTTAAAACTATACATT
1899264 ATATAATTTTTCAAAAATGTTTTTAAAACTATACATT
1 ATATAA--TTTCAAAAATGTTTTTAAAACTATACATT
1899301 ATATAATTTCAAAAATGTTTTTAAAACTATACATT
1 ATATAATTTCAAAAATGTTTTTAAAACTATACATT
* *
1899336 ATATAATTTCAAAAATGTTTTTAAAACTATATAAT
1 ATATAATTTCAAAAATGTTTTTAAAACTATACATT
1899371 ATATAA
1 ATATAA
1899377 ATGTTTTCAA
Statistics
Matches: 173, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
35 90 0.52
36 1 0.01
37 55 0.32
38 4 0.02
39 23 0.13
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (35 bp):
ATATAATTTCAAAAATGTTTTTAAAACTATACATT
Found at i:1899232 original size:72 final size:71
Alignment explanation
Indices: 1899153--1899376 Score: 342
Period size: 72 Copynumber: 3.1 Consensus size: 71
1899143 ATACTATAAA
*
1899153 ATATATATTTCGAAAAATATTTTTAAAACTATATATTATATAATTTTCAAAAAATGTTTTTTTAA
1 ATATA-ATTTC-AAAAATGTTTTTAAAACTATATATTATATAATTTTC-AAAAATG--TTTTTAA
1899218 AACTATACATT
61 AACTATACATT
*
1899229 ATATAATTTCAAAAATGTTTTTTAAACTATATATTATATAATTTTTCAAAAATGTTTTTAAAACT
1 ATATAATTTCAAAAATGTTTTTAAAACTATATATTATATAA-TTTTCAAAAATGTTTTTAAAACT
1899294 ATACATT
65 ATACATT
*
1899301 ATATAATTTCAAAAATGTTTTTAAAACTATACATTATATAA-TTTCAAAAATGTTTTTAAAACTA
1 ATATAATTTCAAAAATGTTTTTAAAACTATATATTATATAATTTTCAAAAATGTTTTTAAAACTA
* *
1899365 TATAAT
66 TACATT
1899371 ATATAA
1 ATATAA
1899377 ATGTTTTCAA
Statistics
Matches: 141, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
70 33 0.23
72 57 0.40
74 36 0.26
75 10 0.07
76 5 0.04
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (71 bp):
ATATAATTTCAAAAATGTTTTTAAAACTATATATTATATAATTTTCAAAAATGTTTTTAAAACTA
TACATT
Found at i:1899389 original size:28 final size:28
Alignment explanation
Indices: 1899348--1899415 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
1899338 ATAATTTCAA
* *
1899348 AAATGTTTT-TAAAACTATATAATATAT
1 AAATGTTTTCAAAAAATATATAATATAT
1899375 AAATGTTTTCAAAAAATATATAATATAT
1 AAATGTTTTCAAAAAATATATAATATAT
1899403 AAA--TTTTCAAAAA
1 AAATGTTTTCAAAAA
1899416 TTATTTTCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 10 0.26
27 9 0.24
28 19 0.50
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (28 bp):
AAATGTTTTCAAAAAATATATAATATAT
Done.