Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007844.1 Hibiscus syriacus cultivar Beakdansim tig00110198_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: 2094103
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:1439225 original size:32 final size:32
Alignment explanation
Indices: 1439166--1439294 Score: 120
Period size: 32 Copynumber: 3.9 Consensus size: 32
1439156 CTTTTAAAAA
* *
1439166 ATTA-AAAAAAATCATTAAA-TTTATCAAATT
1 ATTACAAAATAATAATTAAATTTTATCAAATT
1439196 ATTACAAAATAATAATTAAATTTTATCAAATT
1 ATTACAAAATAATAATTAAATTTTATCAAATT
* * *
1439228 ATTTCAAAATCATCATAAATTTCAATTTCTATCTAATT
1 ATTACAAAAT-A--AT-AA-TTAAATTT-TATCAAATT
* *
1439266 GTTACAAAATAATAATTAAAATTT-TCAAA
1 ATTACAAAATAATAATTAAATTTTATCAAA
1439295 CTCTTACACT
Statistics
Matches: 81, Mismatches: 10, Indels: 15
0.76 0.09 0.14
Matches are distributed among these distances:
30 4 0.05
31 17 0.21
32 21 0.26
33 7 0.09
34 2 0.02
35 4 0.05
36 2 0.02
37 8 0.10
38 16 0.20
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (32 bp):
ATTACAAAATAATAATTAAATTTTATCAAATT
Found at i:1440596 original size:21 final size:20
Alignment explanation
Indices: 1440563--1440601 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1440553 ATAATTATTT
1440563 AAAAAATTAAATAAAAAACC
1 AAAAAATTAAATAAAAAACC
*
1440583 AAAAATATTTAATAAAAAA
1 AAAAA-ATTAAATAAAAAA
1440602 TATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAAATTAAATAAAAAACC
Found at i:1465239 original size:72 final size:72
Alignment explanation
Indices: 1465122--1465278 Score: 212
Period size: 72 Copynumber: 2.2 Consensus size: 72
1465112 CTCTACTTAT
* *
1465122 ATTTCAAATGGTTGACAATATCCTGAAGTTAGGAAGTTCCATGAATGTTTTGCT-ATAGAAAAGT
1 ATTTCAAATGGTTGACAATATCCTGAAGTTAGGAAGTTCCATGAATCTTTT-CTCATACAAAAGT
1465186 T-CGATTAG
65 TCCG-TTAG
* *
1465194 ATTTCAAATGGTTGACAATATCCTGTAA-TTAGGTAGTTCCATGAATCTTTTTTCATACAAAAGT
1 ATTTCAAATGGTTGACAATATCCTG-AAGTTAGGAAGTTCCATGAATCTTTTCTCATACAAAAGT
1465258 TCCGTTAG
65 TCCGTTAG
* *
1465266 ATATCAAACGGTT
1 ATTTCAAATGGTT
1465279 CCCAATCTCT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
71 1 0.01
72 71 0.93
73 4 0.05
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.36
Consensus pattern (72 bp):
ATTTCAAATGGTTGACAATATCCTGAAGTTAGGAAGTTCCATGAATCTTTTCTCATACAAAAGTT
CCGTTAG
Found at i:1471976 original size:108 final size:108
Alignment explanation
Indices: 1471835--1472050 Score: 378
Period size: 108 Copynumber: 2.0 Consensus size: 108
1471825 TTGGCTAAAC
* * *
1471835 TTCCCAAATCAAGCCCAAGGATTCTGTTTCAAGCTATATTGAGATTTTTAAAAAAGACATACTTT
1 TTCCCAAACCAAGCCCAAGGATTCTGTTTCAAGCCATATTGAGATTTTTAAAAAAGACATACATT
*
1471900 CCCTGAATAATAAAACCAGGTGGTTGCTCCATATACACCTCCT
66 CCCTGAACAATAAAACCAGGTGGTTGCTCCATATACACCTCCT
*
1471943 TTCCCAAACCAAGCCCGAGGATTCTGTTTCAAGCCATATTGAGATTTTTAAAAAAGACATACATT
1 TTCCCAAACCAAGCCCAAGGATTCTGTTTCAAGCCATATTGAGATTTTTAAAAAAGACATACATT
*
1472008 CCCTGAACAATAAAACCAGGTGGTTGCTCCATATACACTTCCT
66 CCCTGAACAATAAAACCAGGTGGTTGCTCCATATACACCTCCT
1472051 CCCAAAAAAC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (108 bp):
TTCCCAAACCAAGCCCAAGGATTCTGTTTCAAGCCATATTGAGATTTTTAAAAAAGACATACATT
CCCTGAACAATAAAACCAGGTGGTTGCTCCATATACACCTCCT
Found at i:1473566 original size:17 final size:17
Alignment explanation
Indices: 1473533--1473566 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1473523 TAGACGTAAC
*
1473533 CTTACAGAGTTGAATGT
1 CTTACAGAGATGAATGT
*
1473550 CTTACAGAGATGGATGT
1 CTTACAGAGATGAATGT
1473567 GGTAAAACCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (17 bp):
CTTACAGAGATGAATGT
Found at i:1480335 original size:6 final size:6
Alignment explanation
Indices: 1480324--1480374 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
1480314 AATACAAAAG
1480324 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
1480372 GAT
1 GAT
1480375 CTTCTCCTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (6 bp):
GATTTT
Found at i:1485364 original size:26 final size:26
Alignment explanation
Indices: 1485328--1485419 Score: 166
Period size: 26 Copynumber: 3.5 Consensus size: 26
1485318 GATTGTTCCT
*
1485328 GTATTGGTGAGTTCAGTCGAACTCGA
1 GTATTGGTGAGTTCAGTCGAGCTCGA
*
1485354 GTATTGGTGAGTTCAATCGAGCTCGA
1 GTATTGGTGAGTTCAGTCGAGCTCGA
1485380 GTATTGGTGAGTTCAGTCGAGCTCGA
1 GTATTGGTGAGTTCAGTCGAGCTCGA
1485406 GTATTGGTGAGTTC
1 GTATTGGTGAGTTC
1485420 GACTCGACTC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.33
Consensus pattern (26 bp):
GTATTGGTGAGTTCAGTCGAGCTCGA
Found at i:1486522 original size:31 final size:31
Alignment explanation
Indices: 1486466--1486567 Score: 120
Period size: 31 Copynumber: 3.4 Consensus size: 31
1486456 AAGATTTAAT
* *
1486466 TATTAATTT-ATT-CTAAATTTTAGATAAAA
1 TATTAATTTGATTATTAAACTTTAGATAAAA
*
1486495 TATTAATTTGATCTA-TGAACTTTAGATAAAA
1 TATTAATTTGAT-TATTAAACTTTAGATAAAA
* *
1486526 TACTAATTTGATTATTAAAGTTTAGATAAAA
1 TATTAATTTGATTATTAAACTTTAGATAAAA
*
1486557 TATTAAATTGA
1 TATTAATTTGA
1486568 CTCCAAATCT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
29 9 0.15
30 4 0.06
31 49 0.79
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (31 bp):
TATTAATTTGATTATTAAACTTTAGATAAAA
Found at i:1486673 original size:16 final size:16
Alignment explanation
Indices: 1486638--1486673 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1486628 CATTGAACCT
*
1486638 CAATGATACATACCAG
1 CAATGATACATACCAA
*
1486654 CAATGATACATGCCAA
1 CAATGATACATACCAA
1486670 CAAT
1 CAAT
1486674 CACCTGCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.25, G:0.11, T:0.19
Consensus pattern (16 bp):
CAATGATACATACCAA
Found at i:1489951 original size:184 final size:183
Alignment explanation
Indices: 1489640--1490014 Score: 644
Period size: 184 Copynumber: 2.0 Consensus size: 183
1489630 ATAAAAATTA
* *
1489640 AATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAAT
1 AATA-TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAT
* *
1489705 TTTAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATTTTAAATTAT
65 TTTAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATATTAAATTAT
*
1489770 TAATTGGGTTTTAAATGGTTTGGGCTGAACCT-ATATGTTATATATAATATATAT
130 TAATTGGGTTTTAAATGGTTTGAGCTG-ACCTCATATGTTATATATAATATATAT
1489824 AATATTTTTAATTAAAAAAATAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAT
1 AATATTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAT
*
1489889 TTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATATTAAATTAT
65 TTTAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATATTAAATTAT
* *
1489954 TAATTGGGTTTTAAATGGTTTGAGCTGAGCTCATATGTTATATATAATATATTT
130 TAATTGGGTTTTAAATGGTTTGAGCTGACCTCATATGTTATATATAATATATAT
1490008 AATATTT
1 AATATTT
1490015 AAAATTTAAT
Statistics
Matches: 181, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
183 18 0.10
184 163 0.90
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.46
Consensus pattern (183 bp):
AATATTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATT
TTAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATATTAAATTATT
AATTGGGTTTTAAATGGTTTGAGCTGACCTCATATGTTATATATAATATATAT
Found at i:1499090 original size:87 final size:86
Alignment explanation
Indices: 1498989--1499147 Score: 309
Period size: 87 Copynumber: 1.8 Consensus size: 86
1498979 GAAGAAAAAT
1498989 GCTAAATAATATATACAATATGTTAAATATTTCGGTTAATTAACTGATTTCGAAACCGAATTAAC
1 GCTAAATAATATATACAATATGTTAAATATTTCGGTTAATTAACTGATTTCG-AACCGAATTAAC
1499054 CGAAGTTTTAAACACCCCTAAA
65 CGAAGTTTTAAACACCCCTAAA
1499076 GCTAAATAATATATACAATATGTTAAATATTTCGGTTAATTAACTGATTTCGAACCGAATTAACC
1 GCTAAATAATATATACAATATGTTAAATATTTCGGTTAATTAACTGATTTCGAACCGAATTAACC
1499141 GAAGTTT
66 GAAGTTT
1499148 GAAAAAGACC
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 20 0.28
87 52 0.72
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (86 bp):
GCTAAATAATATATACAATATGTTAAATATTTCGGTTAATTAACTGATTTCGAACCGAATTAACC
GAAGTTTTAAACACCCCTAAA
Found at i:1500096 original size:24 final size:25
Alignment explanation
Indices: 1500048--1500103 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
1500038 TTATAGATTA
*
1500048 AATATTTAATTAACTTTATTATTTT
1 AATATTTAAATAACTTTATTATTTT
*
1500073 AA-ATTTAAATAA-TTTATCTCTTTT
1 AATATTTAAATAACTTTAT-TATTTT
1500097 AATATTT
1 AATATTT
1500104 GATCTTAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 5 0.19
24 16 0.59
25 6 0.22
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (25 bp):
AATATTTAAATAACTTTATTATTTT
Found at i:1501619 original size:28 final size:29
Alignment explanation
Indices: 1501588--1501656 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
1501578 AATAATTTAT
1501588 TATAATTTAATTATAA-TTTTAATAAAAA
1 TATAATTTAATTATAATTTTTAATAAAAA
* *
1501616 TATAATTCAATTATAATTTTTATTAAAAA
1 TATAATTTAATTATAATTTTTAATAAAAA
1501645 TAATAA-TTAATT
1 T-ATAATTTAATT
1501657 TAGGTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.42
29 17 0.47
30 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
TATAATTTAATTATAATTTTTAATAAAAA
Found at i:1503011 original size:6 final size:6
Alignment explanation
Indices: 1502992--1503027 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
1502982 GTTTGGGGAT
* *
1502992 TTAAGA TTATGA TTAAGA TTAAGA TTATGA TTAAGA
1 TTAAGA TTAAGA TTAAGA TTAAGA TTAAGA TTAAGA
1503028 ATTTTGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (6 bp):
TTAAGA
Found at i:1503015 original size:18 final size:18
Alignment explanation
Indices: 1502992--1503027 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1502982 GTTTGGGGAT
1502992 TTAAGATTATGATTAAGA
1 TTAAGATTATGATTAAGA
1503010 TTAAGATTATGATTAAGA
1 TTAAGATTATGATTAAGA
1503028 ATTTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (18 bp):
TTAAGATTATGATTAAGA
Found at i:1504590 original size:60 final size:60
Alignment explanation
Indices: 1504468--1504624 Score: 151
Period size: 60 Copynumber: 2.6 Consensus size: 60
1504458 TAGTATATAT
* * * *
1504468 ATAGTTTCGGATGAAATTGGAATGTTCAAAAAGTTTAGGGGCCAAATTAGAATGAAATTC
1 ATAGTTTGGGATGAAATTGAAATGTTCAAAAAGTTTAGGGACCAAATTAGAATCAAATTC
* * *
1504528 ATAGTTTGGGGATGAAATTGAAATGTTC-AAAA-TTTTGAGGACTAATTTAGAATCATAA-TC
1 ATAGTTT-GGGATGAAATTGAAATGTTCAAAAAGTTTAG-GGACCAAATTAGAATCA-AATTC
* * * *
1504588 ATAGTTTAGGGATTAAAATGAAATATT-TAAAAGTTTA
1 ATAGTTT-GGGATGAAATTGAAATGTTCAAAAAGTTTA
1504625 AGGATCAATT
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
59 4 0.05
60 53 0.66
61 23 0.29
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTGAAATGTTCAAAAAGTTTAGGGACCAAATTAGAATCAAATTC
Found at i:1504597 original size:325 final size:326
Alignment explanation
Indices: 1503998--1504656 Score: 1259
Period size: 325 Copynumber: 2.0 Consensus size: 326
1503988 TAGTCCCTAA
* *
1503998 ACTTTGAATATTCCAATTTCATCTCCAAATTCATCCAAATATATAATTAGTTTCAACCATAGTTA
1 ACTTTG-ATATTCCAATTTCATCTCAAAATTCATCCAAATATATAATTAGTTTCAACCAAAGTTA
1504063 ATTTAAATTTTGTTTTTTTAAACATATAATAATAACTTGGCCTAACAGTTTTATTAACAAGGGAT
65 ATTTAAATTTTGTTTTTTTAAACATATAATAATAACTTGGCCTAACAGTTTTATTAACAAGGGAT
1504128 GTGATTAGTATATATATAGTTTCGGATGAAATTGGAATGTTCAAAAAGTTTAGGGGCCAAATTAG
130 GTGATTAGTATATATATAGTTTCGGATGAAATTGGAATGTTCAAAAAGTTTAGGGGCCAAATTAG
*
1504193 AATGAAATTCATAGTTTGGGGATGAGATTGAAATGTTCAAAATTTTGAGGACTAATTTAGAATCA
195 AATGAAATTCATAGTTTGGGGATGAAATTGAAATGTTCAAAATTTTGAGGACTAATTTAGAATCA
1504258 TAATCATAGTTTAGGGATTAAAATGAAATATTTAAAAGTTTAAGGATCAATTTAAAATGAATATC
260 TAATCATAGTTTAGGGATTAAAATGAAATATTTAAAAGTTTAAGGATCAATTTAAAATGAATATC
1504323 AT
325 AT
1504325 ACTTTGA-ATTCCAATTTCATCTCAAAATTCATCCAAATATATAATTAGTTTCAACCAAAGTTAA
1 ACTTTGATATTCCAATTTCATCTCAAAATTCATCCAAATATATAATTAGTTTCAACCAAAGTTAA
1504389 TTTAAATTTTGTTTTTTTAAACATATAATAATAACTTGGCCTAAC-GATTTTATTAACAAGGGAT
66 TTTAAATTTTGTTTTTTTAAACATATAATAATAACTTGGCCTAACAG-TTTTATTAACAAGGGAT
1504453 GTGATTAGTATATATATAGTTTCGGATGAAATTGGAATGTTCAAAAAGTTTAGGGGCCAAATTAG
130 GTGATTAGTATATATATAGTTTCGGATGAAATTGGAATGTTCAAAAAGTTTAGGGGCCAAATTAG
1504518 AATGAAATTCATAGTTTGGGGATGAAATTGAAATGTTCAAAATTTTGAGGACTAATTTAGAATCA
195 AATGAAATTCATAGTTTGGGGATGAAATTGAAATGTTCAAAATTTTGAGGACTAATTTAGAATCA
1504583 TAATCATAGTTTAGGGATTAAAATGAAATATTTAAAAGTTTAAGGATCAATTTAAAATGAATATC
260 TAATCATAGTTTAGGGATTAAAATGAAATATTTAAAAGTTTAAGGATCAATTTAAAATGAATATC
1504648 AT
325 AT
1504650 ACTTTGA
1 ACTTTGA
1504657 GCACATGTGA
Statistics
Matches: 328, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
324 1 0.00
325 320 0.98
326 1 0.00
327 6 0.02
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (326 bp):
ACTTTGATATTCCAATTTCATCTCAAAATTCATCCAAATATATAATTAGTTTCAACCAAAGTTAA
TTTAAATTTTGTTTTTTTAAACATATAATAATAACTTGGCCTAACAGTTTTATTAACAAGGGATG
TGATTAGTATATATATAGTTTCGGATGAAATTGGAATGTTCAAAAAGTTTAGGGGCCAAATTAGA
ATGAAATTCATAGTTTGGGGATGAAATTGAAATGTTCAAAATTTTGAGGACTAATTTAGAATCAT
AATCATAGTTTAGGGATTAAAATGAAATATTTAAAAGTTTAAGGATCAATTTAAAATGAATATCA
T
Found at i:1504649 original size:60 final size:60
Alignment explanation
Indices: 1504464--1504650 Score: 141
Period size: 60 Copynumber: 3.1 Consensus size: 60
1504454 TGATTAGTAT
* * * * * * * * *
1504464 ATAT-ATAGTTT-CGGATGAAATTGGAATGTTCAAAAAGTTTAGGGGCCAAATTAGAATGA
1 ATATCATAGTTTAGGGATGAAAATGAAATATTC-AAAAGTTTAAGGACTAATTTAAAATGA
* * * * * * *
1504523 A-ATTCATAGTTTGGGGATGAAATTGAAATGTTCAAAATTTTGAGGACTAATTTAGAAT-C
1 ATA-TCATAGTTTAGGGATGAAAATGAAATATTCAAAAGTTTAAGGACTAATTTAAAATGA
* *
1504582 ATAATCATAGTTTAGGGATTAAAATGAAATATTTAAAAGTTTAAGGA-TCAATTTAAAATGA
1 AT-ATCATAGTTTAGGGATGAAAATGAAATATTCAAAAGTTTAAGGACT-AATTTAAAATGA
1504643 ATATCATA
1 ATATCATA
1504651 CTTTGAGCAC
Statistics
Matches: 103, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
58 1 0.01
59 4 0.04
60 77 0.75
61 21 0.20
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.34
Consensus pattern (60 bp):
ATATCATAGTTTAGGGATGAAAATGAAATATTCAAAAGTTTAAGGACTAATTTAAAATGA
Found at i:1506870 original size:87 final size:87
Alignment explanation
Indices: 1506719--1507049 Score: 468
Period size: 87 Copynumber: 3.8 Consensus size: 87
1506709 TCATTTAACC
* * * *
1506719 GGAAATATTACCAAGTACAATAACATATTAGGTACCGCTTATATAATGTAAT-AG-ATAGAGCTT
1 GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAAGTAT-CA-CTT
*
1506782 ATATAATAAAATAGGTTAATTACT
64 ATATAATAAAATAAGTTAATTACT
* *
1506806 GGAAACATTATCAAGCACAATAATATATTAGGTACTGCTTATATAATGTAATAAGTATCACTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAAGTATCACTTAT
*
1506871 ATAATAAAATAAGTTCATTACT
66 ATAATAAAATAAGTTAATTACT
* * * * * **
1506893 GAAAACATTATCAAACACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAAGTATCACTTAT
1506958 ATAATAAAATAAGTTAATTACT
66 ATAATAAAATAAGTTAATTACT
* * *
1506980 GGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAGGTATCACTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAAGTATCACTTAT
1507045 ATAAT
66 ATAAT
1507050 GTAATAGGTA
Statistics
Matches: 216, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
87 211 0.98
88 3 0.01
89 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (87 bp):
GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAAGTATCACTTAT
ATAATAAAATAAGTTAATTACT
Found at i:1506938 original size:23 final size:23
Alignment explanation
Indices: 1506912--1506961 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1506902 ATCAAACACA
*
1506912 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
1506935 ATAATGTAATAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
1506958 ATAA
1 ATAA
1506962 TAAAATAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1506968 original size:23 final size:23
Alignment explanation
Indices: 1506921--1506968 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1506911 AATAACATAT
**
1506921 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
*
1506944 TAGGTAGCGTTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
1506967 TA
1 TA
1506969 AGTTAATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:1507025 original size:174 final size:174
Alignment explanation
Indices: 1506735--1507350 Score: 757
Period size: 174 Copynumber: 3.4 Consensus size: 174
1506725 ATTACCAAGT
* * * *
1506735 ACAATAACATATTAGGTACCGCTTATATAATGTAATAGATAGAGCTTATATAATAAAATAGGTTA
1 ACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTA
* * **
1506800 ATTACTGGAAACATTATCAAGCACAATAATATATTAGGTACTGCTTATATAATGTAATAAGTATC
66 ATTACTGGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAAGTATC
*
1506865 ACTTATATAATAAAATAAGTTCATTACTGAAAACATTATCAAAC
131 ACTTATATAATAAAATAGGTTCATTACTGAAAACATTATCAAAC
*
1506909 ACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATAAAATAAGTTA
1 ACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTA
*
1506974 ATTACTGGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAGGTATC
66 ATTACTGGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAAGTATC
** * * *
1507039 ACTTATATAATGTAATAGGTATCACTTATATAATAAAATAAGTTAATTACTGAAAACATTATCAA
131 ACTTATATAATAAAATAGGT-T--C--AT-TACT-GAA-AA---CATTA-T-----CA------A
1507104 AC
173 AC
*
1507106 ACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATAAAATAAGTTA
1 ACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTA
* * * * *
1507171 GTTATTGGAAATATTATCAATCACAATAACATATTAGGTACCACTTATATAATGTAATATGTAAC
66 ATTACTGGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAAGTATC
* *
1507236 ACTTATATAATAAAATAGGTTAATTACTGGAAACATTATCAAAC
131 ACTTATATAATAAAATAGGTTCATTACTGAAAACATTATCAAAC
* * * *
1507280 ACAATAACATATTAGGTTGCGCTTATATAACGTAATATGTAGCGCTTATATAGTAAAAT-AGATT
1 ACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAG-TT
1507344 AATTACT
65 AATTACT
1507351 TAATTTGTTA
Statistics
Matches: 383, Mismatches: 35, Indels: 48
0.82 0.08 0.10
Matches are distributed among these distances:
173 2 0.01
174 201 0.52
175 1 0.00
177 1 0.00
179 2 0.01
180 5 0.01
181 2 0.01
182 2 0.01
185 5 0.01
186 5 0.01
189 2 0.01
190 1 0.00
191 5 0.01
192 2 0.01
196 1 0.00
197 146 0.38
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.34
Consensus pattern (174 bp):
ACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTA
ATTACTGGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAAGTATC
ACTTATATAATAAAATAGGTTCATTACTGAAAACATTATCAAAC
Found at i:1507035 original size:110 final size:110
Alignment explanation
Indices: 1506921--1507159 Score: 379
Period size: 110 Copynumber: 2.2 Consensus size: 110
1506911 AATAACATAT
** * *
1506921 TAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATAAAATAAGTTAATTACTGGAAAT
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAAGTTAATTACTGAAAAC
*
1506986 ATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAA
66 ATTATCAAACACAATAACATATTAGGTACCACTTATATAATGTAA
* * *
1507031 TAGGTATCACTTATATAATGTAATAGGTATCACTTATATAATAAAATAAGTTAATTACTGAAAAC
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAAGTTAATTACTGAAAAC
* *
1507096 ATTATCAAACACAATAACATATTAGGTAGCGCTTATATAATGTAA
66 ATTATCAAACACAATAACATATTAGGTACCACTTATATAATGTAA
*
1507141 TAGGTAGCGTTTATATAAT
1 TAGGTAGCGCTTATATAAT
1507160 AAAATAAGTT
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 116 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (110 bp):
TAGGTAGCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAAGTTAATTACTGAAAAC
ATTATCAAACACAATAACATATTAGGTACCACTTATATAATGTAA
Found at i:1507078 original size:23 final size:23
Alignment explanation
Indices: 1507008--1507072 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
1506998 AATAACATAT
*
1507008 TAGGTACCACTTATATAATGTAA
1 TAGGTATCACTTATATAATGTAA
1507031 TAGGTATCACTTATATAATGTAA
1 TAGGTATCACTTATATAATGTAA
1507054 TAGGTATCACTTATATAAT
1 TAGGTATCACTTATATAAT
1507073 AAAATAAGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (23 bp):
TAGGTATCACTTATATAATGTAA
Found at i:1507092 original size:197 final size:197
Alignment explanation
Indices: 1506843--1507255 Score: 745
Period size: 197 Copynumber: 2.1 Consensus size: 197
1506833 TTAGGTACTG
* *
1506843 CTTATATAATGTAATAAGTATCACTTATATAATAAAATAAGTTCATTACTGAAAACATTATCAAA
1 CTTATATAATGTAATAGGTATCACTTATATAATAAAATAAGTTAATTACTGAAAACATTATCAAA
1506908 CACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATAAAATAAGTT
66 CACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATAAAATAAGTT
*
1506973 AATTACTGGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAGGTAT
131 AATTACTGGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAGGTAA
1507038 CA
196 CA
1507040 CTTATATAATGTAATAGGTATCACTTATATAATAAAATAAGTTAATTACTGAAAACATTATCAAA
1 CTTATATAATGTAATAGGTATCACTTATATAATAAAATAAGTTAATTACTGAAAACATTATCAAA
1507105 CACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATAAAATAAGTT
66 CACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATAAAATAAGTT
* * * *
1507170 AGTTATTGGAAATATTATCAATCACAATAACATATTAGGTACCACTTATATAATGTAATATGTAA
131 AATTACTGGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAGGTAA
1507235 CA
196 CA
**
1507237 CTTATATAATAAAATAGGT
1 CTTATATAATGTAATAGGT
1507256 TAATTACTGG
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
197 207 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (197 bp):
CTTATATAATGTAATAGGTATCACTTATATAATAAAATAAGTTAATTACTGAAAACATTATCAAA
CACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATAAAATAAGTT
AATTACTGGAAATATTATCAAGCACAATAACATATTAGGTACCACTTATATAATGTAATAGGTAA
CA
Found at i:1507122 original size:87 final size:87
Alignment explanation
Indices: 1507031--1507350 Score: 437
Period size: 87 Copynumber: 3.7 Consensus size: 87
1507021 TATAATGTAA
* *
1507031 TAGGTATCACTTATATAATGTAATAGGTATCACTTATATAATAAAATAAGTTAATTACTGAAAAC
1 TAGGTATCACTTATATAATGTAATAGGTAGCACTTATATAATAAAATAAGTTAATTACTGGAAAC
1507096 ATTATCAAACACAATAACATAT
66 ATTATCAAACACAATAACATAT
* * ** * * *
1507118 TAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATAAAATAAGTTAGTTATTGGAAAT
1 TAGGTATCACTTATATAATGTAATAGGTAGCACTTATATAATAAAATAAGTTAATTACTGGAAAC
*
1507183 ATTATCAATCACAATAACATAT
66 ATTATCAAACACAATAACATAT
* * * *
1507205 TAGGTACCACTTATATAATGTAATATGTAACACTTATATAATAAAATAGGTTAATTACTGGAAAC
1 TAGGTATCACTTATATAATGTAATAGGTAGCACTTATATAATAAAATAAGTTAATTACTGGAAAC
1507270 ATTATCAAACACAATAACATAT
66 ATTATCAAACACAATAACATAT
* * * * *
1507292 TAGGT-TGCGCTTATATAACGTAATATGTAGCGCTTATATAGTAAAAT-AGATTAATTACT
1 TAGGTAT-CACTTATATAATGTAATAGGTAGCACTTATATAATAAAATAAG-TTAATTACT
1507351 TAATTTGTTA
Statistics
Matches: 203, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
86 1 0.00
87 202 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (87 bp):
TAGGTATCACTTATATAATGTAATAGGTAGCACTTATATAATAAAATAAGTTAATTACTGGAAAC
ATTATCAAACACAATAACATAT
Found at i:1507135 original size:23 final size:23
Alignment explanation
Indices: 1507109--1507158 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1507099 ATCAAACACA
*
1507109 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
1507132 ATAATGTAATAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
1507155 ATAA
1 ATAA
1507159 TAAAATAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1507165 original size:23 final size:23
Alignment explanation
Indices: 1507118--1507165 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1507108 AATAACATAT
**
1507118 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
*
1507141 TAGGTAGCGTTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
1507164 TA
1 TA
1507166 AGTTAGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:1507309 original size:23 final size:23
Alignment explanation
Indices: 1507283--1507331 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1507273 ATCAAACACA
* *
1507283 ATAACATATTAGGTTGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
1507306 ATAACGTAATATGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1507329 ATA
1 ATA
1507332 GTAAAATAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1507895 original size:24 final size:24
Alignment explanation
Indices: 1507866--1507911 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
1507856 TTACCAATGA
1507866 TAACAATAA-AATAATATTATTTAT
1 TAACAA-AATAATAATATTATTTAT
1507890 TAACAAAATAATAATATTATTT
1 TAACAAAATAATAATATTATTT
1507912 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
TAACAAAATAATAATATTATTTAT
Found at i:1508306 original size:31 final size:30
Alignment explanation
Indices: 1508262--1508349 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 30
1508252 TATCATAATA
*
1508262 ATTAAT-AAATATAATTTATAATAATTTTATT
1 ATTAATAAAATATAA-TAATAATAATTTT-TT
*
1508293 -TTAATAAAATATAATAATCATAATTTTTT
1 ATTAATAAAATATAATAATAATAATTTTTT
*
1508322 ATTTATAAAATTATAGAT-ATAAT-ATTTT
1 ATTAATAAAA-TATA-ATAATAATAATTTT
1508350 AATAGTAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
29 2 0.04
30 29 0.59
31 16 0.33
32 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTAATAAAATATAATAATAATAATTTTTT
Found at i:1508468 original size:24 final size:24
Alignment explanation
Indices: 1508397--1508461 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
1508387 TTCTAATATT
1508397 TTAA-AAATAATATTATTATTTTG
1 TTAATAAATAATATTATTATTTTG
1508420 TTAATAAATAATATTATTATTTTG
1 TTAATAAATAATATTATTATTTTG
1508444 TTAATAAATAATATTATT
1 TTAATAAATAATATTATT
1508462 TTATTGTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 4 0.10
24 37 0.90
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (24 bp):
TTAATAAATAATATTATTATTTTG
Found at i:1508676 original size:12 final size:12
Alignment explanation
Indices: 1508659--1508697 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1508649 AAATGCCCAA
1508659 CAATAACAAAAC
1 CAATAACAAAAC
1508671 CAAT-A-AAAA-
1 CAATAACAAAAC
1508680 -AATAACAAAAC
1 CAATAACAAAAC
1508691 CAATAAC
1 CAATAAC
1508698 GCTTTACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 3 0.13
9 1 0.04
10 8 0.35
11 1 0.04
12 10 0.43
ACGTcount: A:0.69, C:0.21, G:0.00, T:0.10
Consensus pattern (12 bp):
CAATAACAAAAC
Found at i:1516348 original size:37 final size:37
Alignment explanation
Indices: 1516306--1516382 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1516296 CTGCTAGGCA
* *
1516306 ATGAGTTTGT-AAAGAATAACTTTGCCCGAATGGTAGT
1 ATGAGTTTGTAAAAGAATAAC-TTGCCCGAATAGTACT
* *
1516343 ATGAGTTTGTAAAAGCATAACTTGCCTGAATAGTACT
1 ATGAGTTTGTAAAAGAATAACTTGCCCGAATAGTACT
1516380 ATG
1 ATG
1516383 TGCAAGAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 26 0.74
38 9 0.26
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (37 bp):
ATGAGTTTGTAAAAGAATAACTTGCCCGAATAGTACT
Found at i:1523111 original size:18 final size:19
Alignment explanation
Indices: 1523074--1523118 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
1523064 TTATCTAAAA
1523074 TTAAATTTAATTATGTATT
1 TTAAATTTAATTATGTATT
1523093 TTAATATTT-ATTA-GTATT
1 TTAA-ATTTAATTATGTATT
1523111 TTGAAATT
1 TT-AAATT
1523119 CCCTAAATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.42
19 10 0.42
20 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TTAAATTTAATTATGTATT
Found at i:1524619 original size:3 final size:3
Alignment explanation
Indices: 1524611--1524635 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1524601 ATATTGTTTA
1524611 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
1524636 TTGAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1530082 original size:16 final size:16
Alignment explanation
Indices: 1530061--1530098 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1530051 AAACTAAATA
1530061 TTTTAAT-TTGATCATT
1 TTTTAATCTTGAT-ATT
*
1530077 TTTTAATCTTTATATT
1 TTTTAATCTTGATATT
1530093 TTTTAA
1 TTTTAA
1530099 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTAATCTTGATATT
Found at i:1549486 original size:21 final size:21
Alignment explanation
Indices: 1549453--1549507 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1549443 GATTTACATA
* *
1549453 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTACGATAGTCCAAG
* *
1549474 TTCGTGTTACGATAGTCGAAG
1 TTCGCGTTACGATAGTCCAAG
*
1549495 TTCGCGTTGCGAT
1 TTCGCGTTACGAT
1549508 TTATTCCAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (21 bp):
TTCGCGTTACGATAGTCCAAG
Found at i:1549524 original size:21 final size:21
Alignment explanation
Indices: 1549499--1549654 Score: 126
Period size: 21 Copynumber: 7.4 Consensus size: 21
1549489 TCGAAGTTCG
1549499 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* *
1549520 TGTTGCGA--TAGTCCAAATT
1 CGTTGCGATTTATTCCAAATT
**
1549539 CGCGTTGCGATTTATTATAAATT
1 --CGTTGCGATTTATTCCAAATT
* *
1549562 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
*
1549581 CGCATTGCGATTTATTACAAATT
1 CG--TTGCGATTTATTCCAAATT
* *
1549604 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
*
1549623 CGCATTGCGATTTATTTCAAATT
1 CG--TTGCGATTTATTCCAAATT
1549646 CGTTGCGAT
1 CGTTGCGAT
1549655 AGTCCAAAAT
Statistics
Matches: 104, Mismatches: 19, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
19 29 0.28
21 47 0.45
23 28 0.27
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:1549529 original size:42 final size:42
Alignment explanation
Indices: 1549483--1549661 Score: 286
Period size: 42 Copynumber: 4.3 Consensus size: 42
1549473 GTTCGTGTTA
* * * *
1549483 CGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTTGTTG
1 CGATAGTCCAAGTTCGCATTGCGATTTATTACAAATTCGTTG
* * *
1549525 CGATAGTCCAAATTCGCGTTGCGATTTATTATAAATTCGTTG
1 CGATAGTCCAAGTTCGCATTGCGATTTATTACAAATTCGTTG
1549567 CGATAGTCCAAGTTCGCATTGCGATTTATTACAAATTCGTTG
1 CGATAGTCCAAGTTCGCATTGCGATTTATTACAAATTCGTTG
*
1549609 CGATAGTCCAAGTTCGCATTGCGATTTATTTCAAATTCGTTG
1 CGATAGTCCAAGTTCGCATTGCGATTTATTACAAATTCGTTG
1549651 CGATAGTCCAA
1 CGATAGTCCAA
1549662 AATCGCAACG
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 128 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (42 bp):
CGATAGTCCAAGTTCGCATTGCGATTTATTACAAATTCGTTG
Found at i:1551454 original size:22 final size:22
Alignment explanation
Indices: 1551429--1551471 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1551419 GAAAGTCAAC
1551429 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
1551451 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
1551472 AGACCGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:1551492 original size:19 final size:19
Alignment explanation
Indices: 1551470--1551566 Score: 117
Period size: 19 Copynumber: 5.1 Consensus size: 19
1551460 TCGGGTCGGG
*
1551470 TCAGACCGGTCAAACCGGC
1 TCAGACCGGTCAAACCGGT
*
1551489 TCAGACCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGGT
1551508 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
1551527 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
1551546 TCAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
1551566 T
1 T
1551567 GAAAACCGAT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
18 3 0.04
19 55 0.82
20 9 0.13
ACGTcount: A:0.28, C:0.31, G:0.26, T:0.15
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:1551515 original size:10 final size:9
Alignment explanation
Indices: 1551468--1551565 Score: 72
Period size: 9 Copynumber: 10.3 Consensus size: 9
1551458 GGTCGGGTCG
1551468 GGTCAGACC
1 GGTCAGACC
*
1551477 GGTCAAACC
1 GGTCAGACC
1551486 GGCTCAGACC
1 GG-TCAGACC
*
1551496 GGTCAAACC
1 GGTCAGACC
*
1551505 GATTCAGACC
1 G-GTCAGACC
*
1551515 GGTCAAACC
1 GGTCAGACC
1551524 GGTTC-GAACC
1 GG-TCAG-ACC
* *
1551534 GGTTGAAACC
1 GG-TCAGACC
*
1551544 GGTCAAACC
1 GGTCAGACC
1551553 GGTCAGAACC
1 GGTCAG-ACC
1551563 GGT
1 GGT
1551566 TGAAAACCGA
Statistics
Matches: 71, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
9 36 0.51
10 35 0.49
ACGTcount: A:0.28, C:0.31, G:0.28, T:0.14
Consensus pattern (9 bp):
GGTCAGACC
Found at i:1551544 original size:29 final size:28
Alignment explanation
Indices: 1551481--1551585 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 28
1551471 CAGACCGGTC
* * * *
1551481 AAACCGGCTCAGACCGGTCAAACCGATTC
1 AAACCGG-TCAAACCGGTCGAACCGGTTG
*
1551510 AGACCGGTCAAACCGGTTCGAACCGGTTG
1 AAACCGGTCAAACCGG-TCGAACCGGTTG
1551539 AAACCGGTCAAACCGGTCAGAACCGGTTG
1 AAACCGGTCAAACCGGTC-GAACCGGTTG
* *
1551568 AAAACCGATTAAACCGGT
1 -AAACCGGTCAAACCGGT
1551586 TTCCAGCAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
28 10 0.15
29 40 0.62
30 15 0.23
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.15
Consensus pattern (28 bp):
AAACCGGTCAAACCGGTCGAACCGGTTG
Found at i:1568052 original size:17 final size:17
Alignment explanation
Indices: 1568030--1568063 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1568020 ATTGTTAACC
1568030 GATATTTT-TCTATAAGA
1 GATATTTTATC-ATAAGA
1568047 GATATTTTATCATAAGA
1 GATATTTTATCATAAGA
1568064 AGGAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (17 bp):
GATATTTTATCATAAGA
Found at i:1570372 original size:26 final size:26
Alignment explanation
Indices: 1570343--1570434 Score: 139
Period size: 26 Copynumber: 3.5 Consensus size: 26
1570333 TTAAGAATTC
* *
1570343 ATAAAATTTTAAAAAGGGATATATTT
1 ATAAAATTTTAAAAAGAGATATACTT
*
1570369 ATAAAATTTTAAGAAGAGATATACTT
1 ATAAAATTTTAAAAAGAGATATACTT
*
1570395 ATAAAATTTTAAGAAGAGATATACTT
1 ATAAAATTTTAAAAAGAGATATACTT
*
1570421 ATAAAATCTTAAAA
1 ATAAAATTTTAAAA
1570435 GACGAAAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (26 bp):
ATAAAATTTTAAAAAGAGATATACTT
Found at i:1573490 original size:23 final size:23
Alignment explanation
Indices: 1573442--1573490 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1573432 TCATTTAGTT
**
1573442 TTCACGAAAATATTCATTTAACG
1 TTCACGAAAATATTCACCTAACG
* *
1573465 TTCACGAACATATTCACCTAATG
1 TTCACGAAAATATTCACCTAACG
1573488 TTC
1 TTC
1573491 GTGAATATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (23 bp):
TTCACGAAAATATTCACCTAACG
Found at i:1580258 original size:15 final size:15
Alignment explanation
Indices: 1580238--1580283 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
1580228 GTGTAGTCAG
1580238 CTGTTTTGTTTGGCA
1 CTGTTTTGTTTGGCA
*
1580253 CTGTTTTGTTT-ACA
1 CTGTTTTGTTTGGCA
1580267 GCTGTTTTGTTTGGCA
1 -CTGTTTTGTTTGGCA
1580283 C
1 C
1580284 GGCACTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.09, C:0.15, G:0.24, T:0.52
Consensus pattern (15 bp):
CTGTTTTGTTTGGCA
Found at i:1580293 original size:30 final size:30
Alignment explanation
Indices: 1580235--1580293 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1580225 TCGGTGTAGT
* ***
1580235 CAGCTGTTTTGTTTGGCACTGTTTTGTTTA
1 CAGCTGTTTTGTTTGGCACGGCACTGTTTA
1580265 CAGCTGTTTTGTTTGGCACGGCACTGTTT
1 CAGCTGTTTTGTTTGGCACGGCACTGTTT
1580294 TGTTTATTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.10, C:0.17, G:0.25, T:0.47
Consensus pattern (30 bp):
CAGCTGTTTTGTTTGGCACGGCACTGTTTA
Found at i:1581763 original size:18 final size:18
Alignment explanation
Indices: 1581742--1581778 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1581732 CTCAACTTTT
1581742 TTGTAGTTCACAATTTAG
1 TTGTAGTTCACAATTTAG
1581760 TTGTAGTTCACAATTTAG
1 TTGTAGTTCACAATTTAG
1581778 T
1 T
1581779 CCTTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (18 bp):
TTGTAGTTCACAATTTAG
Found at i:1581955 original size:13 final size:13
Alignment explanation
Indices: 1581937--1581963 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1581927 CTATCTTGTT
1581937 TATATTTTTTATA
1 TATATTTTTTATA
1581950 TATATTTTTTATA
1 TATATTTTTTATA
1581963 T
1 T
1581964 TGAGTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATATTTTTTATA
Found at i:1585273 original size:21 final size:21
Alignment explanation
Indices: 1585219--1585259 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1585209 ACATTAATTC
1585219 TAATCC-CTAATCTATAAACCG
1 TAATCCTC-AATCTATAAACCG
1585240 TAATCCTCAATCTATAAACC
1 TAATCCTCAATCTATAAACC
1585260 TCATACCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.39, C:0.29, G:0.02, T:0.29
Consensus pattern (21 bp):
TAATCCTCAATCTATAAACCG
Found at i:1586551 original size:221 final size:222
Alignment explanation
Indices: 1586022--1586656 Score: 1008
Period size: 221 Copynumber: 2.9 Consensus size: 222
1586012 AATGGCATAT
* * *
1586022 ATAGCAGTCTGCAAATATACCAAAATTGCATATATAGTTGTTATCTTTAGTAATATTGCAGTCTC
1 ATAGCAGTCTACAAATATACCAAAATGGCATATATAGTTGTTATCTTTAGAAATATTGCAGTCTC
* *
1586087 AATTCAGAAGACTATATTTCAAAGAAAATAAACAACAACAAGTGGCTAAGGGCAGACAAGAAAGA
66 AGTTCAGAAGACTATATTTCAAAGAAAATAAACGACAACAAGTGGCTAAGGGCAGACAAGAAAGA
* * *
1586152 CTTAGTTAAACATGA-TTCTATTGTAAGTGTATTGGATAAACCATGTTTCCTCTCTTCTATTACT
131 CTTAGTTAAACATGATTTC-GTTGTAAGCGTATTGGATAAACCATGCTTCCTCTCTTCTATTACT
*
1586216 CAAAAGATCCGTTTTGATTTTTGATTGC
195 CAAAAGATCCGTTTTGATTTTTGATAGC
*
1586244 ATAGCAGTCTGA-AAATATACCAAAATGGCATATATAGTTGTTATCTTTAGCAATATTGCAGTCT
1 ATAGCAGTCT-ACAAATATACCAAAATGGCATATATAGTTGTTATCTTTAGAAATATTGCAGTCT
*
1586308 CAGTTCAGAAGACTATATTTCAAAGAAAATAAACGACAACAAGTGGCTAAGGGCAGACAAGGAAG
65 CAGTTCAGAAGACTATATTTCAAAGAAAATAAACGACAACAAGTGGCTAAGGGCAGACAAGAAAG
* *
1586373 ACTTAGTTAATCATGATTTCGTTGTAAACGTATTGGATAAACCATGCTTCCTCT-TTCTATTACT
130 ACTTAGTTAAACATGATTTCGTTGTAAGCGTATTGGATAAACCATGCTTCCTCTCTTCTATTACT
* *
1586437 CAAAATATCTGTTTTGATTTTTGATAGC
195 CAAAAGATCCGTTTTGATTTTTGATAGC
* *
1586465 ATATG-AGTCTACAAATATACCAAAATGGCATATATAGATGTTATCTTTAGAAATATTGTAGTCT
1 ATA-GCAGTCTACAAATATACCAAAATGGCATATATAGTTGTTATCTTTAGAAATATTGCAGTCT
* * * *
1586529 CAGTTTAGAAGACTATATTTCAAAGAAAATAAACGACAACATGTGGGTAAGGGCATACAAGAAAG
65 CAGTTCAGAAGACTATATTTCAAAGAAAATAAACGACAACAAGTGGCTAAGGGCAGACAAGAAAG
* *
1586594 ACTTAGTTAAACATGATTACGTTGTAAGCGTATTGAATAAACCATGCTTCCTCTCTTCTATTA
130 ACTTAGTTAAACATGATTTCGTTGTAAGCGTATTGGATAAACCATGCTTCCTCTCTTCTATTA
1586657 ACTAACAGGT
Statistics
Matches: 382, Mismatches: 26, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
220 1 0.00
221 202 0.53
222 176 0.46
223 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (222 bp):
ATAGCAGTCTACAAATATACCAAAATGGCATATATAGTTGTTATCTTTAGAAATATTGCAGTCTC
AGTTCAGAAGACTATATTTCAAAGAAAATAAACGACAACAAGTGGCTAAGGGCAGACAAGAAAGA
CTTAGTTAAACATGATTTCGTTGTAAGCGTATTGGATAAACCATGCTTCCTCTCTTCTATTACTC
AAAAGATCCGTTTTGATTTTTGATAGC
Found at i:1588202 original size:18 final size:19
Alignment explanation
Indices: 1588160--1588202 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1588150 TTACTTTTGT
*
1588160 TTTATTTTTGTATTTAAAC
1 TTTATTTTTGTATTTAAAA
1588179 TTTATTTTT-T-TTTAAAA
1 TTTATTTTTGTATTTAAAA
1588196 TTATATT
1 TT-TATT
1588203 AATGTTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 5 0.23
19 9 0.41
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTATTTTTGTATTTAAAA
Found at i:1588307 original size:78 final size:80
Alignment explanation
Indices: 1588148--1588310 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 80
1588138 ATATCTAAAT
1588148 TATTACTTTTGTTTTATTTTTGTATTTAAACTTTATTTTTTTTTAAAATTATATTAATGTTTAGT
1 TATTACTTTTGTTTTATTTTTGTATTTAAACTTTA-TTTTTTTTAAAATTATATTAATGTTTAGT
*
1588213 TTAAATTTTCATTTGA
65 TTAAATTTTAATTTGA
1588229 TATTACTTTTGTTTTATTTTTGTATTTAAACTTTA-TTTTTTT-AAATTATATTAATGTTTAGTT
1 TATTACTTTTGTTTTATTTTTGTATTTAAACTTTATTTTTTTTAAAATTATATTAATGTTTAGTT
1588292 TAAATTTTAATTTGA
66 TAAATTTTAATTTGA
1588307 TATT
1 TATT
1588311 TCAACTTAAC
Statistics
Matches: 81, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
78 39 0.48
79 7 0.09
81 35 0.43
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (80 bp):
TATTACTTTTGTTTTATTTTTGTATTTAAACTTTATTTTTTTTAAAATTATATTAATGTTTAGTT
TAAATTTTAATTTGA
Found at i:1596127 original size:27 final size:27
Alignment explanation
Indices: 1596096--1596148 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1596086 AAGACACATT
* *
1596096 TTTAATTATGATGATTAGATTAATAAG
1 TTTAATTATAATCATTAGATTAATAAG
1596123 TTTAATTATAATCATTAGATTAATAA
1 TTTAATTATAATCATTAGATTAATAA
1596149 ATTTTCTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (27 bp):
TTTAATTATAATCATTAGATTAATAAG
Found at i:1597178 original size:67 final size:66
Alignment explanation
Indices: 1597054--1597187 Score: 207
Period size: 67 Copynumber: 2.0 Consensus size: 66
1597044 AACCTTAGGA
*
1597054 GAAAATGACAATTATATGTAACATTTAAATGACCTTAACAATTGTAATTATGGGCATGGAGCGTG
1 GAAAATGACAATTATATGTAACATTTAAATAACCTTAACAATTGTAATTATGGGCATGGAGCGTG
1597119 T
66 T
* * *
1597120 GAAAATGGCAATTA-AGTGTAACATTTAAAATAACCTTAACCATTGTAATTATGGGCATGGAGTG
1 GAAAATGACAATTATA-TGTAACATTT-AAATAACCTTAACAATTGTAATTATGGGCATGGAGCG
1597184 TGT
64 TGT
1597187 G
1 G
1597188 TTAATTAGAG
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 1 0.02
66 23 0.37
67 38 0.61
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (66 bp):
GAAAATGACAATTATATGTAACATTTAAATAACCTTAACAATTGTAATTATGGGCATGGAGCGTG
T
Found at i:1598634 original size:24 final size:24
Alignment explanation
Indices: 1598606--1598652 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1598596 CAACTTGAAC
1598606 TTCAAGAAAATCAGCCGCCACTTG
1 TTCAAGAAAATCAGCCGCCACTTG
1598630 TTCAAGAAAATCAGCCGCCACTT
1 TTCAAGAAAATCAGCCGCCACTT
1598653 CAAGTTGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (24 bp):
TTCAAGAAAATCAGCCGCCACTTG
Found at i:1598656 original size:21 final size:21
Alignment explanation
Indices: 1598604--1598656 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 21
1598594 TTCAACTTGA
1598604 ACTTCAAGAAAATCAGCCGCC
1 ACTTCAAGAAAATCAGCCGCC
1598625 ACTTGTTCAAGAAAATCAGCCGCC
1 AC---TTCAAGAAAATCAGCCGCC
1598649 ACTTCAAG
1 ACTTCAAG
1598657 TTGAACTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.28
24 21 0.72
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.19
Consensus pattern (21 bp):
ACTTCAAGAAAATCAGCCGCC
Found at i:1598667 original size:33 final size:33
Alignment explanation
Indices: 1598637--1598701 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
1598627 TTGTTCAAGA
* * *
1598637 AAATCAGCCGCCACTTCAAGTTGAACTTCAAAT
1 AAATCAGCCACCACCTCAACTTGAACTTCAAAT
1598670 AAATCAGCCACCACCTCAACTTGAACTTCAAA
1 AAATCAGCCACCACCTCAACTTGAACTTCAAA
1598702 ATAATGGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.22
Consensus pattern (33 bp):
AAATCAGCCACCACCTCAACTTGAACTTCAAAT
Found at i:1598853 original size:15 final size:16
Alignment explanation
Indices: 1598829--1598876 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
1598819 TCGGTGTAGT
1598829 CAGCTGTTTTGTTTGG
1 CAGCTGTTTTGTTTGG
* *
1598845 CA-TTGTTTTGTTT-A
1 CAGCTGTTTTGTTTGG
1598859 CAGCTGTTTTGTTTGG
1 CAGCTGTTTTGTTTGG
1598875 CA
1 CA
1598877 CGGCACTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 2 0.08
15 20 0.77
16 4 0.15
ACGTcount: A:0.10, C:0.12, G:0.25, T:0.52
Consensus pattern (16 bp):
CAGCTGTTTTGTTTGG
Found at i:1598887 original size:30 final size:30
Alignment explanation
Indices: 1598829--1598887 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
1598819 TCGGTGTAGT
** ***
1598829 CAGCTGTTTTGTTTGGCATTGTTTTGTTTA
1 CAGCTGTTTTGTTTGGCACGGCACTGTTTA
1598859 CAGCTGTTTTGTTTGGCACGGCACTGTTT
1 CAGCTGTTTTGTTTGGCACGGCACTGTTT
1598888 TGTTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.10, C:0.15, G:0.25, T:0.49
Consensus pattern (30 bp):
CAGCTGTTTTGTTTGGCACGGCACTGTTTA
Found at i:1600415 original size:18 final size:18
Alignment explanation
Indices: 1600394--1600430 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1600384 CTCAACTTTT
1600394 TTGTAGTTCACAATTTAG
1 TTGTAGTTCACAATTTAG
1600412 TTGTAGTTCACAATTTAG
1 TTGTAGTTCACAATTTAG
1600430 T
1 T
1600431 CCTTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (18 bp):
TTGTAGTTCACAATTTAG
Found at i:1600607 original size:13 final size:13
Alignment explanation
Indices: 1600589--1600615 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1600579 CTATCTTGTT
1600589 TATATTTTTTATA
1 TATATTTTTTATA
1600602 TATATTTTTTATA
1 TATATTTTTTATA
1600615 T
1 T
1600616 TGAGTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATATTTTTTATA
Found at i:1606041 original size:36 final size:36
Alignment explanation
Indices: 1605994--1606102 Score: 218
Period size: 36 Copynumber: 3.0 Consensus size: 36
1605984 TTTAAAGATT
1605994 GGAATAATTCATTATCCCGTATAATACCCATAATTA
1 GGAATAATTCATTATCCCGTATAATACCCATAATTA
1606030 GGAATAATTCATTATCCCGTATAATACCCATAATTA
1 GGAATAATTCATTATCCCGTATAATACCCATAATTA
1606066 GGAATAATTCATTATCCCGTATAATACCCATAATTA
1 GGAATAATTCATTATCCCGTATAATACCCATAATTA
1606102 G
1 G
1606103 AACTGTTTCT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 73 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (36 bp):
GGAATAATTCATTATCCCGTATAATACCCATAATTA
Found at i:1607220 original size:20 final size:20
Alignment explanation
Indices: 1607194--1607242 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1607184 ATTAAATTTT
1607194 AAAAAAAATTATAAAAATT-
1 AAAAAAAATTATAAAAATTC
* * *
1607213 ATAAAAAACTTTTAAAATTTC
1 A-AAAAAAATTATAAAAATTC
1607234 AAAAAAAAT
1 AAAAAAAAT
1607243 CTCAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAAAATTATAAAAATTC
Found at i:1608998 original size:23 final size:23
Alignment explanation
Indices: 1608953--1608998 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1608943 TAGTTGACTT
*
1608953 AGGTTTATAAGATTTTTTAGTAA
1 AGGTTTATAAGATTATTTAGTAA
1608976 AGGTTTATAAGATTAATTT-GTAA
1 AGGTTTATAAGATT-ATTTAGTAA
1608999 CATGATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (23 bp):
AGGTTTATAAGATTATTTAGTAA
Found at i:1609150 original size:6 final size:6
Alignment explanation
Indices: 1609139--1609167 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1609129 TTTATGTTAA
1609139 ACGGGG ACGGGG ACGGGG ACGGGG ACGGG
1 ACGGGG ACGGGG ACGGGG ACGGGG ACGGG
1609168 TTTGGTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.66, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:1617435 original size:12 final size:12
Alignment explanation
Indices: 1617414--1617453 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
1617404 TTTTTTTTCT
1617414 TAAG-ATAAAAA
1 TAAGTATAAAAA
1617425 TAAGTATAAAAA
1 TAAGTATAAAAA
*
1617437 TAAATATAAAAA
1 TAAGTATAAAAA
1617449 TAAGT
1 TAAGT
1617454 GTTGAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (12 bp):
TAAGTATAAAAA
Found at i:1617977 original size:22 final size:20
Alignment explanation
Indices: 1617949--1617996 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
1617939 TTAAAATTTA
1617949 ATATTTTATA-ATTTTATATAAT
1 ATATTTTATATA-TTTA-A-AAT
1617971 ATATTTTATATATTTAAAAT
1 ATATTTTATATATTTAAAAT
1617991 ATATTT
1 ATATTT
1617997 ATCAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.36
21 1 0.04
22 14 0.56
23 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTTTATATATTTAAAAT
Found at i:1618096 original size:16 final size:17
Alignment explanation
Indices: 1618060--1618096 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1618050 GCATAAAAAA
*
1618060 TAAATAATTTAGAAGTT
1 TAAATAATTTAGAAATT
1618077 TAAATAATTTA-AAATT
1 TAAATAATTTAGAAATT
1618093 TAAA
1 TAAA
1618097 CAAAATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAAATAATTTAGAAATT
Found at i:1618218 original size:17 final size:17
Alignment explanation
Indices: 1618196--1618237 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1618186 AATTCAGATT
1618196 TTTAAAATGTTT-AAATA
1 TTTAAAAT-TTTCAAATA
*
1618213 TTTAAAATTTTCGAATA
1 TTTAAAATTTTCAAATA
1618230 TTTAAAAT
1 TTTAAAAT
1618238 AGTGGTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (17 bp):
TTTAAAATTTTCAAATA
Found at i:1619175 original size:14 final size:13
Alignment explanation
Indices: 1619156--1619200 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
1619146 CGTTCGATTA
1619156 TATGTTCTTTCATT
1 TATGTTC-TTCATT
1619170 TATG---TTCATT
1 TATGTTCTTCATT
1619180 TATGTTCGTTCATT
1 TATGTTC-TTCATT
1619194 TATGTTC
1 TATGTTC
1619201 ATTTATGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 10 0.37
14 17 0.63
ACGTcount: A:0.16, C:0.13, G:0.11, T:0.60
Consensus pattern (13 bp):
TATGTTCTTCATT
Found at i:1619179 original size:10 final size:10
Alignment explanation
Indices: 1619164--1619210 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 10
1619154 TATATGTTCT
1619164 TTCATTTATG
1 TTCATTTATG
1619174 TTCATTTATGTTCG
1 TTCATTTA---T-G
1619188 TTCATTTATG
1 TTCATTTATG
1619198 TTCATTTATG
1 TTCATTTATG
1619208 TTC
1 TTC
1619211 GAACAGATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.17, C:0.13, G:0.11, T:0.60
Consensus pattern (10 bp):
TTCATTTATG
Found at i:1619191 original size:24 final size:24
Alignment explanation
Indices: 1619147--1619211 Score: 103
Period size: 24 Copynumber: 2.6 Consensus size: 24
1619137 GTTCGTGAAC
*
1619147 GTTCGATTATATGTTCTTTCATTTAT
1 GTTC-ATT-TATGTTCGTTCATTTAT
1619173 GTTCATTTATGTTCGTTCATTTAT
1 GTTCATTTATGTTCGTTCATTTAT
1619197 GTTCATTTATGTTCG
1 GTTCATTTATGTTCG
1619212 AACAGATGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
24 31 0.82
25 3 0.08
26 4 0.11
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.57
Consensus pattern (24 bp):
GTTCATTTATGTTCGTTCATTTAT
Found at i:1619273 original size:29 final size:29
Alignment explanation
Indices: 1619239--1619305 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
1619229 ATATGTTACA
1619239 AAGATTATTGAAGTTGTTTGGATTTCAAG
1 AAGATTATTGAAGTTGTTTGGATTTCAAG
1619268 AAGATTATTGAAGTTGTTTGGATTTCAAG
1 AAGATTATTGAAGTTGTTTGGATTTCAAG
1619297 AAGATTATT
1 AAGATTATT
1619306 TTGTTGAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.42
Consensus pattern (29 bp):
AAGATTATTGAAGTTGTTTGGATTTCAAG
Found at i:1619518 original size:10 final size:10
Alignment explanation
Indices: 1619503--1619603 Score: 84
Period size: 10 Copynumber: 10.1 Consensus size: 10
1619493 GTGTTTGTGT
1619503 TGTTCGTTTA
1 TGTTCGTTTA
1619513 TGTTCGTTTA
1 TGTTCGTTTA
1619523 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
1619536 TGTTCGTTTA
1 TGTTCGTTTA
*
1619546 TGTTCATTTA
1 TGTTCGTTTA
1619556 T-TAT-G-TT-
1 TGT-TCGTTTA
* * *
1619563 CGTTTGTTTG
1 TGTTCGTTTA
1619573 TGTTCGTTTA
1 TGTTCGTTTA
* *
1619583 CGTTAGTTTA
1 TGTTCGTTTA
1619593 TGTTCGTTTA
1 TGTTCGTTTA
1619603 T
1 T
1619604 CATTTAAATG
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
7 1 0.01
8 4 0.05
9 3 0.04
10 55 0.75
13 10 0.14
ACGTcount: A:0.11, C:0.09, G:0.20, T:0.60
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:1619521 original size:23 final size:23
Alignment explanation
Indices: 1619495--1619596 Score: 93
Period size: 23 Copynumber: 4.4 Consensus size: 23
1619485 TGTTTTTTGT
*
1619495 GTTTGTGTTGTTCGTTTATGTTC
1 GTTTATGTTGTTCGTTTATGTTC
1619518 GTTTAT-TGTGTTCGTTTATGTTC
1 GTTTATGT-TGTTCGTTTATGTTC
*
1619541 GTTTATGTTCATT--TATTATGTTC
1 GTTTATGTT-GTTCGT-TTATGTTC
* * * *
1619564 GTTTGTTTGTGTTCGTTTACGTTA
1 GTTTATGT-TGTTCGTTTATGTTC
1619588 GTTTATGTT
1 GTTTATGTT
1619597 CGTTTATCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
22 2 0.03
23 44 0.70
24 16 0.25
25 1 0.02
ACGTcount: A:0.10, C:0.08, G:0.22, T:0.61
Consensus pattern (23 bp):
GTTTATGTTGTTCGTTTATGTTC
Found at i:1619542 original size:33 final size:32
Alignment explanation
Indices: 1619486--1619567 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 32
1619476 GAATAAGTTT
* * *
1619486 GTTTTTTGTGTTTGTGTTGTTCGTTTATGTTC
1 GTTTATTGTGTTCGTTTTGTTCGTTTATGTTC
1619518 GTTTATTGTGTTCGTTTATGTTCGTTTATGTTC
1 GTTTATTGTGTTCGTTT-TGTTCGTTTATGTTC
* *
1619551 ATTTATTATGTTCGTTT
1 GTTTATTGTGTTCGTTT
1619568 GTTTGTGTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 14 0.32
33 30 0.68
ACGTcount: A:0.09, C:0.07, G:0.21, T:0.63
Consensus pattern (32 bp):
GTTTATTGTGTTCGTTTTGTTCGTTTATGTTC
Found at i:1619581 original size:47 final size:46
Alignment explanation
Indices: 1619510--1619603 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 46
1619500 TGTTGTTCGT
* *
1619510 TTATGTTCGTTTATTGTGTTCGTTTATGTTCGTTTATGTTCATTTA
1 TTATGTTCGTTTATTGTGTTCGTTTACGTTAGTTTATGTTCATTTA
* *
1619556 TTATGTTCGTTTGTTTGTGTTCGTTTACGTTAGTTTATGTTCGTTTA
1 TTATGTTCGTTT-ATTGTGTTCGTTTACGTTAGTTTATGTTCATTTA
1619603 T
1 T
1619604 CATTTAAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 12 0.28
47 31 0.72
ACGTcount: A:0.12, C:0.09, G:0.19, T:0.61
Consensus pattern (46 bp):
TTATGTTCGTTTATTGTGTTCGTTTACGTTAGTTTATGTTCATTTA
Found at i:1623295 original size:41 final size:41
Alignment explanation
Indices: 1623244--1623470 Score: 418
Period size: 41 Copynumber: 5.5 Consensus size: 41
1623234 TAGTTGAAAA
1623244 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
*
1623285 TTGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
1623326 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
* *
1623367 TCGCGTTACGATAGTCTACAGTGTCGTTGCGATTTTTCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
*
1623408 TCGCGTTGCGATAGTGTACAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
1623449 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGATAGTCTACAGT
1623471 AAATTAAAAA
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 178 1.00
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
Found at i:1624064 original size:6 final size:6
Alignment explanation
Indices: 1624053--1624299 Score: 271
Period size: 6 Copynumber: 37.8 Consensus size: 6
1624043 CCGTCGTCTC
1624053 GTCGTG GTCGTG GTCGTG GTCTCGTG GTCTCGTG GTCGTG GTCGTG GTCTCGTG
1 GTCGTG GTCGTG GTCGTG G--TCGTG G--TCGTG GTCGTG GTCGTG G--TCGTG
* *
1624107 GTCGTT CTCGTG GTCGTG GTCTCGTG GTCGTG GTCTCGTG GTC-TCG GTCGTG
1 GTCGTG GTCGTG GTCGTG G--TCGTG GTCGTG G--TCGTG GTCGT-G GTCGTG
1624159 GTCTCGTG GTCTCGTG GTCGTG GTCGTG GTCGTG GTCTCGTG GTCGTG
1 G--TCGTG G--TCGTG GTCGTG GTCGTG GTCGTG G--TCGTG GTCGTG
*
1624207 GTCGTG GTCTCGTG GTCGTG GTCGTG GTCGTG ATCGTG GTCGTG GTCGTG
1 GTCGTG G--TCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
1624257 GTCGTG GTCGTG GTCTCGTG GTCGTG GTCGTG GTCGTG GTCGT
1 GTCGTG GTCGTG G--TCGTG GTCGTG GTCGTG GTCGTG GTCGT
1624300 CTTCGACACG
Statistics
Matches: 217, Mismatches: 6, Indels: 36
0.84 0.02 0.14
Matches are distributed among these distances:
5 1 0.00
6 151 0.70
7 1 0.00
8 64 0.29
ACGTcount: A:0.00, C:0.20, G:0.44, T:0.35
Consensus pattern (6 bp):
GTCGTG
Found at i:1624077 original size:20 final size:20
Alignment explanation
Indices: 1624060--1624299 Score: 303
Period size: 20 Copynumber: 12.5 Consensus size: 20
1624050 CTCGTCGTGG
1624060 TCGTGGTCGTGGTCTCGTGGTC
1 TCGTGGTCGTGG--TCGTGGTC
1624082 TCGTGGTCGTGGTCGTGGTC
1 TCGTGGTCGTGGTCGTGGTC
**
1624102 TCGTGGTCGTTCTCGTGG--
1 TCGTGGTCGTGGTCGTGGTC
1624120 TCGTGGTCTCGTGGTCGTGGTC
1 TCGTGG--TCGTGGTCGTGGTC
1624142 TCGTGGTC-TCGGTCGTGGTC
1 TCGTGGTCGT-GGTCGTGGTC
1624162 TCGTGGTC----TCGTGG--
1 TCGTGGTCGTGGTCGTGGTC
1624176 TCGTGGTCGTGGTCGTGGTC
1 TCGTGGTCGTGGTCGTGGTC
1624196 TCGTGGTCGTGGTCGTGGTC
1 TCGTGGTCGTGGTCGTGGTC
1624216 TCGTGGTCGTGGTCGTGG--
1 TCGTGGTCGTGGTCGTGGTC
*
1624234 TCGTGATCGTGGTCGTGG--
1 TCGTGGTCGTGGTCGTGGTC
1624252 TCGTGGTCGTGGTCGTGGTC
1 TCGTGGTCGTGGTCGTGGTC
1624272 TCGTGGTCGTGGTCGTGG--
1 TCGTGGTCGTGGTCGTGGTC
1624290 TCGTGGTCGT
1 TCGTGGTCGT
1624300 CTTCGACACG
Statistics
Matches: 199, Mismatches: 6, Indels: 30
0.85 0.03 0.13
Matches are distributed among these distances:
14 8 0.04
16 6 0.03
18 56 0.28
19 1 0.01
20 110 0.55
22 18 0.09
ACGTcount: A:0.00, C:0.20, G:0.44, T:0.35
Consensus pattern (20 bp):
TCGTGGTCGTGGTCGTGGTC
Found at i:1624118 original size:26 final size:25
Alignment explanation
Indices: 1624060--1624294 Score: 246
Period size: 26 Copynumber: 8.9 Consensus size: 25
1624050 CTCGTCGTGG
*
1624060 TCGTGGTCGTGGTCTCGTGGTC-TCGTGG
1 TCGTGGTCGTGG--TCGTGGTCGT-GT-C
1624088 TCGTGGTCGTGGTCTCGTGGTCGT-TC
1 TCGTGGTCGTGG--TCGTGGTCGTGTC
1624114 TCGTGGTCGTGGTCTCGTGGTCGTGGTC
1 TCGTGGTCGTGG--TCGTGGTCGT-GTC
1624142 TCGTGGTC-TCGGTCGTGGTCTCGTGGTC
1 TCGTGGTCGT-GGTCGTGG--TCGT-GTC
1624170 TCGTGGTCGTGGTCGTGGTCGTGGTC
1 TCGTGGTCGTGGTCGTGGTCGT-GTC
*
1624196 TCGTGGTCGTGGTCGTGGTC-TCGTGG
1 TCGTGGTCGTGGTCGTGGTCGT-GT-C
* *
1624222 TCGTGGTCGTGGTCGTGATCGTG-G
1 TCGTGGTCGTGGTCGTGGTCGTGTC
1624246 TCGTGGTCGTGGTCGTGGTCGTGGTC
1 TCGTGGTCGTGGTCGTGGTCGT-GTC
1624272 TCGTGGTCGTGGTCGTGGTCGTG
1 TCGTGGTCGTGGTCGTGGTCGTG
1624295 GTCGTCTTCG
Statistics
Matches: 190, Mismatches: 6, Indels: 25
0.86 0.03 0.11
Matches are distributed among these distances:
24 22 0.12
25 5 0.03
26 100 0.53
27 3 0.02
28 58 0.31
29 2 0.01
ACGTcount: A:0.00, C:0.20, G:0.44, T:0.35
Consensus pattern (25 bp):
TCGTGGTCGTGGTCGTGGTCGTGTC
Found at i:1624206 original size:88 final size:85
Alignment explanation
Indices: 1624055--1624297 Score: 354
Period size: 88 Copynumber: 2.8 Consensus size: 85
1624045 GTCGTCTCGT
**
1624055 CGTGGTCGTGGTCGTGGTCTCGTGGTCTCGTGGTCGTGGTCGTGGTCTCGTGGTCGTTCTCGTGG
1 CGTGGTCGTGGTCGTGGTCTCGTGGTCTCGTGGTCGTGGTCGTGG-CTCGTGGTCGTGGTCGTGG
1624120 TCGTGGTCTCGTGGTCGTGGTCT
65 TCGTGGTCTCGTGGTCGTGG--T
1624143 CGTGGTC-TCGGTCGTGGTCTCGTGGTCTCGTGGTCGTGGTCGTGG-TCGTGGTCTCGTGGTCGT
1 CGTGGTCGT-GGTCGTGGTCTCGTGGTCTCGTGGTCGTGGTCGTGGCTCGTGG--TCGTGGTCGT
1624206 GGTCGTGGTCTCGTGGTCGTGGT
63 GGTCGTGGTCTCGTGGTCGTGGT
*
1624229 CGTGGTCGTGATCGTGG--TCGTGG--TCGTGGTCGTGGTCGTGGTCTCGTGGTCGTGGTCGTGG
1 CGTGGTCGTGGTCGTGGTCTCGTGGTCTCGTGGTCGTGGTCGTGG-CTCGTGGTCGTGGTCGTGG
1624290 TCGTGGTC
65 TCGTGGTC
1624298 GTCTTCGACA
Statistics
Matches: 146, Mismatches: 3, Indels: 18
0.87 0.02 0.11
Matches are distributed among these distances:
82 38 0.26
84 12 0.08
86 21 0.14
87 2 0.01
88 73 0.50
ACGTcount: A:0.00, C:0.21, G:0.44, T:0.35
Consensus pattern (85 bp):
CGTGGTCGTGGTCGTGGTCTCGTGGTCTCGTGGTCGTGGTCGTGGCTCGTGGTCGTGGTCGTGGT
CGTGGTCTCGTGGTCGTGGT
Found at i:1624295 original size:26 final size:26
Alignment explanation
Indices: 1624088--1624297 Score: 277
Period size: 26 Copynumber: 8.5 Consensus size: 26
1624078 GGTCTCGTGG
**
1624088 TCGTGGTCGTGGTCTCGTGGTCGTTC
1 TCGTGGTCGTGGTCTCGTGGTCGTGG
1624114 TCGTGGTCGTGGTCTCGTGGTCGTGG
1 TCGTGGTCGTGGTCTCGTGGTCGTGG
1624140 TC----TCGTGGTCTC--GGTCGTGG
1 TCGTGGTCGTGGTCTCGTGGTCGTGG
1624160 TC----TCGTGGTCTCGTGGTCGTGG
1 TCGTGGTCGTGGTCTCGTGGTCGTGG
1624182 TCGTGGTCGTGGTCTCGTGGTCGTGG
1 TCGTGGTCGTGGTCTCGTGGTCGTGG
1624208 TCGTGGTCTCGTGG--TCGTGGTCGTGG
1 TCGTGG--TCGTGGTCTCGTGGTCGTGG
*
1624234 TCGTGATCGTGG--TCGTGGTCGTGG
1 TCGTGGTCGTGGTCTCGTGGTCGTGG
1624258 TCGTGGTCGTGGTCTCGTGGTCGTGG
1 TCGTGGTCGTGGTCTCGTGGTCGTGG
1624284 TCGTGGTCGTGGTC
1 TCGTGGTCGTGGTC
1624298 GTCTTCGACA
Statistics
Matches: 170, Mismatches: 4, Indels: 20
0.88 0.02 0.10
Matches are distributed among these distances:
20 20 0.12
22 20 0.12
24 29 0.17
26 95 0.56
28 6 0.04
ACGTcount: A:0.00, C:0.20, G:0.44, T:0.35
Consensus pattern (26 bp):
TCGTGGTCGTGGTCTCGTGGTCGTGG
Found at i:1624298 original size:88 final size:90
Alignment explanation
Indices: 1624054--1624299 Score: 308
Period size: 94 Copynumber: 2.7 Consensus size: 90
1624044 CGTCGTCTCG
**
1624054 TCGTGGTCGTGGTCGTGGTCTCGTGGTCTCGTGGTCGTGGTCGTGGTCTCGTGGTCGTTCTCGTG
1 TCGTGGTCGTGGTCGTGG-CTCGTGG--TCGTGGTCGTGGTCGTGGTCTCGTGGTCGTGGTCGTG
*
1624119 G-TCGTGGTCTCGTGGTCGTGGTCTCGTGG
63 GCTCGTGG-CTCGTGGTCGTGG-CTCGTGA
1624148 TC-TCGGTCGTGGTCTCGTGGTCTCGTGGTCGTGGTCGTGGTCGTGGTCTCGTGGTCGTGGTCGT
1 TCGT-GGTCGTGG--TCGTGG-CTCGTGGTCGTGGTCGTGGTCGTGGTCTCGTGGTCGTGGTCGT
1624212 GGTCTCGTGG-TCGTGGTCGTGG-TCGTGA
62 GG-CTCGTGGCTCGTGGTCGTGGCTCGTGA
1624240 TCGTGGTCGTGGTCGTGG-TCGTGGTCGTGGTCTCGTGGTCGTGG--TCGTGGTCGTGGTCGT
1 TCGTGGTCGTGGTCGTGGCTCGTGGTCGTGG--TCGTGGTCGTGGTCTCGTGGTCGTGGTCGT
1624300 CTTCGACACG
Statistics
Matches: 141, Mismatches: 3, Indels: 22
0.85 0.02 0.13
Matches are distributed among these distances:
88 28 0.20
90 18 0.13
92 15 0.11
93 2 0.01
94 58 0.41
96 20 0.14
ACGTcount: A:0.00, C:0.20, G:0.44, T:0.35
Consensus pattern (90 bp):
TCGTGGTCGTGGTCGTGGCTCGTGGTCGTGGTCGTGGTCGTGGTCTCGTGGTCGTGGTCGTGGCT
CGTGGCTCGTGGTCGTGGCTCGTGA
Found at i:1624447 original size:63 final size:62
Alignment explanation
Indices: 1624370--1624492 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 62
1624360 TTTTTAATTT
*
1624370 ACTGTAGACTATCGCAA-CGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGACA
1 ACTGTAGACTATCGCAACCGAA-ATGGAAAATCGCAACGAC-ACTGTAGACTATCGCAACGACA
1624433 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACG
1 ACTGTAGACTATCGCAAC-CGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACG
1624493 CGAAATGGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
63 36 0.63
64 17 0.30
65 4 0.07
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (62 bp):
ACTGTAGACTATCGCAACCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGACA
Found at i:1624468 original size:20 final size:20
Alignment explanation
Indices: 1624443--1624556 Score: 74
Period size: 20 Copynumber: 5.6 Consensus size: 20
1624433 ACTGTAGACT
1624443 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
1624463 ATCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
1624484 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
1624504 ATCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
* *
1624525 ATCGCAATGCGAAAAGGAAA
1 ATCGCAACGCGAAATGGAAA
1624545 ATCGCAACGCGA
1 ATCGCAACGCGA
1624557 TTGTCAACTA
Statistics
Matches: 70, Mismatches: 14, Indels: 20
0.67 0.13 0.19
Matches are distributed among these distances:
18 6 0.09
19 6 0.09
20 29 0.41
21 18 0.26
22 5 0.07
23 6 0.09
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1624485 original size:41 final size:42
Alignment explanation
Indices: 1624421--1624581 Score: 249
Period size: 41 Copynumber: 3.9 Consensus size: 42
1624411 ACTGTAGACT
1624421 ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAA
1624463 ATCGCAACGAC-ACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAA
* *
1624504 ATCGCAACGAC-ACTGTAGACTATCGCAATGCGAAAAGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAA
* *
1624545 ATCGCAACG-CGATTGTCA-ACTATCGCAACGCGAAATG
1 ATCGCAACGACAACTGT-AGACTATCGCAACGCGAAATG
1624582 CAGCGCGAAT
Statistics
Matches: 112, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
40 1 0.01
41 99 0.88
42 12 0.11
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (42 bp):
ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAA
Found at i:1624615 original size:20 final size:20
Alignment explanation
Indices: 1624592--1624637 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1624582 CAGCGCGAAT
* *
1624592 TTGCGATACTGGAGATCGCG
1 TTGCGATACTAGAGATCGCA
*
1624612 TTGCGA-ATTAGAGATCGCA
1 TTGCGATACTAGAGATCGCA
1624631 TTGCGAT
1 TTGCGAT
1624638 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TTGCGATACTAGAGATCGCA
Found at i:1625174 original size:23 final size:23
Alignment explanation
Indices: 1625143--1625210 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
1625133 CAAACGACCG
1625143 AAAACATGTCA-AAATACATAAAA
1 AAAACATGTCATAAATACA-AAAA
* * *
1625166 AAAATATGTCATAAAGACAAAGA
1 AAAACATGTCATAAATACAAAAA
*
1625189 AAAACGTGTCATAAATACAAAA
1 AAAACATGTCATAAATACAAAA
1625211 TTATTAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 31 0.84
24 6 0.16
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.18
Consensus pattern (23 bp):
AAAACATGTCATAAATACAAAAA
Found at i:1633089 original size:18 final size:18
Alignment explanation
Indices: 1633066--1633118 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
1633056 TTTTAATCAT
1633066 ATAAATATATATTAAATA
1 ATAAATATATATTAAATA
*
1633084 ATAAAT-TAATTTTAAATA
1 ATAAATAT-ATATTAAATA
1633102 A-AAACTA-ATA-TAAATA
1 ATAAA-TATATATTAAATA
1633118 A
1 A
1633119 ATCAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 17 0.57
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAATATATATTAAATA
Found at i:1638123 original size:24 final size:24
Alignment explanation
Indices: 1638096--1638146 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
1638086 TAAGGTTCAG
1638096 GTTCGAGTTTGAGGCTTAAATCGA
1 GTTCGAGTTTGAGGCTTAAATCGA
1638120 GTTCGAGTTTGAGGCTTAAATCGA
1 GTTCGAGTTTGAGGCTTAAATCGA
1638144 GTT
1 GTT
1638147 AAGTTTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (24 bp):
GTTCGAGTTTGAGGCTTAAATCGA
Found at i:1645710 original size:13 final size:13
Alignment explanation
Indices: 1645692--1645718 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1645682 CCATAAAAAG
1645692 TTAATTATTATTT
1 TTAATTATTATTT
1645705 TTAATTATTATTT
1 TTAATTATTATTT
1645718 T
1 T
1645719 ACAATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTAATTATTATTT
Found at i:1650409 original size:129 final size:129
Alignment explanation
Indices: 1650179--1650439 Score: 513
Period size: 129 Copynumber: 2.0 Consensus size: 129
1650169 GTCGTGTGGC
1650179 TAAATACATGATGGAGACGTGTTACACTTAATGAGCTGAGGTCAAATTGTCCCATGTTTTACATC
1 TAAATACATGATGGAGACGTGTTACACTTAATGAGCTGAGGTCAAATTGTCCCATGTTTTACATC
*
1650244 ACAGTGTGTATGCTTCAAGCGAATCTTTTTCGAATTAACGGAGAGTATAGCACTTGTTCCTTTT
66 ACAGTGTGTATGCTTCAAGCGAATCTTTTTCGAATTAACGGAGAGTATAGCACTTGTTCCCTTT
1650308 TAAATACATGATGGAGACGTGTTACACTTAATGAGCTGAGGTCAAATTGTCCCATGTTTTACATC
1 TAAATACATGATGGAGACGTGTTACACTTAATGAGCTGAGGTCAAATTGTCCCATGTTTTACATC
1650373 ACAGTGTGTATGCTTCAAGCGAATCTTTTTCGAATTAACGGAGAGTATAGCACTTGTTCCCTTT
66 ACAGTGTGTATGCTTCAAGCGAATCTTTTTCGAATTAACGGAGAGTATAGCACTTGTTCCCTTT
1650437 TAA
1 TAA
1650440 GTACGAGGAA
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 131 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (129 bp):
TAAATACATGATGGAGACGTGTTACACTTAATGAGCTGAGGTCAAATTGTCCCATGTTTTACATC
ACAGTGTGTATGCTTCAAGCGAATCTTTTTCGAATTAACGGAGAGTATAGCACTTGTTCCCTTT
Found at i:1656482 original size:22 final size:22
Alignment explanation
Indices: 1656439--1656482 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1656429 TAAACCGTTT
** *
1656439 ATCCCCTCATTATTTAATTCAA
1 ATCCCCTCATTATCAAAATCAA
*
1656461 ATCCCGTCATTATCAAAATCAA
1 ATCCCCTCATTATCAAAATCAA
1656483 TTTTATCATC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.34
Consensus pattern (22 bp):
ATCCCCTCATTATCAAAATCAA
Found at i:1657536 original size:2 final size:2
Alignment explanation
Indices: 1657531--1657568 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1657521 TGAGAGGGGG
1657531 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1657569 CTTCCTCCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1663757 original size:31 final size:31
Alignment explanation
Indices: 1663716--1663786 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
1663706 GATTAGATTC
1663716 GAGGTCAAATTAATATTTTATATAAAATTTA
1 GAGGTCAAATTAATATTTTATATAAAATTTA
* *
1663747 GAGGTTAAATTAATATTTTATCTAAAATTTA
1 GAGGTCAAATTAATATTTTATATAAAATTTA
1663778 G-GGTCAAAT
1 GAGGTCAAAT
1663787 ATATACTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (31 bp):
GAGGTCAAATTAATATTTTATATAAAATTTA
Found at i:1667771 original size:2 final size:2
Alignment explanation
Indices: 1667764--1667794 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1667754 ATTCTTTTTA
1667764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1667795 ATGTAAAACT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1668503 original size:28 final size:28
Alignment explanation
Indices: 1668448--1668504 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
1668438 TCGTTGTTTC
*
1668448 TTTCAAACACTCACGTGACGACATAATG
1 TTTCAAACACTCACGTGACGACACAATG
* *
1668476 TTTCAAACACT-AGCTTGACGATACAATG
1 TTTCAAACACTCA-CGTGACGACACAATG
1668504 T
1 T
1668505 AAATAGAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (28 bp):
TTTCAAACACTCACGTGACGACACAATG
Found at i:1674964 original size:435 final size:439
Alignment explanation
Indices: 1674040--1674996 Score: 1216
Period size: 441 Copynumber: 2.2 Consensus size: 439
1674030 ACAAGTTGTT
** * *
1674040 GGAGAGCACGTGTTGTGCATTCCATTTTTTATTACATTATTTGAAGTTGGCATTGAATGTTTGAC
1 GGAGAGCACGTGTTGTGCATTCCATACTTTATTACTTTATTTGAAGTTGGCATTGAATGTGTGAC
* * * **
1674105 TCACATGCGACTTTCAGATCTTTAAGGAAAGAAGATACACTCTTCAATTATTGGGGATACGTCTT
66 TCACATGCGACTTTCAGATCTTTAAGGAAAAAAGATACACTCATCAATTATCGGGGATACAACTT
* * * *
1674170 GCTTATTTCATATTTGTTCAAAAGTTATCATTGAGTGCTTGATTCGCACACGACCTTTAGGTTTT
131 GCTTATTTCATACTTATTCAAAAGTTATCATTGAGTGCTTGATTCGCACACGACCTTCACGTTTT
* * * * *
1674235 TAAGGAAAGTAGATACACTTCTCGATTTTCGGAGTGACATGTTTTGTCTATTCCATATTTATTTG
196 TAAGGAAAGTAGATACACTTCTCGATTTTCAGAGCGACACGTGTTGTCTATTCCATATTTATTTA
* * ** *
1674300 AAATAACATTAAGTGCTTGTCTCATATGGGACCTTCAAATCATTAAGAAAAGAAGATATGTTCCT
261 AAATAACATTAAATGCTTATCTCATATACGACCTTCAAATCATTAAG-AAAGAAGATATCTT-CT
* * *
1674365 CGATTTTTGAGGGAATACATATTGTATGTTCCACACTTATTTGAAGTTACTATTGAGTGTTTGAC
324 CGATTTTTGAGGGAATACATATTGTATATTCCACACTTATTCGAAGTTACTATTGAGTGCTTGAC
* * * *** * *
1674430 TTACGTGAAACCTTCACGTCTTTAAGGGGAAAAAGACATTTTTCGATTCAT
389 TCACGGGAAACCTTCACATCTTTAAGAAAAAAAAGACATTTCTCGATTCAC
*
1674481 GGAGAGCACGTGTTATGCATTCCATACTTTATTACTTTATTTGAAGTTGGCATTGAATGTGTGAC
1 GGAGAGCACGTGTTGTGCATTCCATACTTTATTACTTTATTTGAAGTTGGCATTGAATGTGTGAC
* * * * *
1674546 TCACCTGCGACTTTCAGGTCTTTCAA-GAAAAAAGATACACTCATCTATTCTCGGAGGATACAAG
66 TCACATGCGACTTTCAGATCTTT-AAGGAAAAAAGATACACTCATCAATTATCGG-GGATACAAC
* ** *
1674610 TTG-TCTATTTCATGCTTATT-TTAA-TCTAGT-ATTGAGTGCTTGATTCGCACATGACCTTCAC
129 TTGCT-TATTTCATACTTATTCAAAAGT-TA-TCATTGAGTGCTTGATTCGCACACGACCTTCAC
* *
1674671 GTTTTTAAGGAAA-TAATATACACTTCTCGATTTTCATAGCGACACGTGTTGTCTATTCCATATT
191 GTTTTTAAGGAAAGT-AGATACACTTCTCGATTTTCAGAGCGACACGTGTTGTCTATTCCATATT
* ** *
1674735 TATTTAAAATTAACATTAAATGCTTATCTCATATACGACCTTTAGGTCTTTAAG-AA-AAGAT-T
255 TATTTAAAA-TAACATTAAATGCTTATCTCATATACGACCTTCAAATCATTAAGAAAGAAGATAT
* * * * *
1674797 CTT-T-GATTTTTTAGGTAATACATATTGTCTATTTCACACTTATTCGAAGTTAGTATTGAGTGC
319 CTTCTCGATTTTTGAGGGAATACATATTGTATATTCCACACTTATTCGAAGTTACTATTGAGTGC
*
1674860 TTGACTCACGGGTAACCTTCACATCTTTAAGAAAAAAAAGACATTTCTCGATTCAC
384 TTGACTCACGGGAAACCTTCACATCTTTAAGAAAAAAAAGACATTTCTCGATTCAC
* * * *
1674916 GGAGAGCACGTGTCGTGCATTCTATACTTTATTACTTTATTTGAAGTTGGCATTGAATGTGCGGC
1 GGAGAGCACGTGTTGTGCATTCCATACTTTATTACTTTATTTGAAGTTGGCATTGAATGTGTGAC
1674981 TCACATGCGACTTTCA
66 TCACATGCGACTTTCA
1674997 AGAAAAAAAA
Statistics
Matches: 447, Mismatches: 62, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
435 173 0.39
436 1 0.00
438 3 0.01
439 5 0.01
440 4 0.01
441 201 0.45
442 60 0.13
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (439 bp):
GGAGAGCACGTGTTGTGCATTCCATACTTTATTACTTTATTTGAAGTTGGCATTGAATGTGTGAC
TCACATGCGACTTTCAGATCTTTAAGGAAAAAAGATACACTCATCAATTATCGGGGATACAACTT
GCTTATTTCATACTTATTCAAAAGTTATCATTGAGTGCTTGATTCGCACACGACCTTCACGTTTT
TAAGGAAAGTAGATACACTTCTCGATTTTCAGAGCGACACGTGTTGTCTATTCCATATTTATTTA
AAATAACATTAAATGCTTATCTCATATACGACCTTCAAATCATTAAGAAAGAAGATATCTTCTCG
ATTTTTGAGGGAATACATATTGTATATTCCACACTTATTCGAAGTTACTATTGAGTGCTTGACTC
ACGGGAAACCTTCACATCTTTAAGAAAAAAAAGACATTTCTCGATTCAC
Found at i:1676625 original size:17 final size:19
Alignment explanation
Indices: 1676586--1676632 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1676576 AATAGCCTGG
1676586 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
1676605 TGCATCGGTGCAT-GA-AA
1 TGCATCGATGCATGGAGAA
1676622 TGCATTCGATG
1 TGCA-TCGATG
1676633 TTCAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 7 0.28
19 12 0.48
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:1676652 original size:64 final size:63
Alignment explanation
Indices: 1676539--1676683 Score: 179
Period size: 64 Copynumber: 2.3 Consensus size: 63
1676529 GTGCACTAAG
* * * *
1676539 GATGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGGA-
1 GATGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAATA-CATGGTGCATCGATGCATGGAC
1676602 GAATGCATCGGTGCATGAAATGCATTCGATG-TTCAATTAAAT-CATAGGTGCATCGATGCATGG
1 G-ATGCATCGGTGCATGAAATGCATTCGATGTTTCAA--AAATACAT-GGTGCATCGATGCATGG
1676665 AC
62 AC
1676667 TGATGCATCGGTGCATG
1 -GATGCATCGGTGCATG
1676684 CCTTTGAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
63 7 0.10
64 45 0.62
65 19 0.26
66 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (63 bp):
GATGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAATACATGGTGCATCGATGCATGGAC
Found at i:1679336 original size:24 final size:23
Alignment explanation
Indices: 1679264--1679344 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 23
1679254 GCATGGTCTT
* *
1679264 ATGCATCGATGCATATTCAAGGA
1 ATGCATCGATGCACATTCAAGGG
* *
1679287 ATGCATCGGTG--CA-TCATGCGG
1 ATGCATCGATGCACATTCAAG-GG
1679308 ATGCATCGATGCACATTCAAAGGG
1 ATGCATCGATGCACATTC-AAGGG
1679332 ATGCATCGATGCA
1 ATGCATCGATGCA
1679345 TTGTTAAGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.26
23 12 0.26
24 17 0.36
25 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (23 bp):
ATGCATCGATGCACATTCAAGGG
Found at i:1679357 original size:44 final size:42
Alignment explanation
Indices: 1679242--1679364 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 42
1679232 AAAACCCGAC
* * *
1679242 GGATGCATCGGTGCATGGTCTTATGCATCGATGCATATTCAAG
1 GGATGCATCGGTGCATTGT-TAATGCATCGATGCACATTCAAG
* ***
1679285 GAATGCATCGGTGCATCATGCGGATGCATCGATGCACATTCAAAG
1 GGATGCATCGGTGCAT--TGTTAATGCATCGATGCACATTC-AAG
* *
1679330 GGATGCATCGATGCATTGTTAAGTGCATCGGTGCA
1 GGATGCATCGGTGCATTGTTAA-TGCATCGATGCA
1679365 TTAAACACAA
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
43 18 0.28
44 28 0.44
45 18 0.28
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (42 bp):
GGATGCATCGGTGCATTGTTAATGCATCGATGCACATTCAAG
Found at i:1683198 original size:22 final size:21
Alignment explanation
Indices: 1683156--1683195 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1683146 GAGTTTATTT
*
1683156 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1683177 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1683196 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:1685149 original size:19 final size:17
Alignment explanation
Indices: 1685125--1685171 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
1685115 GGACACTTAG
*
1685125 TGCATCGGTGCACTAAGAA
1 TGCATCGATGCA-TAA-AA
1685144 TGCATCGATGCATAAAA
1 TGCATCGATGCATAAAA
1685161 TGCATTCGATG
1 TGCA-TCGATG
1685172 TTTGAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 11 0.42
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (17 bp):
TGCATCGATGCATAAAA
Found at i:1685255 original size:64 final size:63
Alignment explanation
Indices: 1685140--1685286 Score: 174
Period size: 64 Copynumber: 2.3 Consensus size: 63
1685130 CGGTGCACTA
* * * * *
1685140 AGAATGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATTGATGCATGG
1 AGAATGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAATA-CATGGTGCATCGATGCATGG
1685204 AGAATGCATCGGTGCATGAAATGCATTCGATG-TTCAATTAAAT-CATAGGTGCATCGATGCATG
1 AGAATGCATCGGTGCATGAAATGCATTCGATGTTTCAA--AAATACAT-GGTGCATCGATGCATG
1685267 G
63 G
1685268 ACTG-ATGCATCGGTGCATG
1 A--GAATGCATCGGTGCATG
1685287 CCTTTGAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
63 6 0.08
64 47 0.64
65 19 0.26
66 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (63 bp):
AGAATGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAATACATGGTGCATCGATGCATGG
Found at i:1685843 original size:106 final size:105
Alignment explanation
Indices: 1685683--1685877 Score: 255
Period size: 105 Copynumber: 1.8 Consensus size: 105
1685673 GCTGTTTTCA
* * * * *
1685683 ATTCCATATTTGTTCGAAGTTATCATTGAGTGCTTAACTCACATACGACCTTCAGGTTTTTAAGA
1 ATTCCATACTTATTCGAAGCTAGCATTGAGTGCTTAACTCACATACGACCTTCAGGTCTTTAAGA
1685748 AAAGAAAATACACTCCTCGATTTTCGAGACAACACATGTT
66 AAAGAAAATACACTCCTCGATTTTCGAGACAACACATGTT
* * ** * *
1685788 ATTCCATACTTATTTGAAGCTAGCATTTAGTGCTTGTCTCACATGCGATCTTTCAGGTCTTTAAG
1 ATTCCATACTTATTCGAAGCTAGCATTGAGTGCTTAACTCACATACGA-CCTTCAGGTCTTTAAG
* * *
1685853 GAAAGAAGATACACTCCTTGATTTT
65 AAAAGAAAATACACTCCTCGATTTT
1685878 TGACAGGATA
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
105 39 0.52
106 36 0.48
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (105 bp):
ATTCCATACTTATTCGAAGCTAGCATTGAGTGCTTAACTCACATACGACCTTCAGGTCTTTAAGA
AAAGAAAATACACTCCTCGATTTTCGAGACAACACATGTT
Found at i:1686243 original size:332 final size:333
Alignment explanation
Indices: 1685818--1686825 Score: 1646
Period size: 332 Copynumber: 3.0 Consensus size: 333
1685808 TAGCATTTAG
* * * *
1685818 TGCTTGTCTCACATGCGATCTTTCAGGTCTTTAAGGAAAGAAGATACACTCCTTGATTTTTGACA
1 TGCTTGACTCACATGCGA-CCTTCAGGTCTTTAAGGAAAGAAGATACACTCCTCGATTTTTGAGA
* *
1685883 GGATACACATTATCGATTTTACAATTATTCGAAGCTAGTATTGAGTGCTTGACTCGCGTGCGTCC
65 GGATACACGTTATCGATTTTACAATTATTCGAAGCTAGTATTGAGTGCTTGACTCACGTGCGTCC
*
1685948 TTCACATCTTTAAGG-AAACAATACGTTTCTCGATTCTTGGAGAGCACGTGTTGTGCATTCCATA
130 TTCACGTCTTTAAGGAAAACAATACGTTTCTCGATTCTTGGAGAGCACGTGTTGTGCATTCCATA
* * *
1686012 TTTTATTACTTTATTTGAAGCTGACAATGAATGTGTAACTTACATACGACTTTCAGGCCTTCAAG
195 TTTTATTACTTTATTTGAAGCTGACACTGAATGTGTAACTCACATACGACTTTCAGGCCTTTAAG
* *
1686077 GAAATAATATATACTCTTCAATTCTCGAATGATACATGTTGTCTATTTCACACTTATTTGAAGTT
260 GAAAGAAGATATACTCTTCAATTCTCGAATGATACATGTTGTCTATTTCACACTTATTTGAAGTT
1686142 GCCATTGGA
325 GCCATTGGA
*
1686151 TGCTTGACTCACATGCGACCTTCAGGTCTTTAAGGAAAGAATATACACTCCTCGATTTTTGAGAG
1 TGCTTGACTCACATGCGACCTTCAGGTCTTTAAGGAAAGAAGATACACTCCTCGATTTTTGAGAG
* *
1686216 GATACACGTTATCAATTTTATAATTATTCGGAA-CTAGTATTGAGTGCTTGACTCACGTGCGTCC
66 GATACACGTTATCGATTTTACAATTATTC-GAAGCTAGTATTGAGTGCTTGACTCACGTGCGTCC
*
1686280 TTCACGTCTTTAAGGAAAACAATACATTTCTCGATTCTTGGAGAGCACGTGTTGTGCATTCCATA
130 TTCACGTCTTTAAGGAAAACAATACGTTTCTCGATTCTTGGAGAGCACGTGTTGTGCATTCCATA
* * * *
1686345 TTTTATTACTTTATTTGAACCTGACACTGAATGGGTAA-TGCACATACGACTTTCAAGTCTTTAA
195 TTTTATTACTTTATTTGAAGCTGACACTGAATGTGTAACT-CACATACGACTTTCAGGCCTTTAA
* *
1686409 GGAAAGAAGATATACTCTTCAATTCTCGAATGATACATGTTGTCTATTCCACACTTATTTGAAGC
259 GGAAAGAAGATATACTCTTCAATTCTCGAATGATACATGTTGTCTATTTCACACTTATTTGAAGT
*
1686474 TACCATT-GA
324 TGCCATTGGA
*
1686483 TACTTGACTCACATGCGACCTTCAGGTCTTTAAGGAAAGAAGATACACTCCTCGATTTTTGAGAG
1 TGCTTGACTCACATGCGACCTTCAGGTCTTTAAGGAAAGAAGATACACTCCTCGATTTTTGAGAG
* * * *
1686548 GATACACGTTATCGATTTTACAATTATTCGGAGTTAGTATTGAGTGCTTGACTCACATGTGTCCT
66 GATACACGTTATCGATTTTACAATTATTCGAAGCTAGTATTGAGTGCTTGACTCACGTGCGTCCT
** *
1686613 TCACGTCTTTAAGGAAAACAATACGTTTCTATATTCTTGGAGAGCACGTTTTGTGCATTCCATAT
131 TCACGTCTTTAAGGAAAACAATACGTTTCTCGATTCTTGGAGAGCACGTGTTGTGCATTCCATAT
* *
1686678 TTTATTACTTTATTTGAAGCTGACACTGAATGTGTAACTCACATGCGACTTTCAGACCTTTAAGG
196 TTTATTACTTTATTTGAAGCTGACACTGAATGTGTAACTCACATACGACTTTCAGGCCTTTAAGG
* *
1686743 AAAGAAGATATACTCTTCAATTCTCGAATGATGCATGTTGTCTTTTTCACACTTATTTGAAGTTG
261 AAAGAAGATATACTCTTCAATTCTCGAATGATACATGTTGTCTATTTCACACTTATTTGAAGTTG
1686808 CCATTGGA
326 CCATTGGA
1686816 TGCTTGACTC
1 TGCTTGACTC
1686826 CTCTGTTCTC
Statistics
Matches: 622, Mismatches: 47, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
331 2 0.00
332 418 0.67
333 202 0.32
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (333 bp):
TGCTTGACTCACATGCGACCTTCAGGTCTTTAAGGAAAGAAGATACACTCCTCGATTTTTGAGAG
GATACACGTTATCGATTTTACAATTATTCGAAGCTAGTATTGAGTGCTTGACTCACGTGCGTCCT
TCACGTCTTTAAGGAAAACAATACGTTTCTCGATTCTTGGAGAGCACGTGTTGTGCATTCCATAT
TTTATTACTTTATTTGAAGCTGACACTGAATGTGTAACTCACATACGACTTTCAGGCCTTTAAGG
AAAGAAGATATACTCTTCAATTCTCGAATGATACATGTTGTCTATTTCACACTTATTTGAAGTTG
CCATTGGA
Found at i:1688438 original size:60 final size:60
Alignment explanation
Indices: 1688402--1688549 Score: 165
Period size: 60 Copynumber: 2.5 Consensus size: 60
1688392 TAAATTGATT
* * *
1688402 CTTAAACTTTTGAATATTCTAATTTCATTCTTAAACTATGGCTCTCATTCTACATTAGTC
1 CTTAAACTTTTGAACATTCTAATTTCATTCTTAAACTATAGCTCTCATTCTAAATTAGTC
** * * *
1688462 CTTAAACTTTTGAACATTCTAATTTCACCCCTAAACTATTA-CTCTCTTTCTAAATTTGTC
1 CTTAAACTTTTGAACATTCTAATTTCATTCTTAAACTA-TAGCTCTCATTCTAAATTAGTC
** *
1688522 CCCAAACTTTTGAATATT-TCAATTTCAT
1 CTTAAACTTTTGAACATTCT-AATTTCAT
1688550 CCCCAAATTT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
59 1 0.01
60 72 0.97
61 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.44
Consensus pattern (60 bp):
CTTAAACTTTTGAACATTCTAATTTCATTCTTAAACTATAGCTCTCATTCTAAATTAGTC
Found at i:1688954 original size:37 final size:35
Alignment explanation
Indices: 1688888--1688961 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 35
1688878 TCACCATGTG
*
1688888 TAATGTGGTTATATTTTTATTATCTAAAAATATTT
1 TAATGTGGTTATATTTTTATTATCTAAAAACATTT
1688923 TAAT-TGGTTATATTTATTTATTTATCTAAAAACATTT
1 TAATGTGGTTATA-TT-TTTA-TTATCTAAAAACATTT
1688960 TA
1 TA
1688962 TATAACAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
34 8 0.23
35 6 0.17
36 4 0.11
37 17 0.49
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (35 bp):
TAATGTGGTTATATTTTTATTATCTAAAAACATTT
Found at i:1692850 original size:89 final size:89
Alignment explanation
Indices: 1692738--1692913 Score: 316
Period size: 89 Copynumber: 2.0 Consensus size: 89
1692728 TTTTCAAAAC
1692738 ATTTTAAGTTACAATTAAAAATGTTATTAAGAAAATAATATTTTAAGTTACGTACGACCTAAAGT
1 ATTTTAAGTTACAATTAAAAATGTTATTAAGAAAATAATATTTTAAGTTACGTACGACCTAAAGT
*
1692803 GTTATATTTTTGTGACATTTTAAT
66 GTGATATTTTTGTGACATTTTAAT
* * *
1692827 ATTTTAAGTTGCAATTAAAAATGTTATTAAGAAAGTAATATTTTAAGTTACGTTCGACCTAAAGT
1 ATTTTAAGTTACAATTAAAAATGTTATTAAGAAAATAATATTTTAAGTTACGTACGACCTAAAGT
1692892 GTGATATTTTTGTGACATTTTA
66 GTGATATTTTTGTGACATTTTA
1692914 GATTATATTT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.43
Consensus pattern (89 bp):
ATTTTAAGTTACAATTAAAAATGTTATTAAGAAAATAATATTTTAAGTTACGTACGACCTAAAGT
GTGATATTTTTGTGACATTTTAAT
Found at i:1697723 original size:20 final size:20
Alignment explanation
Indices: 1697698--1697746 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1697688 ATGTAATATC
*
1697698 ATCAGTGGAAATATAAGATT
1 ATCAGTGGAAATATAAAATT
*
1697718 ATCAGTGTG-AATGTAAAATT
1 ATCAGTG-GAAATATAAAATT
1697738 ATCAG-GGAA
1 ATCAGTGGAA
1697747 TAGAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 2 0.08
20 21 0.84
21 1 0.04
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (20 bp):
ATCAGTGGAAATATAAAATT
Found at i:1697967 original size:33 final size:35
Alignment explanation
Indices: 1697903--1697968 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
1697893 AAAATATTTA
* *
1697903 TATATATTTTTTAAAAATTTTAAATTCATAAAATT
1 TATATATTTTTTAAAAATTTAAAAATCATAAAATT
1697938 TATAT-TTTTTTACAAAA-TTAAAAAT-ATAAAA
1 TATATATTTTTTA-AAAATTTAAAAATCATAAAA
1697969 AGATTTAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.21
34 13 0.46
35 9 0.32
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (35 bp):
TATATATTTTTTAAAAATTTAAAAATCATAAAATT
Found at i:1701170 original size:31 final size:31
Alignment explanation
Indices: 1701135--1701208 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
1701125 ATTAATTTTG
* * * *
1701135 TATATGAATTTTGATTGAATATGTGATGTGA
1 TATATAAATTTTGATTGAATATGTAATATAA
*
1701166 TATATAAATTTTGATTTAATATGTAATATAA
1 TATATAAATTTTGATTGAATATGTAATATAA
1701197 TATATAAATTTT
1 TATATAAATTTT
1701209 AATTTGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (31 bp):
TATATAAATTTTGATTGAATATGTAATATAA
Found at i:1701209 original size:26 final size:28
Alignment explanation
Indices: 1701180--1701239 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
1701170 TAAATTTTGA
* *
1701180 TTTAATATGTAATA-TA-ATATATAAAT
1 TTTAATATGTAAAATTATATACATAAAT
*
1701206 TTTAATTTGTAAAATTATATACATAAAT
1 TTTAATATGTAAAATTATATACATAAAT
1701234 TTTAAT
1 TTTAAT
1701240 TCTAGTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 12 0.41
27 2 0.07
28 15 0.52
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTAATATGTAAAATTATATACATAAAT
Found at i:1717171 original size:26 final size:26
Alignment explanation
Indices: 1717128--1717177 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
1717118 ATTTATGTTC
* * *
1717128 GTTTGTTCAGTTATATAAACGAGTTT
1 GTTTCTTCAGCTAAATAAACGAGTTT
*
1717154 GTTTCTTCAGCTAAATAAAGGAGT
1 GTTTCTTCAGCTAAATAAACGAGT
1717178 ATGAACAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (26 bp):
GTTTCTTCAGCTAAATAAACGAGTTT
Found at i:1732781 original size:42 final size:42
Alignment explanation
Indices: 1732695--1732819 Score: 160
Period size: 42 Copynumber: 2.9 Consensus size: 42
1732685 ATTTCTGCCA
* *
1732695 TCTGCATGGGATCCTCTACGGAGGAAAAAAATCATCGTCCTGAT
1 TCTGCATGAGATCCTCTACGGAGG-AAAAAATC-CCGTCCTGAT
* *
1732739 TCTGCATGAGATCCTCTACGTAGGAAAAAATCCCGTTCTGAT
1 TCTGCATGAGATCCTCTACGGAGGAAAAAATCCCGTCCTGAT
* * **
1732781 TCTGTATGAGATCCTCTATGGAGGGCAAAATCCCGTCCT
1 TCTGCATGAGATCCTCTACGGAGGAAAAAATCCCGTCCT
1732820 ATTTCTGTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 41 0.58
43 8 0.11
44 22 0.31
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (42 bp):
TCTGCATGAGATCCTCTACGGAGGAAAAAATCCCGTCCTGAT
Done.