Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold90
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: 1653315
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 63894 characters in sequence are not A, C, G, or T
File 9 of 10
Found at i:1297432 original size:79 final size:79
Alignment explanation
Indices: 1297296--1297474 Score: 249
Period size: 79 Copynumber: 2.3 Consensus size: 79
1297286 GAAATAAAAC
*
1297296 CGGGGTTAGAGTATCCCCGATTATGAGAAATCAACATTTTGAAAATAAAGCCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAACATTTTGAAAATAAAGCCAGGGTTGGAGTAT
1297361 CC-CTTC-GAAAATAA
66 CCTC-TCAG-AAATAA
*
1297375 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTT-AAGAATAAAG-CAGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAACATTTTGAA-AATAAAGCCA-GGGTTGGAGT
* *
1297438 ATTCTCTCAGAAATAC
64 ATCCTCTCAGAAATAA
*
1297454 CAGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1297475 GATTAACGGG
Statistics
Matches: 91, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
78 4 0.04
79 85 0.93
80 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAACATTTTGAAAATAAAGCCAGGGTTGGAGTAT
CCTCTCAGAAATAA
Found at i:1297663 original size:51 final size:51
Alignment explanation
Indices: 1297481--1297653 Score: 219
Period size: 51 Copynumber: 3.4 Consensus size: 51
1297471 CGATGATTAA
* *
1297481 CGGGGTTGGAGTATCCCCGATTGT-G-AAATTAATATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
** * * *
1297530 CGGGGTTGGAGTATCCCTAATTGTGGAAAATTGGTG-TTTCGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAG-AAATAAAAC
* *
1297581 CGGAGTTGGAGTATTCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
1297632 CGGGGTTGGAGTA-CCCTCGATT
1 CGGGGTTGGAGTATCCC-CGATT
1297654 ATTAAAAATT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 22 0.21
50 7 0.07
51 70 0.68
52 4 0.04
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
Found at i:1300096 original size:32 final size:32
Alignment explanation
Indices: 1300055--1300124 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
1300045 GCTTTGTAGT
*
1300055 GATACATTGTATCGATACATCACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
*
1300087 GATACATTGTATCGATACAACATTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
1300119 GATACA
1 GATACA
1300125 AATCGCTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGTATC
Found at i:1300099 original size:13 final size:13
Alignment explanation
Indices: 1300081--1300105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1300071 ACATCACTTA
1300081 TGTATCGATACAT
1 TGTATCGATACAT
1300094 TGTATCGATACA
1 TGTATCGATACA
1300106 ACATTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1300125 original size:19 final size:18
Alignment explanation
Indices: 1300062--1300125 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
1300052 AGTGATACAT
*
1300062 TGTATCGATACATCACTTA
1 TGTATCGATACAACA-TTA
1300081 TGTATCGAT---ACA-T-
1 TGTATCGATACAACATTA
1300094 TGTATCGATACAACATTTA
1 TGTATCGATACAACA-TTA
1300113 TGTATCGATACAA
1 TGTATCGATACAA
1300126 ATCGCTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 5 0.13
18 1 0.03
19 22 0.58
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (18 bp):
TGTATCGATACAACATTA
Found at i:1300188 original size:21 final size:21
Alignment explanation
Indices: 1300162--1300217 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1300152 GTTGGGACCT
*
1300162 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCCACAAA
1300183 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
1300204 TGTATCGATACATT
1 TGTATCGATACATT
1300218 TGGATAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:1303606 original size:14 final size:14
Alignment explanation
Indices: 1303587--1303620 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
1303577 AATTGGCTAA
1303587 TGCTTAGGAGGTTG
1 TGCTTAGGAGGTTG
1303601 TGCTTAGGAGGTTG
1 TGCTTAGGAGGTTG
1303615 TGCTTA
1 TGCTTA
1303621 AGACCATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.38, T:0.38
Consensus pattern (14 bp):
TGCTTAGGAGGTTG
Found at i:1304445 original size:15 final size:15
Alignment explanation
Indices: 1304423--1304460 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1304413 TTCTAGTTCG
*
1304423 ACAATTTTCTTTTCA
1 ACAATTTTATTTTCA
*
1304438 AGAATTTTATTTTCA
1 ACAATTTTATTTTCA
1304453 ACAATTTT
1 ACAATTTT
1304461 TGATTTATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.53
Consensus pattern (15 bp):
ACAATTTTATTTTCA
Found at i:1306637 original size:13 final size:13
Alignment explanation
Indices: 1306619--1306643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1306609 TACTATAAAT
1306619 ATGTATCGATACA
1 ATGTATCGATACA
1306632 ATGTATCGATAC
1 ATGTATCGATAC
1306644 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1306658 original size:33 final size:32
Alignment explanation
Indices: 1306601--1306664 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
1306591 CCTTTTAAGG
1306601 TGTATCGATACTATAAATATGTATCGATACAA
1 TGTATCGATACTATAAATATGTATCGATACAA
1306633 TGTATCGATACTA-AGCAATATGTATCGATACA
1 TGTATCGATACTATA--AATATGTATCGATACA
1306665 TCTAGGTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 1 0.03
32 13 0.43
33 16 0.53
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACTATAAATATGTATCGATACAA
Found at i:1308423 original size:25 final size:24
Alignment explanation
Indices: 1308395--1308441 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
1308385 TATATATATA
1308395 TTTAAATATAATATAAA-AATAATTT
1 TTTAAATAT-ATA-AAATAATAATTT
1308420 TTTAAATATATAAAATAATAAT
1 TTTAAATATATAAAATAATAAT
1308442 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 9 0.43
25 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAAATATATAAAATAATAATTT
Found at i:1309120 original size:12 final size:12
Alignment explanation
Indices: 1309103--1309133 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1309093 TATTTAAAAA
1309103 ATAATAAAATAT
1 ATAATAAAATAT
*
1309115 ATAATACAATAT
1 ATAATAAAATAT
1309127 ATAATAA
1 ATAATAA
1309134 TATTTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATAAAATAT
Found at i:1312870 original size:46 final size:46
Alignment explanation
Indices: 1312818--1313040 Score: 283
Period size: 46 Copynumber: 4.8 Consensus size: 46
1312808 TAATTAGTTA
1312818 TTTTATCT-TAAATTAAATTAAATTAATTTAAAGATAAATAAAAAAG
1 TTTTATCTCT-AATTAAATTAAATTAATTTAAAGATAAATAAAAAAG
*
1312864 TTTTATCTCTAATTAAATTAAATTAATTTAGAGATAAAT-AAAAAG
1 TTTTATCTCTAATTAAATTAAATTAATTTAAAGATAAATAAAAAAG
* * *
1312909 -TTTATCTCTAATTAAACTAAATTAATTAAAAGATAAATAAAAGAG
1 TTTTATCTCTAATTAAATTAAATTAATTTAAAGATAAATAAAAAAG
* **
1312954 TTTTATCTCTAATTAAATTAAATTAAATTAATAAAATATAAATAAATGAG
1 TTTTATCTCTAATTAAATTAAATT-AATT--T-AAAGATAAATAAAAAAG
**
1313004 TTTTATCTCTTGTTAAATTAAATTAA-TTAAGAGATAA
1 TTTTATCTCTAATTAAATTAAATTAATTTAA-AGATAA
1313041 TTTATGAAGA
Statistics
Matches: 157, Mismatches: 12, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
44 35 0.22
45 13 0.08
46 64 0.41
47 5 0.03
48 1 0.01
49 2 0.01
50 37 0.24
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.39
Consensus pattern (46 bp):
TTTTATCTCTAATTAAATTAAATTAATTTAAAGATAAATAAAAAAG
Found at i:1312922 original size:90 final size:95
Alignment explanation
Indices: 1312818--1313040 Score: 298
Period size: 90 Copynumber: 2.4 Consensus size: 95
1312808 TAATTAGTTA
1312818 TTTTATCT-TAAATTAAATTAAATTAATTTAAAGATAAATAAAAAAGTTTTATCTCTAATTAAAT
1 TTTTATCTCT-AATTAAATTAAATTAATTTAAAGATAAATAAAAAAGTTTTATCTCTAATTAAAT
*
1312882 TAAATT-AATT-T-AGAGATAAATAAA-AAG
65 TAAATTAAATTATAAAAGATAAATAAATAAG
* * *
1312909 -TTTATCTCTAATTAAACTAAATTAATTAAAAGATAAATAAAAGAGTTTTATCTCTAATTAAATT
1 TTTTATCTCTAATTAAATTAAATTAATTTAAAGATAAATAAAAAAGTTTTATCTCTAATTAAATT
* *
1312973 AAATTAAATTAATAAAATATAAATAAATGAG
66 AAATTAAATT-ATAAAAGATAAATAAATAAG
**
1313004 TTTTATCTCTTGTTAAATTAAATTAA-TTAAGAGATAA
1 TTTTATCTCTAATTAAATTAAATTAATTTAA-AGATAA
1313041 TTTATGAAGA
Statistics
Matches: 114, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
90 64 0.56
91 5 0.04
93 1 0.01
94 11 0.10
95 5 0.04
96 28 0.25
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.39
Consensus pattern (95 bp):
TTTTATCTCTAATTAAATTAAATTAATTTAAAGATAAATAAAAAAGTTTTATCTCTAATTAAATT
AAATTAAATTATAAAAGATAAATAAATAAG
Found at i:1317699 original size:20 final size:21
Alignment explanation
Indices: 1317674--1317714 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1317664 AAAGTTACAT
1317674 TATGCC-TACATGTATCGATA
1 TATGCCTTACATGTATCGATA
*
1317694 TATGCCTTTCATGTATCGATA
1 TATGCCTTACATGTATCGATA
1317715 CAAGGTCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (21 bp):
TATGCCTTACATGTATCGATA
Found at i:1317822 original size:20 final size:20
Alignment explanation
Indices: 1317770--1317822 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1317760 GATACAAGTT
* *
1317770 AATGTATTGATACATAAGTG
1 AATGTATCGATACATAAATG
** *
1317790 AACATATCAATACATAAATG
1 AATGTATCGATACATAAATG
1317810 AATGTATCGATAC
1 AATGTATCGATAC
1317823 TAGACTCTGT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATAAATG
Found at i:1319370 original size:21 final size:21
Alignment explanation
Indices: 1319346--1319386 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1319336 AAGTTCAAAG
1319346 CTTCTAATTTTCCACCAAAAA
1 CTTCTAATTTTCCACCAAAAA
*
1319367 CTTCTAATTTTCCACTAAAA
1 CTTCTAATTTTCCACCAAAA
1319387 TGACCTTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (21 bp):
CTTCTAATTTTCCACCAAAAA
Found at i:1322424 original size:23 final size:23
Alignment explanation
Indices: 1322398--1322441 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1322388 AATCGGGTCT
1322398 GGAATCATGATTAAAACAGGTTC
1 GGAATCATGATTAAAACAGGTTC
1322421 GGAATCATGATTAAAACAGGT
1 GGAATCATGATTAAAACAGGT
1322442 CCAAGACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (23 bp):
GGAATCATGATTAAAACAGGTTC
Found at i:1326090 original size:1 final size:1
Alignment explanation
Indices: 1326084--1326234 Score: 77
Period size: 1 Copynumber: 151.0 Consensus size: 1
1326074 GGCGTCCTCC
** ** ** ** ** **
1326084 AAAAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAAAAACGAAAAAATGAAAAACCAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** ** * ** * *
1326149 AAAAAAAAAGAAAAAATGAAAAACCAAAAAAAAAAAAAAACAAAAGGAAAAAAAAACAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
1326214 ATAAAAAAACAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAA
1326235 GGGGTCCGGA
Statistics
Matches: 113, Mismatches: 37, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 113 1.00
ACGTcount: A:0.83, C:0.09, G:0.05, T:0.03
Consensus pattern (1 bp):
A
Found at i:1326122 original size:30 final size:29
Alignment explanation
Indices: 1326086--1326185 Score: 175
Period size: 28 Copynumber: 3.4 Consensus size: 29
1326076 CGTCCTCCAA
1326086 AAAAAAAAAAAACGAAAAAAATGAAAAACC
1 AAAAAAAAAAAACG-AAAAAATGAAAAACC
1326116 AAAAAAAAAAAAACGAAAAAATGAAAAACC
1 -AAAAAAAAAAAACGAAAAAATGAAAAACC
1326146 AAAAAAAAAAAA-GAAAAAATGAAAAACC
1 AAAAAAAAAAAACGAAAAAATGAAAAACC
1326174 AAAAAAAAAAAA
1 AAAAAAAAAAAA
1326186 AAACAAAAGG
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
28 28 0.41
29 12 0.17
30 15 0.22
31 14 0.20
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.03
Consensus pattern (29 bp):
AAAAAAAAAAAACGAAAAAATGAAAAACC
Found at i:1326186 original size:30 final size:30
Alignment explanation
Indices: 1326082--1326221 Score: 173
Period size: 28 Copynumber: 4.8 Consensus size: 30
1326072 ACGGCGTCCT
1326082 CCAAAAAAAAAAAAAACGAAAAAAATGAAAAA
1 CCAAAAAAAAAAAAAA-G-AAAAAATGAAAAA
*
1326114 CCAAAAAAAAAAAAACGAAAAAATGAAAAA
1 CCAAAAAAAAAAAAAAGAAAAAATGAAAAA
1326144 CC--AAAAAAAAAAAAGAAAAAATGAAAAA
1 CCAAAAAAAAAAAAAAGAAAAAATGAAAAA
* *
1326172 CCAAAAAAAAAAAAAA-ACAAAAGGAAAAA
1 CCAAAAAAAAAAAAAAGAAAAAATGAAAAA
* * *
1326201 --AAAACAAAAAACAATAAAAAA
1 CCAAAAAAAAAAAAAAGAAAAAA
1326222 ACAAACAAAA
Statistics
Matches: 98, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
27 12 0.12
28 32 0.33
29 11 0.11
30 27 0.28
31 1 0.01
32 15 0.15
ACGTcount: A:0.82, C:0.09, G:0.06, T:0.03
Consensus pattern (30 bp):
CCAAAAAAAAAAAAAAGAAAAAATGAAAAA
Found at i:1326201 original size:58 final size:59
Alignment explanation
Indices: 1326086--1326200 Score: 182
Period size: 58 Copynumber: 2.0 Consensus size: 59
1326076 CGTCCTCCAA
*
1326086 AAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAAAAACGAAAAAATGAAAAACC
1 AAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAAAAAC-AAAAAAGGAAAAACC
1326146 AAAAAAAAAAAA-G-AAAAAATGAAAAACCAAAAAAAAAAAAA-AACAAAAGGAAAAA
1 AAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAAAAACAA-AAAAGGAAAAA
1326201 AAAACAAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
56 2 0.04
57 10 0.19
58 28 0.53
59 1 0.02
60 12 0.23
ACGTcount: A:0.83, C:0.08, G:0.07, T:0.03
Consensus pattern (59 bp):
AAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAAAAACAAAAAAGGAAAAACC
Found at i:1326221 original size:58 final size:56
Alignment explanation
Indices: 1326084--1326222 Score: 176
Period size: 58 Copynumber: 2.4 Consensus size: 56
1326074 GGCGTCCTCC
* *
1326084 AAAAAAAAAAAAAAC-GAAAAAAATGAAAAACCAAAAAAAAAAAAACGAAAAAATGA
1 AAAAAAAAAAAAAACAAAAAAAAATGAAAAACCAAAAAAAAAAAAAC-AAAAAAGGA
*
1326140 AAAACCAAAAAAAAAA-AAGAAAAAATGAAAAACCAAAAAAAAAAAAA-AACAAAAGGA
1 AAAA--AAAAAAAAAACAAAAAAAAATGAAAAACCAAAAAAAAAAAAACAA-AAAAGGA
1326197 AAAAAAAACAAAAAACAATAAAAAAA
1 AAAAAAAA-AAAAAACAA-AAAAAAA
1326223 CAAACAAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
55 4 0.06
56 12 0.17
57 12 0.17
58 44 0.61
ACGTcount: A:0.83, C:0.08, G:0.06, T:0.03
Consensus pattern (56 bp):
AAAAAAAAAAAAAACAAAAAAAAATGAAAAACCAAAAAAAAAAAAACAAAAAAGGA
Found at i:1327729 original size:30 final size:29
Alignment explanation
Indices: 1327680--1328174 Score: 342
Period size: 30 Copynumber: 16.7 Consensus size: 29
1327670 TTCAAAAGTT
*
1327680 CACAAGTCAGTGGCATTTTTTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTTCAAAGCC
* *
1327709 CACAAGTCAGTGGCATTTTTTTCAAAAGCT
1 CACAAGTCAGTGGCATCTTTTTC-AAAGCC
* *
1327739 CACAAGTCAGTGGCAAC--CTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTTCAAAGCC
* * * *
1327766 CACAAATCAGTGGCACCCTTTTCCGAAGCC
1 CACAAGTCAGTGGCA-TCTTTTTCAAAGCC
* * *
1327796 CACAAGTCGGTGGCATCTTTTCCAAAGTC
1 CACAAGTCAGTGGCATCTTTTTCAAAGCC
* * * *
1327825 CACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCT
1 CACAAGTCAGTGGCA-TCTTTTTC-----AAAGCC
* * **
1327860 CACAACTCTA-TAGCACTCTTTTTCTTTTTCAGCC
1 CACAAGTC-AGTGGCA-TCTTTTTC----AAAGCC
* * *
1327894 CACAAGTTAGTGGCACCCTTTTCAAAAGCC
1 CACAAGTCAGTGGCATCTTTTTC-AAAGCC
* *
1327924 CACAAGTTAGTGGCATATTTTTCAAAAGCC
1 CACAAGTCAGTGGCATCTTTTTC-AAAGCC
* * *
1327954 CACAAGTCAGTGGCAAC-CTTTAAAAGCC
1 CACAAGTCAGTGGCATCTTTTTCAAAGCC
* *
1327982 CACAAGTCAGTGGCAAC--CTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTTCAAAGCC
* * * *
1328009 CACAAATCGGTGGCACCCTTTTCAAAAGCC
1 CACAAGTCAGTGGCATCTTTTTC-AAAGCC
*
1328039 CACAAGTCAGTGGCATATTTTTCAAAAGCC
1 CACAAGTCAGTGGCATCTTTTTC-AAAGCC
* * *
1328069 CACAAGTCAGTGGCAAC-CTTTAAAAGCC
1 CACAAGTCAGTGGCATCTTTTTCAAAGCC
* *
1328097 CACAAGTCAGTGGCAAC--CTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTTCAAAGCC
* * * *
1328124 CACAAATCAGTGGCACCCTTTTCCGAAGCC
1 CACAAGTCAGTGGCA-TCTTTTTCAAAGCC
* *
1328154 CACAAGTCGGTGGCACCTTTT
1 CACAAGTCAGTGGCATCTTTT
1328175 CCATCTTTAA
Statistics
Matches: 382, Mismatches: 66, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
27 63 0.16
28 51 0.13
29 62 0.16
30 158 0.41
33 7 0.02
34 17 0.04
35 24 0.06
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
CACAAGTCAGTGGCATCTTTTTCAAAGCC
Found at i:1327915 original size:34 final size:36
Alignment explanation
Indices: 1327824--1327915 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 36
1327814 TTTCCAAAGT
*
1327824 CCACAACTC-CGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* * *
1327859 TCACAACTCTA-TAGCACTCTTTTTCTTTT-TCAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* *
1327893 CCACAAGT-TAGTGGCACCCTTTT
1 CCACAACTCTAGTGGCACTCTTTT
1327916 CAAAAGCCCA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
33 2 0.04
34 20 0.43
35 25 0.53
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (36 bp):
CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
Found at i:1328036 original size:85 final size:87
Alignment explanation
Indices: 1327890--1328173 Score: 339
Period size: 85 Copynumber: 3.3 Consensus size: 87
1327880 TTTCTTTTTC
* * * *
1327890 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTTAGTGGCATA-TTTTTCAAAAGCC
1 AGCCCACAAGTCAGTGGCAACC-TTTC-AAAGCCCACAAGTCAGTGGCA-ACCTTTTCAAAAGCC
1327954 CACAAGTCAGTGGCAACCTTT-AAA
63 CACAAGTCAGTGGCAACCTTTCAAA
* * *
1327978 AGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCGGTGGCACCCTTTTCAAAAGCCCAC
1 AGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAAGCCCAC
**
1328042 AAGTCAGTGGCATATTTTTCAAA
66 AAGTCAGTGGCA-ACCTTTCAAA
*
1328065 AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCAC
1 AGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAAGCCCAC
* * **
1328127 AAATCAGTGGCACCCTTTTCCGA
66 AAGTCAGTGGCAACC-TTTCAAA
*
1328150 AGCCCACAAGTCGGTGGC-ACCTTT
1 AGCCCACAAGTCAGTGGCAACCTTT
1328174 TCCATCTTTA
Statistics
Matches: 171, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
84 6 0.04
85 87 0.51
86 10 0.06
87 25 0.15
88 43 0.25
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (87 bp):
AGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAAGCCCAC
AAGTCAGTGGCAACCTTTCAAA
Found at i:1328092 original size:115 final size:116
Alignment explanation
Indices: 1327670--1328168 Score: 533
Period size: 115 Copynumber: 4.2 Consensus size: 116
1327660 TTCATCACCC
** * ****
1327670 TTCAAAAGTTCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCAGTGGCATTTTTTTCAA
1 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCACACCTTT-AA
*
1327734 AAGCTCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
65 AAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
** * * * * * * *
1327786 TTCCGAAGCCCACAAGTCGGTGGCAT-CTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCT
1 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCACAC-----C-
** * * * ** * *
1327850 TTTGTAAGCTCACAACTCTA-TAGC-ACTCTTTTTCTTTTTCAGCCCACAAGTTAGTGGCACCCT
60 TTTAAAAGCCCACAAGTC-AGTGGCAAC-C---TTC----AAAGCCCACAAATCAGTGGCACCCT
1327913 T
116 T
*
1327914 TTCAAAAGCCCACAAGTTAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTAAA
1 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCACACCTTTAAA
*
1327978 AGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCGGTGGCACCCTT
66 AGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
1328029 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTAAA
1 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCACACCTTTAAA
1328093 AGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
66 AGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
** *
1328144 TTCCGAAGCCCACAAGTCGGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCA
1328169 CCTTTTCCAT
Statistics
Matches: 319, Mismatches: 45, Indels: 39
0.79 0.11 0.10
Matches are distributed among these distances:
115 161 0.50
116 40 0.13
119 3 0.01
120 2 0.01
121 17 0.05
122 22 0.07
123 3 0.01
124 3 0.01
128 45 0.14
129 23 0.07
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (116 bp):
TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCACACCTTTAAA
AGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
Found at i:1328240 original size:43 final size:43
Alignment explanation
Indices: 1328179--1328268 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
1328169 CCTTTTCCAT
*
1328179 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
* *
1328222 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
1328265 CTTT
1 CTTT
1328269 TCCATCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
Found at i:1328300 original size:52 final size:53
Alignment explanation
Indices: 1328222--1328375 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
1328212 ACATTGGCAC
*
1328222 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAG
* * * *
1328274 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAG
* * * * * *
1328329 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1328376 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 35 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAG
Found at i:1329224 original size:13 final size:13
Alignment explanation
Indices: 1329206--1329230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1329196 CATAAAGTGT
1329206 TGTATCGATACAA
1 TGTATCGATACAA
1329219 TGTATCGATACA
1 TGTATCGATACA
1329231 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1329228 original size:33 final size:33
Alignment explanation
Indices: 1329186--1329252 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1329176 TTCAACGATT
1329186 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1329219 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1329252 T
1 T
1329253 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1329311 original size:13 final size:13
Alignment explanation
Indices: 1329293--1329317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1329283 ATCACTTAAA
1329293 TGTATCGATACAT
1 TGTATCGATACAT
1329306 TGTATCGATACA
1 TGTATCGATACA
1329318 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1329370 original size:52 final size:51
Alignment explanation
Indices: 1329306--1329454 Score: 244
Period size: 52 Copynumber: 2.9 Consensus size: 51
1329296 ATCGATACAT
**
1329306 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
1329358 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-CAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1329410 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTA-TCAATGTATCGATACATGCAGGCAAATTT
1329455 TCATATTTCG
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.97
53 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:1332622 original size:163 final size:162
Alignment explanation
Indices: 1332342--1332667 Score: 562
Period size: 163 Copynumber: 2.0 Consensus size: 162
1332332 CGGTCACTTC
1332342 GTAGTGACCATTAAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCTTAATCAACAA
1 GTAGTGACCATTAAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCTTAATCAACAA
**** *
1332407 ACTTTTTGTCATGCCATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGTGCCTCATTTGC
66 ACTTCCCATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGCGCCTCATTTGC
* *
1332472 CCTATCGCCGGGGTCGAGCGCACGTTGCGACA
131 CCTATCGCCAGGGTCGAGCGCACGTTACGACA
*
1332504 GTAGTGACCATTAAAGATTAATTAGATGGGCGATTCATCTACTGATCTTCCCCCTCTAATCAACA
1 GTAGTGACCATTAAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCT-TAATCAACA
*
1332569 CACTTCCCATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGCGCCTCATTTG
65 AACTTCCCATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGCGCCTCATTTG
1332634 CCCTATCGCCAGGGTCGAGCGCACGTTACGACA
130 CCCTATCGCCAGGGTCGAGCGCACGTTACGACA
1332667 G
1 G
1332668 CTTAGATAAT
Statistics
Matches: 154, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
162 54 0.35
163 100 0.65
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (162 bp):
GTAGTGACCATTAAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCTTAATCAACAA
ACTTCCCATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGCGCCTCATTTGC
CCTATCGCCAGGGTCGAGCGCACGTTACGACA
Found at i:1334654 original size:166 final size:165
Alignment explanation
Indices: 1334450--1335077 Score: 672
Period size: 166 Copynumber: 3.8 Consensus size: 165
1334440 TGGAATTCTC
* * **
1334450 CTTTTTTTCGAAATACGGAGTTTTCTTCTTCGTAAATTTTTTCGGGAGGATTTTCATCAGTTTTT
1 CTTTTTTTCGAAATA-GAAGTTTTCTTCTCCGTAAATTTTTTCGGGAGGATTTTCATTGGTTTTT
1334515 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATAAGTTTTCAAAAATTCATTC
65 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATAAGTTTTCAAAAATTCATTC
*
1334580 ATTTTAATGGATTTTTGATTTTTTTTCTTGCAACTT
130 ATTTTCATGGATTTTTGATTTTTTTTCTTGCAACTT
** * * *
1334616 CTTTTTTTTAAAATATGAAGTTTTCTTCTCCATAAATTTTTTCGGGAGAATTTTTATTGGTTTTT
1 CTTTTTTTCGAAATA-GAAGTTTTCTTCTCCGTAAATTTTTTCGGGAGGATTTTCATTGGTTTTT
* * ** *
1334681 AATTTTTAAAATTCATAAAATATTATTTTTTATTTTATATTAAATCTGTTTTCAAAAATTCACTC
65 AATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATAAGTTTTCAAAAATTCATTC
* * *
1334746 ATTTTCATGGATTTTTGAATTTTTTCCTTACAACTT
130 ATTTTCATGGATTTTTGATTTTTTTTCTTGCAACTT
** * * * *
1334782 CCCATTTTTCGAAATACAGAGTTTTCTTCTTCGTAAATTTTTTTGGGAGGATTTTCATTTGTTTT
1 -CTTTTTTTCGAAATAGA-AGTTTTCTTCTCCGTAAATTTTTTCGGGAGGATTTTCATTGGTTTT
* ** * ** * ** * *
1334847 TAATTTTCAAAATTTTTCAAATAACATTTTTTAAATCATATGAAATCAGTTTTTCAAAAATTCAT
64 TAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATAAG-TTTTCAAAAATTCAT
*
1334912 TCATTTTCATGGATTTTT--TTATTTTTTCCTTG-AAATT
128 TCATTTTCATGGATTTTTGATT-TTTTTT-CTTGCAACTT
** * * *
1334949 C------TCCTAGTAGAA-TTTTCTACTCCGTAAATTTTTT-GGGGGGATTTTTC-TTGGTTTTT
1 CTTTTTTTCGAAATAGAAGTTTTCTTCTCCGTAAATTTTTTCGGGAGGA-TTTTCATTGGTTTTT
* * *
1335005 AATTTTTTAAATTCATAAAATATTATTATTTATTTC-TAATTAAATTAA-TTTTTAAAAATTCCT
65 AATTTTTAAAATTCATAAAATATTATTATTTATTTCAT-ATTAAA-TAAGTTTTCAAAAATTCAT
1335068 TCATTTTCAT
128 TCATTTTCAT
1335078 TAGTTTTTAA
Statistics
Matches: 386, Mismatches: 68, Indels: 26
0.80 0.14 0.05
Matches are distributed among these distances:
156 24 0.06
157 45 0.12
158 27 0.07
159 1 0.00
160 6 0.02
166 150 0.39
167 98 0.25
168 35 0.09
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.52
Consensus pattern (165 bp):
CTTTTTTTCGAAATAGAAGTTTTCTTCTCCGTAAATTTTTTCGGGAGGATTTTCATTGGTTTTTA
ATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATAAGTTTTCAAAAATTCATTCA
TTTTCATGGATTTTTGATTTTTTTTCTTGCAACTT
Found at i:1336954 original size:159 final size:159
Alignment explanation
Indices: 1336665--1336973 Score: 505
Period size: 159 Copynumber: 1.9 Consensus size: 159
1336655 GTGATAAAAT
*
1336665 TAAATTTTAATTATTTTTTCTAATCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGATT
1 TAAATTTTAATTATTTTCTCTAATCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGATT
*
1336730 TCAAAAATGTTTCGCATCCTTTCGGGCTTCCATTAGGGTACGAAATGGTATTTTCGAAAATAAAT
66 TCAAAAATGTTTCGCATCCTTTCGGGCTTCCATTAGGGCACGAAATGGTATTTTCGAAAATAAAT
1336795 AAAATAAAATTGAATTAATACTTTCAGGA
131 AAAATAAAATTGAATTAATACTTTCAGGA
* *
1336824 TAAATTTTAATTATTTTCTCTAATCTTTTATATTTCTAT-GAGCATCCGTAGGTGTATAAAAGAT
1 TAAATTTTAATTATTTTCTCTAATCTTTTATATTCCTATAG-GCATCCGTAGGGGTATAAAAGAT
* * * *
1336888 TTTAAAAATGTTTTGTATCCTTTCGGGCTTCCATTAGGGCATGAAATGGTACTTTT-GAAAATAA
65 TTCAAAAATGTTTCGCATCCTTTCGGGCTTCCATTAGGGCACGAAATGGTA-TTTTCGAAAATAA
*
1336952 ATAAAATTAAATTGAATTAATA
129 ATAAAATAAAATTGAATTAATA
1336974 ATTTTGAGAA
Statistics
Matches: 139, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
158 1 0.01
159 134 0.96
160 4 0.03
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (159 bp):
TAAATTTTAATTATTTTCTCTAATCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGATT
TCAAAAATGTTTCGCATCCTTTCGGGCTTCCATTAGGGCACGAAATGGTATTTTCGAAAATAAAT
AAAATAAAATTGAATTAATACTTTCAGGA
Found at i:1338630 original size:81 final size:81
Alignment explanation
Indices: 1338455--1338670 Score: 260
Period size: 81 Copynumber: 2.7 Consensus size: 81
1338445 GATGTTTCAA
* * * * ** * * * *
1338455 AAATAAAGTCGGGATTGGAGTATCCCCGT-GAAAATAATAGGGTTGGAGTAT--CCTCAATTATA
1 AAATAAAGCCGGGGTTGGAGCATCCCC-TCGGAAATAACGGGGTTGGAGTATCCCCGCGATTGTG
*
1338517 AGAAATCAATATTTTGG
65 AGAAATCAATATTTAGG
*
1338534 AAATAAAGCCGGGGTTGGAGCATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGCGATTGTGA
1 AAATAAAGCCGGGGTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGCGATTGTGA
1338599 GAAATCAATACTTTAGG
66 GAAATCAATA-TTTAGG
* *
1338616 -AATAAAGCCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCG
1 AAATAAAGCCGGGGTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCG
1338671 ATGATTAACG
Statistics
Matches: 118, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 1 0.01
79 42 0.36
81 70 0.59
82 5 0.04
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (81 bp):
AAATAAAGCCGGGGTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGCGATTGTGA
GAAATCAATATTTAGG
Found at i:1338687 original size:27 final size:28
Alignment explanation
Indices: 1338624--1338694 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
1338614 GGAATAAAGC
*
1338624 CGGGGTTGGAGTATCCCCTTGGAAATAA
1 CGGGGTTGGAGTATCCCCATGGAAATAA
*
1338652 CGGGGTTGGAGTATCCCCGAT-G-ATTAA
1 CGGGGTTGGAGTATCCCC-ATGGAAATAA
1338679 CGGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1338695 ATGATTATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 20 0.50
28 19 0.47
29 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCATGGAAATAA
Found at i:1338861 original size:51 final size:51
Alignment explanation
Indices: 1338683--1338863 Score: 260
Period size: 51 Copynumber: 3.6 Consensus size: 51
1338673 GATTAACGGG
** *
1338683 GTTGGAGTATCCATGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGA
*
1338734 GTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTTGAAAA-AAAA-CTGGG
1 GTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGAAAATAAAATC-GGA
* * *
1338784 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGA
1338835 GTTGGAGTATCCCCGATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTATGAAAAATTG
1338864 AGAAACTTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
49 1 0.01
50 44 0.38
51 69 0.60
52 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:1338879 original size:101 final size:101
Alignment explanation
Indices: 1338680--1338879 Score: 269
Period size: 101 Copynumber: 2.0 Consensus size: 101
1338670 GATGATTAAC
* * *
1338680 GGGGTTGGAGTATCCATGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATC
1 GGGGTTGGAGTATCCACGATTATGAAAAATTGGTGTTTCGAAAATAAAATCGGAGTTGGAGTATC
****
1338745 CCCGATTATAGAAAATTGGTGTTTTGAAAAAAAACT
66 CCCGATTATAGAAAATTGGAAACTTGAAAAAAAACT
* * *
1338781 GGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGGAGTTGGAGTATC
1 GGGGTTGGAGTATCCACGATTATGAAAAATTGGTGTTTCGAAAATAAAATCGGAGTTGGAGTATC
*
1338846 CCCGATTAT-GAAAAATTGAGAAACTT-AACAAAAA
66 CCCGATTATAG-AAAATTG-GAAACTTGAAAAAAAA
1338880 TAGTTTTGGG
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
100 1 0.01
101 82 0.95
102 3 0.03
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (101 bp):
GGGGTTGGAGTATCCACGATTATGAAAAATTGGTGTTTCGAAAATAAAATCGGAGTTGGAGTATC
CCCGATTATAGAAAATTGGAAACTTGAAAAAAAACT
Found at i:1348301 original size:60 final size:60
Alignment explanation
Indices: 1348210--1348966 Score: 450
Period size: 60 Copynumber: 12.6 Consensus size: 60
1348200 TGAAAATCAC
* * * * * *
1348210 CCCTCTTGACTATATTCGGTCAAGACCTTCCTCATTTGACTGTATTTGGTCAAAT-TTCA
1 CCCTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGATCAAATCTTCA
* * * * * * * * *
1348269 CCTTGCTTGACTATATTCAGTTAAGTCTTTCCTTATTTGATTATATTTGGTGAAATCTT-A
1 CCCT-CTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGATCAAATCTTCA
* ** * * ** *
1348329 CCCCTCTGGACTGTATTCAGTCAAAACCTTT-CTTATTTGACTATTTTTGGTCAAAT-TTCA
1 -CCCTCTTGACTGTATTCAGTC-AAGTCTTTCCTCATTTGACTGTACTTGATCAAATCTTCA
* * ** * * * *
1348389 CCCTTGCTTGACTGTATTAAGTCAAGTCTTTCCTTATTTGGTTTTACTAGGTTAAATCTT-A
1 CCC-T-CTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGATCAAATCTTCA
* ** * * *
1348450 CCCCTTTTGACTGTATTC-GATCAAAACCTTCCTCTTTTGACTATA-TTCGATCAAAT-TTCA
1 -CCCTCTTGACTGTATTCAG-TCAAGTCTTTCCTCATTTGACTGTACTT-GATCAAATCTTCA
* * * * *
1348510 CCTTCGCTTGACTATATTTAGTCAAGTCCTTCCTCATTTGATTGTACTTGATCAAATCTT-A
1 CC--CTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGATCAAATCTTCA
* * ** *
1348571 CCCCTCTTGACTGTATTC-GATTAAGACCTTT-CTTGTTTGACTGTACTCGATCAAATCTTGC-
1 -CCCTCTTGACTGTATTCAG-TCAAG-TCTTTCCTCATTTGACTGTACTTGATCAAATCTT-CA
** * * * * * * * *
1348632 CCCTCTTGGTTGTATTCGGTCAAGACCTTCATCGTTTGATTGTACTTCACCAAATCTT-A
1 CCCTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGATCAAATCTTCA
* * * * *
1348691 CCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTTGGTCAAAT-TTCA
1 -CCCTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGATCAAATCTTCA
* * * * * *
1348751 CCCTCGCTTAACTGTATTTAGTCAAGTCTTTCCTCATTTGATTATACTCGATCAAATCTTCC
1 CCCT--CTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGATCAAATCTTCA
* * * * * *
1348813 CCCTCTTGACTGTGTTCAATCAAATCTTACC-CTTTTTGACTGTATTTGATCAAAT-TTCA
1 CCCTCTTGACTGTATTCAGTCAAGTCTTTCCTC-ATTTGACTGTACTTGATCAAATCTTCA
* * * * * * *
1348872 CCCTGTTTGATTGTATTCGGTCAAGTCTTTCTTCTTTTGACTATACTTGATTAAATCTT-A
1 CCCT-CTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGATCAAATCTTCA
* * * *
1348932 CCTCGCTTGATTGTATTCGGTCAAGCCTTTCCTCA
1 CC-CTCTTGACTGTATTCAGTCAAGTCTTTCCTCA
1348967 CTTGCCTACA
Statistics
Matches: 542, Mismatches: 120, Indels: 71
0.74 0.16 0.10
Matches are distributed among these distances:
59 32 0.06
60 356 0.66
61 135 0.25
62 19 0.04
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.42
Consensus pattern (60 bp):
CCCTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTGTACTTGATCAAATCTTCA
Found at i:1348462 original size:121 final size:120
Alignment explanation
Indices: 1348208--1348955 Score: 722
Period size: 121 Copynumber: 6.2 Consensus size: 120
1348198 ACTGAAAATC
* * * *
1348208 ACCCCTCTTGACTATATTCGGTCAAGACCTTCCTCATTTGACTGTATTTGGTCAAATTTCA-CCT
1 ACCCCTCTTGACTGTATTC-GTCAAAACCTTCCTTATTTGACTGTATTTGATCAAATTTCACCCT
* * * * * *
1348272 TGCTTGACTATATTCAGTTAAGTCTTTCCTTATTTGATTATATTTGGTGAAATCTT
65 TGCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTT
* * * * *
1348328 ACCCCTCTGGACTGTATTCAGTCAAAACCTTTCTTATTTGACTATTTTTGGTCAAATTTCACCCT
1 ACCCCTCTTGACTGTATTC-GTCAAAACCTTCCTTATTTGACTGTATTTGATCAAATTTCACCCT
* * * * * * *
1348393 TGCTTGACTGTATTAAGTCAAGTCTTTCCTTATTTGGTTTTACTAGGTTAAATCTT
65 TGCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTT
* * *
1348449 ACCCCTTTTGACTGTATTCGATCAAAACCTTCCTCT-TTTGACTATATTCGATCAAATTTCA-CC
1 ACCCCTCTTGACTGTATTCG-TCAAAACCTTCCT-TATTTGACTGTATTTGATCAAATTTCACCC
* * * *
1348512 TTCGCTTGACTATATTTAGTCAAGTCCTTCCTCATTTGATTGTACTTGATCAAATCTT
64 TT-GCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTT
* * * * * *
1348570 ACCCCTCTTGACTGTATTCGATTAAGACCTTTCTTGTTTGACTGTACTCGATCAAATCTTGC-CC
1 ACCCCTCTTGACTGTATTCG-TCAAAACCTTCCTTATTTGACTGTATTTGATCAAAT-TT-CACC
** * * * * * * * *
1348634 C-T-CTTGGTTGTATTCGGTCAAGACCTTCATCGTTTGATTGTACTTCACCAAATCTT
63 CTTGCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTT
* * *
1348690 ACCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTTGGTCAAATTTCACCCT
1 ACCCCTCTTGACTGTATTC-GTCAAAACCTTCCTTATTTGACTGTATTTGATCAAATTTCACCCT
* * * *
1348755 CGCTTAACTGTATTTAGTCAAGTCTTTCCTCATTTGATTATACTCGATCAAATCTT
65 TGCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTT
* * * *
1348811 CCCCCTCTTGACTGTGTTCAATC-AAATCTTACCCTT-TTTGACTGTATTTGATCAAATTTCACC
1 ACCCCTCTTGACTGTATTC-GTCAAAACCTT--CCTTATTTGACTGTATTTGATCAAATTTCACC
* * * * * * *
1348874 C-TGTTTGATTGTATTCGGTCAAGTCTTTCTTCTTTTGACTATACTTGATTAAATCTT
63 CTTGCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTT
* * *
1348931 ACCTCGCTTGATTGTATTCGGTCAA
1 ACCCCTCTTGACTGTATTC-GTCAA
1348956 GCCTTTCCTC
Statistics
Matches: 519, Mismatches: 94, Indels: 29
0.81 0.15 0.05
Matches are distributed among these distances:
118 1 0.00
119 5 0.01
120 217 0.42
121 286 0.55
122 7 0.01
123 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (120 bp):
ACCCCTCTTGACTGTATTCGTCAAAACCTTCCTTATTTGACTGTATTTGATCAAATTTCACCCTT
GCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTT
Found at i:1348722 original size:241 final size:238
Alignment explanation
Indices: 1348208--1348966 Score: 878
Period size: 241 Copynumber: 3.2 Consensus size: 238
1348198 ACTGAAAATC
*
1348208 ACCCCTCTTGACTATATTCGGTCAAGACCTTCCTCATTTGACTGTATTTGGTCAAATTTCACCTT
1 ACCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTTGGTCAAATTTCACCTT
* * * * * * *
1348273 -GCTTGACTATATTCAGTTAAGTCTTTCCTTATTTGATTATATTTGGTGAAATCTTACCCCTCTG
66 CGCTTGACTATATTTAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTTACCCCTCTT
* * * *
1348337 GACTGTATTCAGTCAAAACCTTTCTTATTTGACTATTTTTGGTCAAATTTCACCCTTGCTTGACT
131 GACTGTATTCA-TC-AAACCTTTCTT-TTTGACTGTATTTGATCAAATTTCACCC-TGCTTGATT
** * * * * * *
1348402 GTATTAAGTCAAGTCTTTCCTTATTTGGTTTTACTAGGTTAAATCTT
192 GTATTCGGTCAAGTCTTTCATCATTTGATTATACTTGATTAAATCTT
* * * * * * *
1348449 ACCCCTTTTGACTGTATTCGATCAAAACCTTCCTCTTTTGACTATATTCGATCAAATTTCACCTT
1 ACCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTTGGTCAAATTTCACCTT
* *
1348514 CGCTTGACTATATTTAGTCAAGTCCTTCCTCATTTGATTGTACTTGATCAAATCTTACCCCTCTT
66 CGCTTGACTATATTTAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTTACCCCTCTT
* * * *
1348579 GACTGTATTCGATTAAGACCTTTCTTGTTTGACTGTACTCGATCAAATCTTGC-CCCT-CTTGGT
131 GACTGTATTC-ATCAA-ACCTTTCTT-TTTGACTGTATTTGATCAAAT-TT-CACCCTGCTTGAT
* * * * * **
1348642 TGTATTCGGTCAAGACCTTCATCGTTTGATTGTACTTCACCAAATCTT
191 TGTATTCGGTCAAGTCTTTCATCATTTGATTATACTTGATTAAATCTT
*
1348690 ACCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTTGGTCAAATTTCACCCT
1 ACCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTTGGTCAAATTTCACCTT
* * * *
1348755 CGCTTAACTGTATTTAGTCAAGTCTTTCCTCATTTGATTATACTCGATCAAATCTTCCCCCTCTT
66 CGCTTGACTATATTTAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTTACCCCTCTT
* * * *
1348820 GACTGTGTTCAATCAAATCTTACCCTTTTTGACTGTATTTGATCAAATTTCACCCTGTTTGATTG
131 GACTGTATTC-ATCAAACCTT--TCTTTTTGACTGTATTTGATCAAATTTCACCCTGCTTGATTG
* * *
1348885 TATTCGGTCAAGTCTTTCTTCTTTTGACTATACTTGATTAAATCTT
193 TATTCGGTCAAGTCTTTCATCATTTGATTATACTTGATTAAATCTT
* * *
1348931 ACCTCGCTTGATTGTATTCGGTCAAG-CCTTTCCTCA
1 ACCCCTCTTGACTGTATTCGGTCAAGACC-TTCCTCA
1348967 CTTGCCTACA
Statistics
Matches: 433, Mismatches: 75, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
239 1 0.00
240 12 0.03
241 318 0.73
242 95 0.22
243 6 0.01
244 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.42
Consensus pattern (238 bp):
ACCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTTGGTCAAATTTCACCTT
CGCTTGACTATATTTAGTCAAGTCTTTCCTCATTTGATTATACTTGATCAAATCTTACCCCTCTT
GACTGTATTCATCAAACCTTTCTTTTTGACTGTATTTGATCAAATTTCACCCTGCTTGATTGTAT
TCGGTCAAGTCTTTCATCATTTGATTATACTTGATTAAATCTT
Found at i:1348865 original size:30 final size:30
Alignment explanation
Indices: 1348442--1348900 Score: 119
Period size: 30 Copynumber: 15.2 Consensus size: 30
1348432 TTACTAGGTT
*
1348442 AAATCTTACCCCTTTTGACTGTATTCGATC
1 AAATCTTACCCTTTTTGACTGTATTCGATC
* *
1348472 AAAACCTT--CCTCTTTTGACTATATTCGATC
1 -AAATCTTACCCT-TTTTGACTGTATTCGATC
* * *
1348502 AAAT-TT-CACCTTCGCTTGACTATATT-TAGTC
1 AAATCTTAC-CCTT--TTTGACTGTATTCGA-TC
* * *
1348533 AAGTCCTT--CCTCATTTGATTGTACTT-GATC
1 AAAT-CTTACCCT-TTTTGACTGTA-TTCGATC
* * *
1348563 AAATCTTACCCCTCTTGACTGTATTCGATT
1 AAATCTTACCCTTTTTGACTGTATTCGATC
* * *
1348593 AAGACCTT--TCTTGTTTGACTGTACTCGATC
1 AA-ATCTTACCCTT-TTTGACTGTATTCGATC
* * * ** *
1348623 AAATCTTGCCCCTCTTGGTTGTATTCGGTC
1 AAATCTTACCCTTTTTGACTGTATTCGATC
* * * * *
1348653 AAGACCTT--CATCGTTTGATTGTACTTC-ACC
1 AA-ATCTTACCCT-TTTTGACTGTA-TTCGATC
* * *
1348683 AAATCTTACCCCTCTTGACTGTATTCGGTC
1 AAATCTTACCCTTTTTGACTGTATTCGATC
* * * *
1348713 AAGACCTT--CCTCATTTGACTGTATTTGGTC
1 AA-ATCTTACCCT-TTTTGACTGTATTCGATC
** * *
1348743 AAAT-TTCACCCTCGCTTAACTGTATT-TAGTC
1 AAATCTT-ACCCT-TTTTGACTGTATTCGA-TC
* * * * * *
1348774 AAGTCTT-TCCTCATTTGATTATACTCGATC
1 AAATCTTACCCT-TTTTGACTGTATTCGATC
* * * * *
1348804 AAATCTTCCCCCTCTTGACTGTGTTCAATC
1 AAATCTTACCCTTTTTGACTGTATTCGATC
*
1348834 AAATCTTACCCTTTTTGACTGTATTTGATC
1 AAATCTTACCCTTTTTGACTGTATTCGATC
* * *
1348864 AAAT-TTCACCCTGTTTGATTGTATTCGGTC
1 AAATCTT-ACCCTTTTTGACTGTATTCGATC
*
1348894 AAGTCTT
1 AAATCTT
1348901 TCTTCTTTTG
Statistics
Matches: 305, Mismatches: 89, Indels: 68
0.66 0.19 0.15
Matches are distributed among these distances:
28 4 0.01
29 30 0.10
30 195 0.64
31 72 0.24
32 2 0.01
33 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (30 bp):
AAATCTTACCCTTTTTGACTGTATTCGATC
Found at i:1350442 original size:332 final size:335
Alignment explanation
Indices: 1350027--1350662 Score: 890
Period size: 332 Copynumber: 1.9 Consensus size: 335
1350017 GAATTCTTAT
* *
1350027 TTTTTCTAAAATACGGAGCTTTCTTCTCTATAAATTTTTTCAGGAGGATTTTCATCGGTTTTTAA
1 TTTTTCTAAAATACAGAACTTTCTTCTCTATAAATTTTTTCAGGAGGATTTTCATCGGTTTTTAA
** *
1350092 TTTTTTAAATTTATCAAATATTATTATTTATTTCATATTAAATCAATTTTCAAAAATTCTTTCAT
66 TTTTTTAAATTTATCAAATATTATTATTTAAATCATATTAAATCAATTTTCAAAAATTCATTCAT
* * *
1350157 TTTCAT-GAATTTTTGAATTTTTTCCTTGCAACTCCCCT-TTTTCAAAATATGGAGTTTTCTTCT
131 TTTCATAG-ATTTTTGAATTTTTTCCTTGAAACTCCCCTATTTTCAAAATATGGAATTTTCTACT
* * *
1350220 CCGT-AATTTTTT-TGGAGGA-TTTTCATCAGTTTTTAATTTTTAAAATTTATCAAATATTATTA
195 CCGTAAATTTTTTAAGGAGGATTTTTC-TCAGTTTTTAATTTTTAAAATTCATAAAATATTATTA
*
1350282 TTTATTTCATATTAAATCA-TTTTTCAAAAATTCATTCATTTTCATGGATTTTTGAATTTTTTCC
259 TTTATTTCACATTAAATCAGTTTTT-AAAAATTCATTCATTTTCATGGATTTTTGAATTTTTTCC
1350346 TTGCAACTTCTCC
323 TTGCAACTTCTCC
* * * **
1350359 TTTTTC-AAAATACAGAATTTTTTTCTCTAGTAAATTTTTTCAGGAGGATTTTTATTTGTTTTTA
1 TTTTTCTAAAATACAGAACTTTCTTCTCTA-TAAATTTTTTCAGGAGGATTTTCATCGGTTTTTA
* * *
1350423 ATTTTTTAAATTTATCAAATATTATTATTTAAATCATATTAATTTAGTTTTCAAAAATTCATTCA
65 ATTTTTTAAATTTATCAAATATTATTATTTAAATCATATTAAATCAATTTTCAAAAATTCATTCA
* * * ** *
1350488 TTTTCATAGATTTTTTATTTTTTTCCTTGAAATTTTCTTATTTTCAAAATATGGAATTTTCTACT
130 TTTTCATAGATTTTTGAATTTTTTCCTTGAAACTCCCCTATTTTCAAAATATGGAATTTTCTACT
* * * * *
1350553 CTGTAAATTTTTTCAAGGGGGATTTTTCTTAGTTTTTAGTTTTTTAAATTCATAAAATATTATTA
195 CCGTAAATTTTTT-AAGGAGGATTTTTCTCAGTTTTTAATTTTTAAAATTCATAAAATATTATTA
*
1350618 TTTATTTCACATTAAATCAGTTTTTAAAAATTCCTTCATTTTCAT
259 TTTATTTCACATTAAATCAGTTTTTAAAAATTCATTCATTTTCAT
1350663 TAGTTTCTAA
Statistics
Matches: 264, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
331 19 0.07
332 126 0.48
333 27 0.10
334 8 0.03
336 74 0.28
337 10 0.04
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.52
Consensus pattern (335 bp):
TTTTTCTAAAATACAGAACTTTCTTCTCTATAAATTTTTTCAGGAGGATTTTCATCGGTTTTTAA
TTTTTTAAATTTATCAAATATTATTATTTAAATCATATTAAATCAATTTTCAAAAATTCATTCAT
TTTCATAGATTTTTGAATTTTTTCCTTGAAACTCCCCTATTTTCAAAATATGGAATTTTCTACTC
CGTAAATTTTTTAAGGAGGATTTTTCTCAGTTTTTAATTTTTAAAATTCATAAAATATTATTATT
TATTTCACATTAAATCAGTTTTTAAAAATTCATTCATTTTCATGGATTTTTGAATTTTTTCCTTG
CAACTTCTCC
Found at i:1350464 original size:168 final size:168
Alignment explanation
Indices: 1350027--1350662 Score: 831
Period size: 168 Copynumber: 3.8 Consensus size: 168
1350017 GAATTCTTAT
** *
1350027 TTTTTCTAAAATACGGAGCTTTCTTCTCTA-TAAATTTTTTCAGGAGGATTTTCATCGGTTTTTA
1 TTTTTC-AAAATACGGAATTTTCTTCTCTAGTAAATTTTTTCAGGAGGATTTTCATCAGTTTTTA
* *
1350091 ATTTTTTAAATTTATCAAATATTATTATTTATTTCATATTAAATCAATTTTCAAAAATTCTTTCA
65 ATTTTTTAAATTTATCAAATATTATTATTTATTTCATATTAAATCATTTTTCAAAAATTCATTCA
* *
1350156 TTTTCATGAATTTTTGAATTTTTTCCTTGCAAC-TCCCC
130 TTTTCATGGATTTTTGAATTTTTTCCTTGCAACTTCTCC
* * * *
1350194 TTTTTCAAAATATGGAGTTTTCTTCTC-CGT-AATTTTTT-TGGAGGATTTTCATCAGTTTTTAA
1 TTTTTCAAAATACGGAATTTTCTTCTCTAGTAAATTTTTTCAGGAGGATTTTCATCAGTTTTTAA
*
1350256 TTTTTAAAATTTATCAAATATTATTATTTATTTCATATTAAATCATTTTTCAAAAATTCATTCAT
66 TTTTTTAAATTTATCAAATATTATTATTTATTTCATATTAAATCATTTTTCAAAAATTCATTCAT
1350321 TTTCATGGATTTTTGAATTTTTTCCTTGCAACTTCTCC
131 TTTCATGGATTTTTGAATTTTTTCCTTGCAACTTCTCC
* * * **
1350359 TTTTTCAAAATACAGAATTTTTTTCTCTAGTAAATTTTTTCAGGAGGATTTTTATTTGTTTTTAA
1 TTTTTCAAAATACGGAATTTTCTTCTCTAGTAAATTTTTTCAGGAGGATTTTCATCAGTTTTTAA
** * * *
1350424 TTTTTTAAATTTATCAAATATTATTATTTAAATCATATTAATTTAGTTTTCAAAAATTCATTCAT
66 TTTTTTAAATTTATCAAATATTATTATTTATTTCATATTAAATCATTTTTCAAAAATTCATTCAT
* * * * * *
1350489 TTTCATAGATTTTTTATTTTTTTCCTTG-AAATTTTCT
131 TTTCATGGATTTTTGAATTTTTTCCTTGCAACTTCTCC
* * * *
1350526 TATTTTCAAAATATGGAATTTTCTACTCT-GTAAATTTTTTCAAGGGGGATTTTTC-TTAGTTTT
1 T-TTTTCAAAATACGGAATTTTCTTCTCTAGTAAATTTTTTC-AGGAGGA-TTTTCATCAGTTTT
* * * * *
1350589 TAGTTTTTTAAATTCATAAAATATTATTATTTATTTCACATTAAATCAGTTTTT-AAAAATTCCT
63 TAATTTTTTAAATTTATCAAATATTATTATTTATTTCATATTAAATCA-TTTTTCAAAAATTCAT
1350653 TCATTTTCAT
127 TCATTTTCAT
1350663 TAGTTTCTAA
Statistics
Matches: 412, Mismatches: 48, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
164 115 0.28
165 35 0.08
166 22 0.05
167 33 0.08
168 199 0.48
169 8 0.02
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.52
Consensus pattern (168 bp):
TTTTTCAAAATACGGAATTTTCTTCTCTAGTAAATTTTTTCAGGAGGATTTTCATCAGTTTTTAA
TTTTTTAAATTTATCAAATATTATTATTTATTTCATATTAAATCATTTTTCAAAAATTCATTCAT
TTTCATGGATTTTTGAATTTTTTCCTTGCAACTTCTCC
Found at i:1352458 original size:159 final size:161
Alignment explanation
Indices: 1352253--1352567 Score: 483
Period size: 159 Copynumber: 2.0 Consensus size: 161
1352243 GTGATAAAAT
* *
1352253 TAAATTTTAATTATTTTTTTCTAATTTTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGA
1 TAAATTTTAATTATTTTTTTCTAATTCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGA
*
1352318 TTTCAAAAATGTTTCGTATCCTTTTAGGC-TTCTATTAGGGTAAGAAATAGTATTTTCAAAAATA
66 TTTCAAAAATGTTTCGTATCCTTTCAGGCTTTC-ATTAGGGTAAGAAATAGTATTTTCAAAAATA
*
1352382 AATAAAATAAAATTGAATTATTACTTTCGGGA
130 AATAAAATAAAATTGAATTAATACTTTCGGGA
* * *
1352414 TAAATTTTAATTA-TTTTTTCTAA-TCTTTTATATTCCTTTAGGCATCTGTAGGTGTATAAAAGA
1 TAAATTTTAATTATTTTTTTCTAATTCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGA
* * * * *
1352477 TTTCAAAAATGTTTCGTGTCCTTTCGGGCTTTCATTAGGGTATGAAATGGTATTTTCGAAAATAA
66 TTTCAAAAATGTTTCGTATCCTTTCAGGCTTTCATTAGGGTAAGAAATAGTATTTTCAAAAATAA
*
1352542 ATAAAATTAAATTGAATTAATACTTT
131 ATAAAATAAAATTGAATTAATACTTT
1352568 TAAGAAAAAT
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
159 114 0.81
160 13 0.09
161 13 0.09
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.43
Consensus pattern (161 bp):
TAAATTTTAATTATTTTTTTCTAATTCTTTTATATTCCTATAGGCATCCGTAGGGGTATAAAAGA
TTTCAAAAATGTTTCGTATCCTTTCAGGCTTTCATTAGGGTAAGAAATAGTATTTTCAAAAATAA
ATAAAATAAAATTGAATTAATACTTTCGGGA
Found at i:1358127 original size:103 final size:105
Alignment explanation
Indices: 1357887--1358127 Score: 287
Period size: 103 Copynumber: 2.3 Consensus size: 105
1357877 TCCCTCGAAG
*** ***
1357887 ATAACGGGGTTGGAGTATCCCCGATTGTG--AAAAATTGGTATTTTAGAAATAAAATTGGGGTTG
1 ATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAAATCAATATTTTAGAAATAAAACCAGGGTTG
*
1357950 GAGTATCCCCTCGAAAACGAGATTGGAGTATCCACAATGAA
66 GAGTATCCCCTCGAAAACGAGA-TCGAGTATCCACAATGAA
* * *
1357991 ATAACGGGGTTGGAGTA-CCCCTGATTATGAAAAAAGATCAATATTTTAGATATAAAGCCAGGGT
1 ATAACGGGGTTGGAGTATCCCC-GATTGTGAAAAAA-ATCAATATTTTAGAAATAAAACCAGGGT
* * *
1358055 TGGAGTATCCCCTCGAAAA-TA-A-CGAGTATCCCCGATGAA
64 TGGAGTATCCCCTCGAAAACGAGATCGAGTATCCACAATGAA
*
1358094 ATAACGGGGTTGGAGTATCCCCAATTGTGAAAAA
1 ATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
1358128 TTGGTGTTTT
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
103 45 0.38
104 27 0.23
105 1 0.01
106 5 0.04
107 39 0.33
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (105 bp):
ATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAAATCAATATTTTAGAAATAAAACCAGGGTTG
GAGTATCCCCTCGAAAACGAGATCGAGTATCCACAATGAA
Found at i:1358164 original size:51 final size:51
Alignment explanation
Indices: 1358106--1358242 Score: 193
Period size: 51 Copynumber: 2.7 Consensus size: 51
1358096 AACGGGGTTG
* * *
1358106 GAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTA
* * * * *
1358157 GAGTATCCCCGATTGCGATAAATCGATGCTTTAGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTA
*
1358208 GAGTATCCCCGATTAAGAAAAATTGATGTTTTGGA
1 GAGTATCCCCGATTGAGAAAAATTGATGTTTTGGA
1358243 CTATGAAACC
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTA
Found at i:1360592 original size:20 final size:21
Alignment explanation
Indices: 1360567--1360626 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
1360557 AAAAATGCCT
*
1360567 AAATGTATCGATACATTGTA-
1 AAATGTATCGATACAATGTAG
*
1360587 AAATGTATCGATATAATG-AG
1 AAATGTATCGATACAATGTAG
*
1360607 CAATGTATCGATACAATGTA
1 AAATGTATCGATACAATGTA
1360627 TCGATACAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.03
20 32 0.94
21 1 0.03
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (21 bp):
AAATGTATCGATACAATGTAG
Found at i:1360623 original size:13 final size:13
Alignment explanation
Indices: 1360607--1360637 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1360597 ATATAATGAG
1360607 CAATGTATCGATA
1 CAATGTATCGATA
1360620 CAATGTATCGATA
1 CAATGTATCGATA
1360633 CAATG
1 CAATG
1360638 CAAAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1360654 original size:33 final size:33
Alignment explanation
Indices: 1360588--1360654 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
1360578 TACATTGTAA
* * *
1360588 AATGTATCGATATAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCAATAC
*
1360621 AATGTATCGATACAATGCA-AAATGTATTAATAC
1 AATGTATCGATACAATG-AGAAATGTATCAATAC
1360654 A
1 A
1360655 TCTGGGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGAGAAATGTATCAATAC
Found at i:1361326 original size:41 final size:40
Alignment explanation
Indices: 1361227--1361327 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
1361217 GTCCCACTTT
* * *
1361227 TTGAGGACAAAGG-AAAAGAGAATGAAATAGGTCTTGCTC
1 TTGAGGACAAAGGAAAAAGAAAAGGAAATAGGTCCTGCTC
* *
1361266 CTGAGGACAAAGGAAAAAAGAAAAGGAAA-ATGTCCTGCTTC
1 TTGAGGACAAAGG-AAAAAGAAAAGGAAATAGGTCCTGC-TC
1361307 TTGAGGACAAAGTGAAAAAGA
1 TTGAGGACAAAG-GAAAAAGA
1361328 GTACATCCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
39 12 0.23
40 7 0.13
41 32 0.62
42 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.27, T:0.17
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAAAAGGAAATAGGTCCTGCTC
Found at i:1361380 original size:43 final size:41
Alignment explanation
Indices: 1361331--1361498 Score: 115
Period size: 43 Copynumber: 3.9 Consensus size: 41
1361321 AAAAAGAGTA
*
1361331 CATCCTGCTTTTCGAGGACAAAGGAAAAAAGGAAAACGAAA-TG
1 CATCCTGCTTTT-GAGGACAAAAG-AAAAAGGAAAA-GAAAGTG
* * *
1361374 CATCCTGCTTTTTGAGGATAAAAGAAAGAGGAAAATAAAGTG
1 CATCCTGC-TTTTGAGGACAAAAGAAAAAGGAAAAGAAAGTG
* * *
1361416 CTGTCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGGGAATG-AAGTG
1 C-ATCCTGCT-TTTGAGGAC-AAAA-G-AAA-AAGGAAAAGAAAGTG
** * *
1361462 TGTCCTACTCTTTGAGGACAAACGAGAAAAGGAAAAG
1 CATCCTGCT-TTTGAGGACAAAAGA-AAAAGGAAAAG
1361499 GCGTCATACT
Statistics
Matches: 101, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
41 3 0.03
42 22 0.22
43 34 0.34
44 11 0.11
45 18 0.18
46 8 0.08
47 5 0.05
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.20
Consensus pattern (41 bp):
CATCCTGCTTTTGAGGACAAAAGAAAAAGGAAAAGAAAGTG
Found at i:1361473 original size:45 final size:41
Alignment explanation
Indices: 1361410--1361600 Score: 151
Period size: 38 Copynumber: 4.6 Consensus size: 41
1361400 AGAGGAAAAT
*
1361410 AAAGTGCTGTCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGGGA
1 AAAGTG-TGTCCTACTCTTTGAGGACAAAAAGGAAAA-AA-GGA
* *
1361454 ATGAAGTGTGTCCTACTCTTTGAGGAC--AAACGAGAAAAGGA
1 A--AAGTGTGTCCTACTCTTTGAGGACAAAAAGGAAAAAAGGA
* * * *
1361495 AAAG-GCGTCATACTCTTTGAAGACAAAAGGGAAAAGAAGGAA
1 AAAGTGTGTCCTACTCTTTGAGGACAAAAAGGAAAA-AAGG-A
* * * *
1361537 ATGAAATGTGTCCTGCTCTTTGAGG--ATAAAGGAGAAAAGGA
1 A--AAGTGTGTCCTACTCTTTGAGGACAAAAAGGAAAAAAGGA
*
1361578 AAAG-GCGTCCTACTCTTTGAGGA
1 AAAGTGTGTCCTACTCTTTGAGGA
1361601 TTAAAAAGTG
Statistics
Matches: 117, Mismatches: 20, Indels: 25
0.72 0.12 0.15
Matches are distributed among these distances:
38 33 0.28
39 5 0.04
40 6 0.05
41 10 0.09
42 8 0.07
43 15 0.13
44 3 0.03
45 32 0.27
46 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (41 bp):
AAAGTGTGTCCTACTCTTTGAGGACAAAAAGGAAAAAAGGA
Found at i:1361520 original size:83 final size:83
Alignment explanation
Indices: 1361424--1361597 Score: 276
Period size: 83 Copynumber: 2.1 Consensus size: 83
1361414 TGCTGTCCTG
* * *
1361424 CTCTTTGAGGACAAAAAGGAAAAGAAGGGAATGAAGTGTGTCCTACTCTTTGAGGACAAACGAGA
1 CTCTTTGAAGACAAAAAGGAAAAGAAGGAAATGAAATGTGTCCTACTCTTTGAGGACAAACGAGA
1361489 AAAGGAAAAGGCGTCATA
66 AAAGGAAAAGGCGTCATA
* * * *
1361507 CTCTTTGAAGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGATAAAGGAGA
1 CTCTTTGAAGACAAAAAGGAAAAGAAGGAAATGAAATGTGTCCTACTCTTTGAGGACAAACGAGA
*
1361572 AAAGGAAAAGGCGTCCTA
66 AAAGGAAAAGGCGTCATA
1361590 CTCTTTGA
1 CTCTTTGA
1361598 GGATTAAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (83 bp):
CTCTTTGAAGACAAAAAGGAAAAGAAGGAAATGAAATGTGTCCTACTCTTTGAGGACAAACGAGA
AAAGGAAAAGGCGTCATA
Found at i:1361673 original size:61 final size:57
Alignment explanation
Indices: 1361576--1362347 Score: 765
Period size: 55 Copynumber: 13.5 Consensus size: 57
1361566 AGGAGAAAAG
* * * ** *
1361576 GAAAAGGCGTCCTACTCTTTGAGGATTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAA
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----A
* * * *
1361637 GAAAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTA
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
* * * *
1361694 CAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGAGTGGTCTTTA
1 GAAA-AG---GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
* * * *
1361755 -AAAGGAGAAAGCATCCTACTCTTTGAGGATTGGAAAATGCCACCAACTCGTGTGGGCTTT-
1 GAAA--AG---GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
* * * * * * * *
1361815 G-AAAGGCGTTCTGCTCTTTAAGGACTAGAAAATGCCACCGACTCGTGTAGGCTTT-
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
*
1361870 G-AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT---A
* **
1361929 GGAAAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCATGTGGGCTTT-
1 -GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
* ** *
1361986 -AAAAGGCATCATGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT-
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
*
1362041 G-AAAGGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTATGTAGGGCTTT-
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGT-GGGCTTTA
* * * *
1362097 G-AAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAA
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----A
* *
1362157 CAAAAGGCGTCCTGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTT-
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
* * *
1362212 -AAGAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT-
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
*
1362267 G-AAAGGCATCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-
1 GAAAAGGCATCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTA
* *
1362322 G-AAAGGCGTCTTGCTCTTTGAGGACT
1 GAAAAGGCATCCTGCTCTTTGAGGACT
1362348 AAAGGGGTGA
Statistics
Matches: 620, Mismatches: 66, Indels: 56
0.84 0.09 0.08
Matches are distributed among these distances:
54 33 0.05
55 276 0.45
56 47 0.08
57 7 0.01
58 4 0.01
60 31 0.05
61 222 0.36
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (57 bp):
GAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:1361942 original size:171 final size:169
Alignment explanation
Indices: 1361572--1362348 Score: 848
Period size: 171 Copynumber: 4.5 Consensus size: 169
1361562 ATAAAGGAGA
* * *
1361572 AAAGGAAAAGGCGTCCTACTCTTTGAGGATTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAA
1 AAAGGAAAAGGCATCCTACTCTTTGAGGACT-GAAAGTGCCACCAACTCGTGTGGGCTTT-----
* * **
1361637 GAAAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTACAAAGAGA
60 G-AAAGGCGTTCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-A
* * * * *
1361702 AAGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGAGTGGTCTTT
118 AGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* *
1361754 AAAAGGAGAAA-GCATCCTACTCTTTGAGGATTGGAAAATGCCACCAACTCGTGTGGGCTTTGAA
1 -AAAGGA-AAAGGCATCCTACTCTTTGAGGACT-GAAAGTGCCACCAACTCGTGTGGGCTTTGAA
* * * *
1361818 AGGCGTTCTGCTCTTTAAGGACTAGAAAATGCCACCGACTCGTGTAGGCTTTGAAAGGCATCCTG
63 AGGCGTTCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTG
1361883 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
128 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * * *
1361925 GAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTCATGTGGGCTTTAAAA
1 -AAAGGAAAAGGCATCCTACTCTTTGAGGACT-GAAAGTGCCACCAACTCGTGTGGGCTTTGAAA
* *
1361990 GGC-ATCATGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTG
64 GGCGTTC-TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTG
* *
1362054 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTATGTAGGGCTTT
128 CTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGT-GGGCTTT
* * *
1362097 ----G-AAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAA
1 AAAGGAAAAGGCATCCTACTCTTTGAGGACT-GAAAGTGCCACCAACTCGTGTGGGCTTT-----
* * * *
1362157 CAAAAGGCGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCA
60 -GAAAGGCGTTCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCA
*
1362220 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT
123 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
1362267 ----G-AAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 AAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAA-GTGCCACCAACTCGTGTGGGCTTTGAAAG
1362327 GCG-TCTTGCTCTTTGAGGACTA
65 GCGTTC-TGCTCTTTGAGGACTA
1362349 AAGGGGTGAA
Statistics
Matches: 526, Mismatches: 51, Indels: 52
0.84 0.08 0.08
Matches are distributed among these distances:
163 1 0.00
164 22 0.04
166 47 0.09
167 1 0.00
169 3 0.01
170 67 0.13
171 247 0.47
172 35 0.07
173 1 0.00
177 46 0.09
178 1 0.00
183 52 0.10
184 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (169 bp):
AAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGG
CGTTCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTC
TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:1362191 original size:226 final size:226
Alignment explanation
Indices: 1361578--1362352 Score: 1015
Period size: 226 Copynumber: 3.4 Consensus size: 226
1361568 GAGAAAAGGA
* * * * * *
1361578 AAAGGCGTCCTACTCTTTGAGGATTAAAAAGTGCCACCAACTCGTGT-GGGCTTTAAAAAGAAAA
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGGCTTT-----G-AAA
*
1361642 GGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTACAAAGAGAAA-GC
60 GGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAGGC
*
1361706 ATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGA-GTGGTCTTTAAAAGGAGAAAGCATC
124 ATCCTGCTCTTTGAGGACTGG-AAGTGCCACCAACTC-ATGTGGGCTTT-AAA--AG---GCATC
* * *
1361770 CTACTCTTTGAGGATTGGAAAATGCCACCAACTCGTGTGGGCTTTG
181 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
* * * * * * *
1361816 AAAGGCGTTCTGCTCTTTAAGGACTAGAAA-ATGCCACCGACTCGTGTA-GGCTTTGAAAGGCAT
1 AAAGGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTAGGGCTTTGAAAGGCGT
* * ** * *
1361879 CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTG
65 CCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCTG
*
1361944 CTCTTTGAGGACTGGGAAGTGCCACCAACTCATGTGGGCTTTAAAAGGCATCATGCTCTTTGAGG
130 CTCTTTGAGGACT-GGAAGTGCCACCAACTCATGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGG
**
1362009 ACTAAAAAATGCCACCAACTTGTGTGGGCTTTG
194 ACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
*
1362042 AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTAGGGCTTTGAAAGGCGTC
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGGCTTTGAAAGGCGTC
* *
1362107 CTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAACAAAAGGCGTCCTGC
66 CTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCTGC
** *
1362172 TCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTGCTCTTTGAGGAC
131 TCTTTGAGGACTGGAAGTGCCACCAACTCATGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
*
1362237 TGGAAAATGCCACCAACTTGTATGGGCTTTG
196 TGGAAAATGCCACCAACTTGTGTGGGCTTTG
*
1362268 AAAGGCATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGGCTTTGAAAGGCGTC
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGGCTTTGAAAGGCGTC
* *
1362332 TTGCTCTTTGAGGACTA-AAGG
66 CTACTCTTTGAGGACTAGAAGG
1362353 GGTGAAAGGA
Statistics
Matches: 481, Mismatches: 49, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
224 4 0.01
225 36 0.07
226 203 0.42
227 84 0.17
229 2 0.00
231 7 0.01
232 97 0.20
233 3 0.01
238 42 0.09
239 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (226 bp):
AAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGGCTTTGAAAGGCGTC
CTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCTGC
TCTTTGAGGACTGGAAGTGCCACCAACTCATGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
TGGAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:1375174 original size:31 final size:30
Alignment explanation
Indices: 1375139--1375238 Score: 112
Period size: 31 Copynumber: 3.2 Consensus size: 30
1375129 CTATTAAACC
*
1375139 TAAGCATAAGTGTAAATTATCATATTGCTCT
1 TAAGCATAA-TGTAAACTATCATATTGCTCT
* * *
1375170 TAAGCACGAACGTAAACTATCATATTGCTCC
1 TAAGCA-TAATGTAAACTATCATATTGCTCT
*
1375201 TAAGCATAAATGTAAACTATTATATTGCT-T
1 TAAGCAT-AATGTAAACTATCATATTGCTCT
1375231 CTAAGCAT
1 -TAAGCAT
1375239 GATAATAACA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 56 0.97
32 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (30 bp):
TAAGCATAATGTAAACTATCATATTGCTCT
Found at i:1376187 original size:55 final size:55
Alignment explanation
Indices: 1376102--1376219 Score: 127
Period size: 55 Copynumber: 2.1 Consensus size: 55
1376092 TGGGCATTAA
* *
1376102 CATCTTGGATGAATCTTCCTTAGTTGTCAAGCTTGGTGCATAC-TCTATCATTCT-C
1 CATCTTGGATGAATCTTCCTTAGTTATCAAGCTTAGTGCAT-CTTCTATC-TTCTGC
* * *
1376157 CATCTTGGAT-AATTCTT-CTTTGATTATCAAGTTTAGTGTATCTTCTATCTTCTGC
1 CATCTTGGATGAA-TCTTCCTTAG-TTATCAAGCTTAGTGCATCTTCTATCTTCTGC
1376212 CATCTTGG
1 CATCTTGG
1376220 TGCTAACATC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
54 11 0.20
55 43 0.80
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.44
Consensus pattern (55 bp):
CATCTTGGATGAATCTTCCTTAGTTATCAAGCTTAGTGCATCTTCTATCTTCTGC
Found at i:1376882 original size:68 final size:68
Alignment explanation
Indices: 1376807--1377002 Score: 169
Period size: 70 Copynumber: 2.9 Consensus size: 68
1376797 TATATGTTAT
1376807 ATCTTTTGCCATCTTGATGAGATATCATGGATGAATCTTCCTTGATCATCAAGTTTGGCAAATCC
1 ATCTTTTGCCATCTTGATGAGATATCATGGATGAATCTTCCTTGATCATCAAGTTTGGCAAATCC
*
1376872 TCC
66 TAC
* * * * * * * ** * * *
1376875 ATGTTTTGCCATCTTGTTGCTAACATTTGA-GGATGGATTTTTTTTGGTCATCAAGTTTGGTATA
1 ATCTTTTGCCATCTTGATG---AGATATCATGGATGAATCTTCCTTGATCATCAAGTTTGGCAAA
* *
1376939 TGCTAT
63 TCCTAC
* * * * * *
1376945 ATCTTTCGCCATCTTGATGTGACATCTTAGATGAATCTTCCTTGATCATGAAGTTTGG
1 ATCTTTTGCCATCTTGATGAGATATCATGGATGAATCTTCCTTGATCATCAAGTTTGG
1377003 GTGTCTGCTA
Statistics
Matches: 93, Mismatches: 31, Indels: 8
0.70 0.23 0.06
Matches are distributed among these distances:
67 2 0.02
68 40 0.43
70 46 0.49
71 5 0.05
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (68 bp):
ATCTTTTGCCATCTTGATGAGATATCATGGATGAATCTTCCTTGATCATCAAGTTTGGCAAATCC
TAC
Found at i:1377593 original size:51 final size:51
Alignment explanation
Indices: 1377501--1377848 Score: 274
Period size: 51 Copynumber: 6.8 Consensus size: 51
1377491 TAGTATTTTC
* *** * *
1377501 GGTCTTGACGTGAAAATCAAATTCAAATGTGTTAAACCTGATCAGATTTGT
1 GGTCTTGACATGAAAATCAAATTCAAGCATGTCAAACCTGATCAGATTTAT
* * * *
1377552 AGTCTTGACATGAAAATCAAATTCTAGCATGTCAAAGCTGATTAGATTTAT
1 GGTCTTGACATGAAAATCAAATTCAAGCATGTCAAACCTGATCAGATTTAT
* * * * ** * *
1377603 GGTCTTTACATGAAGATCGAATTTAATTATGTCAAACTTGATCAGATTTGT
1 GGTCTTGACATGAAAATCAAATTCAAGCATGTCAAACCTGATCAGATTTAT
* *
1377654 GGTCTTGACATGAAGATCAAATTCAAGCATGTCAAACCTAATC-GAATTTAT
1 GGTCTTGACATGAAAATCAAATTCAAGCATGTCAAACCTGATCAG-ATTTAT
* * * * *
1377705 GGTCTTGACATGAACATTAGAA-TCAA-CTGTGTCAAACCTAAT-TGAATTTAT
1 GGTCTTGACATGAAAATCA-AATTCAAGC-ATGTCAAACCTGATCAG-ATTTAT
*** * * ** *
1377756 GGTCTTGACATGGGCATCAAAGTCAACCATGTCAAACCTGATTGGATTTGT
1 GGTCTTGACATGAAAATCAAATTCAAGCATGTCAAACCTGATCAGATTTAT
* * * * *
1377807 GGCCTTGATATGAAGAT-AGAGTTTAAGCATGTCAAACCTGAT
1 GGTCTTGACATGAAAATCA-AATTCAAGCATGTCAAACCTGAT
1377849 TGGATTCGTG
Statistics
Matches: 240, Mismatches: 49, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
50 5 0.02
51 231 0.96
52 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (51 bp):
GGTCTTGACATGAAAATCAAATTCAAGCATGTCAAACCTGATCAGATTTAT
Found at i:1377666 original size:102 final size:102
Alignment explanation
Indices: 1377477--1377869 Score: 341
Period size: 102 Copynumber: 3.9 Consensus size: 102
1377467 TATTTTGAAA
* * * * * * *
1377477 CATGTCAAACTTG-TTAGTATTT-TCGGTCTTGACGTGAAAATCA-AATTCAAATGTGTTAAACC
1 CATGTCAAACCTGATTAG-ATTTAT-GGTCTTGACATGAAGAT-AGAATTTAACTATGTCAAACC
* *
1377539 TGATCAGATTTGTAGTCTTGACATGAAAATCAAATTCTAG
63 TGATCAGATTTGTGGTCTTGACATGAAAATCAAATTCAAG
* * * * *
1377579 CATGTCAAAGCTGATTAGATTTATGGTCTTTACATGAAGATCGAATTTAATTATGTCAAACTTGA
1 CATGTCAAACCTGATTAGATTTATGGTCTTGACATGAAGATAGAATTTAACTATGTCAAACCTGA
*
1377644 TCAGATTTGTGGTCTTGACATGAAGATCAAATTCAAG
66 TCAGATTTGTGGTCTTGACATGAAAATCAAATTCAAG
* * * * *
1377681 CATGTCAAACCT-AATCGAATTTATGGTCTTGACATGAACATTAGAA-TCAACTGTGTCAAACCT
1 CATGTCAAACCTGATTAG-ATTTATGGTCTTGACATGAAGA-TAGAATTTAACTATGTCAAACCT
* * * *** * *
1377744 AAT-TGAATTTATGGTCTTGACATGGGCATCAAAGTCAAC
64 GATCAG-ATTTGTGGTCTTGACATGAAAATCAAATTCAAG
* * * * *
1377783 CATGTCAAACCTGATTGGATTTGTGGCCTTGATATGAAGATAGAGTTTAAGC-ATGTCAAACCTG
1 CATGTCAAACCTGATTAGATTTATGGTCTTGACATGAAGATAGAATTTAA-CTATGTCAAACCTG
** * *
1377847 ATTGGATTCGTGATCTTGACATG
65 ATCAGATTTGTGGTCTTGACATG
1377870 GAGATTATTA
Statistics
Matches: 235, Mismatches: 46, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
101 8 0.03
102 213 0.91
103 14 0.06
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (102 bp):
CATGTCAAACCTGATTAGATTTATGGTCTTGACATGAAGATAGAATTTAACTATGTCAAACCTGA
TCAGATTTGTGGTCTTGACATGAAAATCAAATTCAAG
Found at i:1380046 original size:27 final size:27
Alignment explanation
Indices: 1379936--1380055 Score: 136
Period size: 27 Copynumber: 4.5 Consensus size: 27
1379926 TAAAAGGCAC
* *
1379936 GGTTGGAGTAT-CCCTCAAAAAGAT-T
1 GGTTGGAGTATCCCCTCAGAAAGATAA
* *
1379961 GATTTGAAGTATCCCCTCAGAAAGATAA
1 G-GTTGGAGTATCCCCTCAGAAAGATAA
* * **
1379989 GGTTGAAGTATCCCCTCGGAAAGATGG
1 GGTTGGAGTATCCCCTCAGAAAGATAA
*
1380016 GGTTGGAGTATCCCCTCATAAAGATAA
1 GGTTGGAGTATCCCCTCAGAAAGATAA
1380043 GGTTGGAGTATCC
1 GGTTGGAGTATCC
1380056 TCGTGGATGA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.01
26 8 0.10
27 69 0.87
28 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (27 bp):
GGTTGGAGTATCCCCTCAGAAAGATAA
Found at i:1380153 original size:103 final size:101
Alignment explanation
Indices: 1380015--1380266 Score: 312
Period size: 103 Copynumber: 2.4 Consensus size: 101
1380005 CGGAAAGATG
* *
1380015 GGGTTGGAGTATCCCCTCATAAAGATAAGGTTGGAGTATCCTCGTGGATGACAAATAATTTTGAC
1 GGGTTGGAGTATCCCCTCA-AAAGGTAAGGTTGGAGTATCCCCGTGGATGACAAATAATTTTGAC
*
1380080 AAA-AAAAAAGTTTTAAATCTTGAC-AA-TTCTGAAGAGC
65 AAAGAAAAAA--TTCAAATCTTGACAAATTTCT-AAGAGC
* * *
1380117 GAGGTTGAAGTATCCCCTCAAAAGGTCAAGGTTGGAGTATCCCCATGGATGACAAATGATTTTGA
1 G-GGTTGGAGTATCCCCTCAAAAGGT-AAGGTTGGAGTATCCCCGTGGATGACAAATAATTTTGA
**
1380182 CAAAGGGAAAATTCAAATCTTGACAAATTTCTAAGAGC
64 CAAAGAAAAAATTCAAATCTTGACAAATTTCTAAGAGC
** *
1380220 GGTGTTGGAGTATCCCCTTGAAAGGTTAGGGTTGGAGTATCCCCGTG
1 GG-GTTGGAGTATCCCCTCAAAAGG-TAAGGTTGGAGTATCCCCGTG
1380267 AATAAAAATT
Statistics
Matches: 130, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
102 19 0.15
103 102 0.78
104 9 0.07
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (101 bp):
GGGTTGGAGTATCCCCTCAAAAGGTAAGGTTGGAGTATCCCCGTGGATGACAAATAATTTTGACA
AAGAAAAAATTCAAATCTTGACAAATTTCTAAGAGC
Found at i:1381121 original size:51 final size:51
Alignment explanation
Indices: 1381041--1381155 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 51
1381031 TTACTGTTTG
* * * *
1381041 TATCGATACATTATTCATTTTATCGATACATTCTAGGTTTTTACCCAGATA
1 TATCGATACATTATTCATTATATCAATACATTCCAGGTTTTTACCCAAATA
* * *
1381092 TATCGATACATTATTCATTATATCAATACATTCCGGGTTTTTACGCAAATG
1 TATCGATACATTATTCATTATATCAATACATTCCAGGTTTTTACCCAAATA
*
1381143 TATTGATACATTA
1 TATCGATACATTA
1381156 GTCAATTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (51 bp):
TATCGATACATTATTCATTATATCAATACATTCCAGGTTTTTACCCAAATA
Found at i:1386055 original size:52 final size:51
Alignment explanation
Indices: 1385998--1386134 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 51
1385988 TAATTGGATG
* * *
1385998 TATCGATACATTGAAAAATGTATCGAGACATTTAG-GTCAAAAACTCAAAATA
1 TATCGATACA-TGAAAAATGTATCAATACATTT-GTGTCAAAAACCCAAAATA
* * * * *
1386050 TATCGATATAATGAAGAATGTATCAATACATTTGTTTTAAAAACCCAAAATG
1 TATCGATA-CATGAAAAATGTATCAATACATTTGTGTCAAAAACCCAAAATA
1386102 TATCGATACCATGAAAAATGTATCAATACATTT
1 TATCGATA-CATGAAAAATGTATCAATACATTT
1386135 TCTTTTCAGA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
51 1 0.01
52 70 0.97
53 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (51 bp):
TATCGATACATGAAAAATGTATCAATACATTTGTGTCAAAAACCCAAAATA
Found at i:1386213 original size:20 final size:20
Alignment explanation
Indices: 1386170--1386242 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
1386160 TTCATGGTCC
* **
1386170 TGTATCAATACATTTCAAGCA
1 TGTATCGATACA-TTCACTCA
*
1386191 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTCA
* *
1386211 TGTATCGATA-TTTTACTCA
1 TGTATCGATACATTCACTCA
1386230 TTGTATCGATACA
1 -TGTATCGATACA
1386243 AATTGCTGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 6 0.14
20 25 0.60
21 11 0.26
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTCACTCA
Found at i:1387072 original size:13 final size:13
Alignment explanation
Indices: 1387054--1387079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1387044 TACACAAAGT
1387054 ATGTATCGATACA
1 ATGTATCGATACA
1387067 ATGTATCGATACA
1 ATGTATCGATACA
1387080 CATAAAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1387077 original size:32 final size:32
Alignment explanation
Indices: 1387036--1387099 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1387026 TAGCCAAACT
1387036 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAGT-TGTATCGATACAA
1387068 TGTATCGATACACATAAAGTTGTATCGATACA
1 TGTATCGATACACA-AAAGTTGTATCGATACA
1387100 TTGGCCTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 13 0.43
33 12 0.40
34 5 0.17
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACAAAAGTTGTATCGATACAA
Found at i:1388699 original size:15 final size:15
Alignment explanation
Indices: 1388661--1388699 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1388651 AAGAATACAA
1388661 AAAAAAAAAAGAAAG
1 AAAAAAAAAAGAAAG
* * *
1388676 AATACAAAAAGAGAG
1 AAAAAAAAAAGAAAG
1388691 AAAAAAAAA
1 AAAAAAAAA
1388700 CCAGTATTTG
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:1389468 original size:12 final size:11
Alignment explanation
Indices: 1389446--1389521 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1389436 AGAGAAAGAA
*
1389446 GAGAGAGGAGG
1 GAGATAGGAGG
1389457 GATGATAGGAGG
1 GA-GATAGGAGG
*
1389469 AGAGACAGGA--
1 -GAGATAGGAGG
*
1389479 GAGATAGTA--
1 GAGATAGGAGG
1389488 GAGATAGGAGG
1 GAGATAGGAGG
1389499 GATGATAGGAGG
1 GA-GATAGGAGG
*
1389511 AGAGACAGGAG
1 -GAGATAGGAG
1389522 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1389478 original size:24 final size:24
Alignment explanation
Indices: 1389445--1389530 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1389435 AAGAGAAAGA
*
1389445 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1389469 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1389487 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1389511 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1389531 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1389497 original size:42 final size:42
Alignment explanation
Indices: 1389436--1389554 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1389426 TAGCCCTCAA
* *
1389436 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1389478 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
1389520 AGAGATAATAGAGAGAGGAGGGATGACAGAAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1389555 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1397882 original size:15 final size:15
Alignment explanation
Indices: 1397862--1397892 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1397852 TAAAAATGTC
*
1397862 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1397877 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1397892 C
1 C
1397893 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1399990 original size:13 final size:13
Alignment explanation
Indices: 1399972--1400010 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1399962 ACATTTTTCT
1399972 TTGTATCGATACA
1 TTGTATCGATACA
1399985 TTGTATCGATACA
1 TTGTATCGATACA
*
1399998 CTGTATCGATACA
1 TTGTATCGATACA
1400011 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1400165 original size:20 final size:20
Alignment explanation
Indices: 1400122--1400167 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1400112 AAATCTTTTG
1400122 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1400143 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1400163 CAAAA
1 CAAAA
1400168 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1402581 original size:13 final size:13
Alignment explanation
Indices: 1402563--1402588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1402553 TACACAAAGT
1402563 ATGTATCGATACA
1 ATGTATCGATACA
1402576 ATGTATCGATACA
1 ATGTATCGATACA
1402589 CATAAAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1402586 original size:32 final size:32
Alignment explanation
Indices: 1402545--1402608 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1402535 TAGCCAAACT
*
1402545 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAGT-TATATCGATACAA
1402577 TGTATCGATACACATAAAGTTATATCGATACA
1 TGTATCGATACACA-AAAGTTATATCGATACA
1402609 TTGGCCTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 11 0.38
34 5 0.17
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACAAAAGTTATATCGATACAA
Found at i:1403976 original size:46 final size:46
Alignment explanation
Indices: 1403892--1404003 Score: 147
Period size: 46 Copynumber: 2.4 Consensus size: 46
1403882 TTAAATTAAT
* *
1403892 TTAATTTAATTTAAAGATAAATAAAAGAATTTTATCTCTGACTAAG
1 TTAAATTAATTTAAAGATAAATAAAAGAATTTTATCTCTGACTAAA
* * *
1403938 TTAAATTAATTTAAAGATAAAT-AAAGAAGTTTTGTCTCTTATTAAA
1 TTAAATTAATTTAAAGATAAATAAAAGAA-TTTTATCTCTGACTAAA
1403984 TTAAATTAA-TTAAGAGATAA
1 TTAAATTAATTTAA-AGATAA
1404004 TTCATCAAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
45 10 0.17
46 49 0.83
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.39
Consensus pattern (46 bp):
TTAAATTAATTTAAAGATAAATAAAAGAATTTTATCTCTGACTAAA
Found at i:1413766 original size:19 final size:19
Alignment explanation
Indices: 1413742--1413778 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1413732 CGCCCTTAAT
* *
1413742 CTATGTTTATAATTGTAAG
1 CTATGTGTATAAATGTAAG
1413761 CTATGTGTATAAATGTAA
1 CTATGTGTATAAATGTAA
1413779 AATATGACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (19 bp):
CTATGTGTATAAATGTAAG
Found at i:1414679 original size:20 final size:20
Alignment explanation
Indices: 1414654--1414691 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1414644 TAAAACCTTA
1414654 CAGTTTTGCATCTTGTTTTG
1 CAGTTTTGCATCTTGTTTTG
1414674 CAGTTTTGCATCTTGTTT
1 CAGTTTTGCATCTTGTTT
1414692 CTTTTCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.16, G:0.18, T:0.55
Consensus pattern (20 bp):
CAGTTTTGCATCTTGTTTTG
Found at i:1416551 original size:42 final size:41
Alignment explanation
Indices: 1416497--1416584 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 41
1416487 ATTAATTTAA
* * *
1416497 TTAATTAGAGATAAAACTCTTTCATTTAT-TTATTAACTCAAT
1 TTAATTAAAGATAAAACTATTTCATTTATCTT-TAAACT-AAT
*
1416539 TTAATTAAAGATAAAACTATTTTATTTATCTTTAAACTAAT
1 TTAATTAAAGATAAAACTATTTCATTTATCTTTAAACTAAT
1416580 TTAAT
1 TTAAT
1416585 ATAGTTACAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
41 8 0.20
42 31 0.76
43 2 0.05
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (41 bp):
TTAATTAAAGATAAAACTATTTCATTTATCTTTAAACTAAT
Found at i:1416599 original size:46 final size:43
Alignment explanation
Indices: 1416489--1416600 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 43
1416479 ATCTCTTAAT
* *
1416489 TAATTTAATTAATTAGAGATAAAACTCTTTCATTTATTTATTAAC
1 TAATTTAATT-ATTA-AGATAAAACTATTTCATTTATTTATAAAC
*
1416534 TCAATTTAATTA--AAGATAAAACTATTTTATTTATCTT-TAAAC
1 T-AATTTAATTATTAAGATAAAACTATTTCATTTAT-TTATAAAC
1416576 TAATTTAATATAGTTACAGATAAAA
1 TAATTTAAT-TA-TTA-AGATAAAA
1416601 TAACTAATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
41 8 0.14
42 26 0.46
43 3 0.05
45 3 0.05
46 17 0.30
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (43 bp):
TAATTTAATTATTAAGATAAAACTATTTCATTTATTTATAAAC
Found at i:1418482 original size:51 final size:49
Alignment explanation
Indices: 1418406--1418676 Score: 186
Period size: 51 Copynumber: 5.6 Consensus size: 49
1418396 CATTAGAAAC
* * *
1418406 GCTTGAATTTGATCTTCATCTCAAGACTACAAATCTGATCATGTTTGGCAT
1 GCTTGGATTTGATCTTCATGTCAAGACTACAAAT-TGATCA-GTTTGACAT
* *
1418457 GCTTGGATTTGATCTTCATGTCAAG-------A--GATCAATTTGATAT
1 GCTTGGATTTGATCTTCATGTCAAGACTACAAATTGATCAGTTTGACAT
* **
1418497 GCTTGGATTTGATCTTCATGTCAAGA-TCATAAATCCAATCAAGTTTGACAT
1 GCTTGGATTTGATCTTCATGTCAAGACT-ACAAAT-TGATC-AGTTTGACAT
* * * * * *
1418548 GCTGGGATTTGGTCTTCTTGTTAAGACTACAAATTCGATTAGGTTTAACAT
1 GCTTGGATTTGATCTTCATGTCAAGACTACAAATT-GATCA-GTTTGACAT
* * * *
1418599 GCTTGGATTTGGTCTTCATGTCAAGACCACAAATTCGATCGAGGTTTAACTT
1 GCTTGGATTTGATCTTCATGTCAAGACTACAAATT-GATC-A-GTTTGACAT
* **
1418651 GTTTGGATTCAATC-TCATGTCAAGAC
1 GCTTGGATTTGATCTTCATGTCAAGAC
1418677 AAAAAATCAA
Statistics
Matches: 178, Mismatches: 27, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
40 31 0.17
41 5 0.03
44 1 0.01
47 1 0.01
50 4 0.02
51 115 0.65
52 21 0.12
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (49 bp):
GCTTGGATTTGATCTTCATGTCAAGACTACAAATTGATCAGTTTGACAT
Found at i:1418564 original size:91 final size:91
Alignment explanation
Indices: 1418406--1418573 Score: 221
Period size: 91 Copynumber: 1.8 Consensus size: 91
1418396 CATTAGAAAC
** * * *
1418406 GCTTGAATTTGATCTTCATCTCAAGACTACAAATCTGATCATGTTTGGCATGCTTGGATTTGATC
1 GCTTGAATTTGATCTTCATCTCAAGACTACAAATCCAATCAAGTTTGACATGCTGGGATTTGATC
1418471 TTCATGTCAAGAGATCAATTTGATAT
66 TTCATGTCAAGAGATCAATTTGATAT
* * * *
1418497 GCTTGGATTTGATCTTCATGTCAAGA-TCATAAATCCAATCAAGTTTGACATGCTGGGATTTGGT
1 GCTTGAATTTGATCTTCATCTCAAGACT-ACAAATCCAATCAAGTTTGACATGCTGGGATTTGAT
* *
1418561 CTTCTTGTTAAGA
65 CTTCATGTCAAGA
1418574 CTACAAATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
90 1 0.02
91 64 0.98
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (91 bp):
GCTTGAATTTGATCTTCATCTCAAGACTACAAATCCAATCAAGTTTGACATGCTGGGATTTGATC
TTCATGTCAAGAGATCAATTTGATAT
Found at i:1419976 original size:31 final size:31
Alignment explanation
Indices: 1419863--1419976 Score: 104
Period size: 31 Copynumber: 3.7 Consensus size: 31
1419853 CATATTCAGA
* ** * *
1419863 AGCAATATGACAACTTAAGCTCGTGCTTAAG
1 AGCAATATGATAGTTTATGCTCGTGCTTTAG
* *
1419894 AGCAATATGATAGTTTACGCTTGTG-TTTAAG
1 AGCAATATGATAGTTTATGCTCGTGCTTT-AG
* * * *
1419925 AGCAATATAATAATTAATGCTCGTGCTTTGG
1 AGCAATATGATAGTTTATGCTCGTGCTTTAG
*
1419956 AGAAATATGATAGTTTATGCT
1 AGCAATATGATAGTTTATGCT
1419977 AGAAGCATCA
Statistics
Matches: 65, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
30 2 0.03
31 60 0.92
32 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (31 bp):
AGCAATATGATAGTTTATGCTCGTGCTTTAG
Found at i:1422476 original size:49 final size:47
Alignment explanation
Indices: 1422414--1422583 Score: 159
Period size: 48 Copynumber: 3.5 Consensus size: 47
1422404 GTCACATTTT
*
1422414 TTTACTCAGATGTATCGATATATTTTTCAATGTATCATACATTTAGTCC
1 TTTAC-CAGATGTATCGATACATTTTTCAATGTATCATACATTTAGT-C
* **
1422463 TTTAGCCAGATGTATCGATACATTTTTCAATATGGAAAAGTCACA-TT--T-
1 TTTA-CCAGATGTATCGATACATTTTTC-A-ATGTATCA-T-ACATTTAGTC
* *
1422511 TTTACTCAAATGTATCGATACATTTTTCAATGTATCGATACATTCAGTC
1 TTTAC-CAGATGTATCGATACATTTTTCAATGTATC-ATACATTTAGTC
1422560 TTTTACCCAGATGTATCGATACAT
1 -TTTA-CCAGATGTATCGATACAT
1422584 GTGAATGTAT
Statistics
Matches: 98, Mismatches: 10, Indels: 25
0.74 0.08 0.19
Matches are distributed among these distances:
45 3 0.03
46 6 0.06
47 3 0.03
48 26 0.27
49 25 0.26
50 23 0.23
51 6 0.06
52 3 0.03
53 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (47 bp):
TTTACCAGATGTATCGATACATTTTTCAATGTATCATACATTTAGTC
Found at i:1422512 original size:97 final size:98
Alignment explanation
Indices: 1422394--1422583 Score: 312
Period size: 97 Copynumber: 1.9 Consensus size: 98
1422384 GAATGCAAAA
* * *
1422394 AATATGGAAAGTCACATTTTTTTACTCAGATGTATCGATATATTTTTCAATGTATC-ATACATTT
1 AATATGGAAAGTCACATTTTTTTACTCAAATGTATCGATACATTTTTCAATGTATCGATACATTC
*
1422458 AGTCCTTTAGCCAGATGTATCGATACATTTTTC
66 AGTCCTTTACCCAGATGTATCGATACATTTTTC
1422491 AATATGGAAAAGTCACA-TTTTTTACTCAAATGTATCGATACATTTTTCAATGTATCGATACATT
1 AATATGG-AAAGTCACATTTTTTTACTCAAATGTATCGATACATTTTTCAATGTATCGATACATT
*
1422555 CAGTCTTTTACCCAGATGTATCGATACAT
65 CAGTCCTTTACCCAGATGTATCGATACAT
1422584 GTGAATGTAT
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
97 44 0.51
98 42 0.49
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (98 bp):
AATATGGAAAGTCACATTTTTTTACTCAAATGTATCGATACATTTTTCAATGTATCGATACATTC
AGTCCTTTACCCAGATGTATCGATACATTTTTC
Found at i:1422593 original size:18 final size:18
Alignment explanation
Indices: 1422570--1422619 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
1422560 TTTTACCCAG
1422570 ATGTATCGATACATGTGA
1 ATGTATCGATACATGTGA
1422588 ATGTATCGATACATGTGA
1 ATGTATCGATACATGTGA
1422606 ATGTATCGATACAT
1 ATGTATCGATACAT
1422620 TCTGTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (18 bp):
ATGTATCGATACATGTGA
Found at i:1428051 original size:19 final size:20
Alignment explanation
Indices: 1428018--1428066 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1428008 ACCCAGATGT
* *
1428018 ATCGATTCATGCTC-ATTGC
1 ATCGATACATACTCAATTGC
**
1428037 ATCGATACATACTCAATTTT
1 ATCGATACATACTCAATTGC
1428057 ATCGATACAT
1 ATCGATACAT
1428067 GAAACTGCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (20 bp):
ATCGATACATACTCAATTGC
Found at i:1428130 original size:13 final size:13
Alignment explanation
Indices: 1428112--1428136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1428102 ATACATGGGA
1428112 CATTGTATCGATT
1 CATTGTATCGATT
1428125 CATTGTATCGAT
1 CATTGTATCGAT
1428137 ACATGATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
CATTGTATCGATT
Found at i:1428152 original size:33 final size:33
Alignment explanation
Indices: 1428097--1428161 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
1428087 AAGTGAAATT
* * * *
1428097 TATCGATACATGGGACATTGTATCGATTCATTG
1 TATCGATACATGAGAAAATGTATCGATACATTG
*
1428130 TATCGATACATGATAAAATGTATCGATACATT
1 TATCGATACATGAGAAAATGTATCGATACATT
1428162 ATGCCCAACG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
TATCGATACATGAGAAAATGTATCGATACATTG
Found at i:1436238 original size:22 final size:23
Alignment explanation
Indices: 1436213--1436274 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1436203 AAATTTTATC
1436213 ATTTTATCAAG-GGGAGAAAAAA
1 ATTTTATCAAGAGGGAGAAAAAA
**
1436235 ATTTTATCAAGAAAGAGAAAAAA
1 ATTTTATCAAGAGGGAGAAAAAA
*
1436258 ATTTTATTAAGAGGGAG
1 ATTTTATCAAGAGGGAG
1436275 TTTTATTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 11 0.32
23 23 0.68
ACGTcount: A:0.50, C:0.03, G:0.21, T:0.26
Consensus pattern (23 bp):
ATTTTATCAAGAGGGAGAAAAAA
Found at i:1436922 original size:13 final size:13
Alignment explanation
Indices: 1436904--1436930 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1436894 ACACATTATG
1436904 CTTTGTATCGATA
1 CTTTGTATCGATA
1436917 CTTTGTATCGATA
1 CTTTGTATCGATA
1436930 C
1 C
1436931 ATGCTCATTG
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:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (13 bp):
CTTTGTATCGATA
Found at i:1436943 original size:19 final size:20
Alignment explanation
Indices: 1436919--1436972 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
1436909 TATCGATACT
*
1436919 TTGTATCGATACATGC-TCA
1 TTGTATCGATACATGCTTAA
*
1436938 TTGTATCGATACATACTTAA
1 TTGTATCGATACATGCTTAA
*
1436958 TTTTATCGATACATG
1 TTGTATCGATACATG
1436973 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATGCTTAA
Found at i:1438789 original size:105 final size:105
Alignment explanation
Indices: 1438607--1438817 Score: 422
Period size: 105 Copynumber: 2.0 Consensus size: 105
1438597 ATTTTGCACT
1438607 TGATCCAAAATGAAATTGTCTACCAAAAACTTTTTCTAAGTCTTGAATTAAGGAAGTATCAAACA
1 TGATCCAAAATGAAATTGTCTACCAAAAACTTTTTCTAAGTCTTGAATTAAGGAAGTATCAAACA
1438672 ATGGATTTTGCTTAAGCACTCGAGAAGTCTAATCATAAAG
66 ATGGATTTTGCTTAAGCACTCGAGAAGTCTAATCATAAAG
1438712 TGATCCAAAATGAAATTGTCTACCAAAAACTTTTTCTAAGTCTTGAATTAAGGAAGTATCAAACA
1 TGATCCAAAATGAAATTGTCTACCAAAAACTTTTTCTAAGTCTTGAATTAAGGAAGTATCAAACA
1438777 ATGGATTTTGCTTAAGCACTCGAGAAGTCTAATCATAAAG
66 ATGGATTTTGCTTAAGCACTCGAGAAGTCTAATCATAAAG
1438817 T
1 T
1438818 TCAGCAAGGG
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (105 bp):
TGATCCAAAATGAAATTGTCTACCAAAAACTTTTTCTAAGTCTTGAATTAAGGAAGTATCAAACA
ATGGATTTTGCTTAAGCACTCGAGAAGTCTAATCATAAAG
Found at i:1439589 original size:46 final size:46
Alignment explanation
Indices: 1439496--1439613 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 46
1439486 GAATTATTTC
* * *
1439496 TTAATTTAATTTAATTTAAGATAAAA-CCTTTTATTTATCTATTAA
1 TTAATTTAATTTAATTAAAGATAAAATCCGTTTATTTATCTATAAA
* * * *
1439541 TTAACTTAAGTTAATTAAAGATAAAATTCGTTTATTTATCTCTAAA
1 TTAATTTAATTTAATTAAAGATAAAATCCGTTTATTTATCTATAAA
* *
1439587 TTAATTTAATTTGATTATAGATAAAAT
1 TTAATTTAATTTAATTAAAGATAAAAT
1439614 AACTAGCTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
45 23 0.38
46 38 0.62
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (46 bp):
TTAATTTAATTTAATTAAAGATAAAATCCGTTTATTTATCTATAAA
Found at i:1439867 original size:13 final size:13
Alignment explanation
Indices: 1439849--1439874 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1439839 TTGGTTGATT
1439849 GTAATTTTACCTA
1 GTAATTTTACCTA
1439862 GTAATTTTACCTA
1 GTAATTTTACCTA
1439875 TTTCTCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
GTAATTTTACCTA
Found at i:1446140 original size:13 final size:13
Alignment explanation
Indices: 1446122--1446149 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1446112 ATACAAAGAT
1446122 CAATGTATCGATA
1 CAATGTATCGATA
1446135 CAATGTATCGATA
1 CAATGTATCGATA
1446148 CA
1 CA
1446150 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1446227 original size:33 final size:33
Alignment explanation
Indices: 1446190--1446256 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1446180 AGTAGCTTAA
1446190 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1446223 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1446256 A
1 A
1446257 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1446230 original size:13 final size:13
Alignment explanation
Indices: 1446212--1446236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1446202 CAAAAAAATA
1446212 TGTATCGATACAT
1 TGTATCGATACAT
1446225 TGTATCGATACA
1 TGTATCGATACA
1446237 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1447155 original size:155 final size:155
Alignment explanation
Indices: 1446710--1447176 Score: 535
Period size: 155 Copynumber: 3.0 Consensus size: 155
1446700 TCGACTTAGG
* * * * *
1446710 AGTGC-CGAGTACGCCTAAAGGACTAAAAAAGGATTAGAGATGGGATGAACCTATCCTAAACACC
1 AGTGCTCGA-TACCCCTAAAGGACTTAAAAAGGATTATAGATGGGATGAACCTATCATAAATACC
* * * * * **
1446774 CACCTTTGGCATAAAATCAAACTTGGTGACAACCTAAGACTC-AGTTCTAAAAAATTACAAAAAT
65 CACCTTCGACATAAAACCAAACCTGGTGACAACCTAGGACTCGA-TTCTAAAAAATTATGAAAAT
* * * * * *
1446838 GCCCTTAAGAGATACCTTCGACGTTGA
129 ACCCCTAGGGGATACCTTTGACGTAGA
* * * *
1446865 AGTGCTCGATACCCCTAAAGAACTTAAAAAGGGTGATAGATGGGATAAACCTATCATAAATACCC
1 AGTGCTCGATACCCCTAAAGGACTTAAAAAGGATTATAGATGGGATGAACCTATCATAAATACCC
** **** * * * * * *
1446930 ATTTTCGACATAAAAGTGGACCCGGTGATAACCTAGAACTCGGTTCTAGAAAATTATGAAAATAT
66 ACCTTCGACATAAAACCAAACCTGGTGACAACCTAGGACTCGATTCTAAAAAATTATGAAAATAC
1446995 CCCTAGGGGATACCTTTGACGTAGA
131 CCCTAGGGGATACCTTTGACGTAGA
* * *
1447020 AGTGCTCGATACCCCTAAAGGACTTAAAAAGAATTATAGATAGGATGAACCTATCTTAAATACCC
1 AGTGCTCGATACCCCTAAAGGACTTAAAAAGGATTATAGATGGGATGAACCTATCATAAATACCC
*
1447085 ACCTTCGACATAAAACCAAACCTAGTGACAACCTAGGACTCGATTCTAAAAAATTATGAAAATAC
66 ACCTTCGACATAAAACCAAACCTGGTGACAACCTAGGACTCGATTCTAAAAAATTATGAAAATAC
* *
1447150 CCCTAGGGGATA-TTTTGACTTAGA
131 CCCTAGGGGATACCTTTGACGTAGA
1447174 AGT
1 AGT
1447177 ATCTCTCTAA
Statistics
Matches: 255, Mismatches: 55, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
154 13 0.05
155 239 0.94
156 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (155 bp):
AGTGCTCGATACCCCTAAAGGACTTAAAAAGGATTATAGATGGGATGAACCTATCATAAATACCC
ACCTTCGACATAAAACCAAACCTGGTGACAACCTAGGACTCGATTCTAAAAAATTATGAAAATAC
CCCTAGGGGATACCTTTGACGTAGA
Found at i:1449474 original size:13 final size:13
Alignment explanation
Indices: 1449456--1449481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1449446 ACACCAAAGT
1449456 ATGTATCGATACA
1 ATGTATCGATACA
1449469 ATGTATCGATACA
1 ATGTATCGATACA
1449482 TAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1452998 original size:15 final size:15
Alignment explanation
Indices: 1452978--1453007 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1452968 AAAAATGTCT
*
1452978 AAAATGAGGAAGCTC
1 AAAATGAAGAAGCTC
1452993 AAAATGAAGAAGCTC
1 AAAATGAAGAAGCTC
1453008 CAAACGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
AAAATGAAGAAGCTC
Found at i:1455110 original size:13 final size:13
Alignment explanation
Indices: 1455092--1455126 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1455082 TTTTCTTTGC
1455092 ATCGATACAATGT
1 ATCGATACAATGT
*
1455105 ATCGATACACTGT
1 ATCGATACAATGT
1455118 ATCGATACA
1 ATCGATACA
1455127 GGGGGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (13 bp):
ATCGATACAATGT
Found at i:1455281 original size:20 final size:20
Alignment explanation
Indices: 1455238--1455283 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1455228 AAATCTTTTG
1455238 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1455259 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1455279 CAAAA
1 CAAAA
1455284 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1457698 original size:13 final size:13
Alignment explanation
Indices: 1457680--1457705 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1457670 ACACCAAAGT
1457680 ATGTATCGATACA
1 ATGTATCGATACA
1457693 ATGTATCGATACA
1 ATGTATCGATACA
1457706 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1457703 original size:33 final size:33
Alignment explanation
Indices: 1457661--1457725 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1457651 TAGCCAAACT
* *
1457661 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
1457694 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1457726 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1458496 original size:3 final size:3
Alignment explanation
Indices: 1458488--1458546 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
1458478 GATTAAACAA
1458488 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1458536 AAT AAT AAT AA
1 AAT AAT AAT AA
1458547 AAAAATCAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1461437 original size:78 final size:79
Alignment explanation
Indices: 1461328--1461582 Score: 338
Period size: 79 Copynumber: 3.3 Consensus size: 79
1461318 ACGGCATTGA
*
1461328 AGTAT-CCCTCA-AAACTAACAGGGTTGGAGTATCCCCAATGGTAAAAAATTGATATTTTGGAAA
1 AGTATCCCCTCAGAAA-TAACAGGGTTGGAGTATCCCCAATGGTGAAAAATTGATATTTTGGAAA
*
1461391 TAAAAACGAGGTT-G
65 TAAAATCGAGGTTAG
* * *
1461405 AGTATCCCCTCAGAAATAAC-GGGATTAGAGTATCCCCAATGGTGAAAATTTGATATTTTAGAAA
1 AGTATCCCCTCAGAAATAACAGGG-TTGGAGTATCCCCAATGGTGAAAAATTGATATTTTGGAAA
1461469 TAAAATCGAGGTTAG
65 TAAAATCGAGGTTAG
* * * * * * *
1461484 AGTATCTCCTCAAAAATAACAGGGTCGGTGCATCCCCGATGGTGAAAAATCGATATTTTGGAAAT
1 AGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATTGATATTTTGGAAAT
*
1461549 AAAATCGGGGTTAG
66 AAAATCGAGGTTAG
*
1461563 AATATCCCCTCAGAAATAAC
1 AGTATCCCCTCAGAAATAAC
1461583 GGGATCGAGG
Statistics
Matches: 154, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
77 8 0.05
78 58 0.38
79 85 0.55
80 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (79 bp):
AGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATTGATATTTTGGAAAT
AAAATCGAGGTTAG
Found at i:1461712 original size:79 final size:79
Alignment explanation
Indices: 1461621--1461906 Score: 396
Period size: 79 Copynumber: 3.6 Consensus size: 79
1461611 AATAAAAACA
* * * *
1461621 GGGTTAGAGTATCCCCAATAGTGAAAAATCAATATTTTGGAAATAAAAATGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCAATGGTGAAAAATCGATATTTTGGAAATAAAAATAGGGTTGGAGTATCC
*
1461686 CTTTGGAAATAATG
66 CTTTGGAAATAACG
* *
1461700 GGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAACTAGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCAATGGTGAAAAATCGATATTTTGGAAATAAAAATAGGGTTGGAGTATCC
*** *
1461765 CCACGGAACTAACG
66 CTTTGGAAATAACG
* **
1461779 GGGTTGGAGCATCCCTGATGGTGAAAAATCGATATTTTGGAAATAAAAATAGGGTTGGAGTAT-C
1 GGGTTGGAGTATCCCCAATGGTGAAAAATCGATATTTTGGAAATAAAAATAGGGTTGGAGTATCC
1461843 CTCTTGGAAATAACG
66 CT-TTGGAAATAACG
* *
1461858 GTGTTGGAGTATCCCCAATGGTGAAACAATC-ATATTTTGGAAAAAAAAA
1 GGGTTGGAGTATCCCCAATGGTGAAA-AATCGATATTTTGGAAATAAAAA
1461907 ATCAATGAAT
Statistics
Matches: 182, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
78 2 0.01
79 176 0.97
80 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.27
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCAATGGTGAAAAATCGATATTTTGGAAATAAAAATAGGGTTGGAGTATCC
CTTTGGAAATAACG
Found at i:1461766 original size:195 final size:195
Alignment explanation
Indices: 1461429--1461780 Score: 467
Period size: 195 Copynumber: 1.8 Consensus size: 195
1461419 AATAACGGGA
* * **
1461429 TTAGAGTATCCCCAATGGTGAAAATTTGATATTTTAGAAATAAAATCGAGGTTAGAGTATCTCCT
1 TTAGAGTATCCCCAATAGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTAGAGTATCTCCT
* *
1461494 CAAAAATAACAGGGTCGGTGCATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAATCGGGG
66 CAAAAATAACAGGGTCGGAGCATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAATCAGGG
*
1461559 TTAGAATATCCCCTCAGAAATAACGGGATCGAGGAAAAATCGATATTTTGGAAATAAAAACAGGG
131 TTAGAATATCCCCACAGAAATAACGGGATCGAGGAAAAATCGATATTTTGGAAATAAAAACAGGG
* * *
1461624 TTAGAGTATCCCCAATAGTGAAAAATCAATATTTTGGAAATAAAAAT-GGGGTTGGAGTATC-CC
1 TTAGAGTATCCCCAATAGTGAAAAATCAATATTTTAGAAAT-AAAATCGAGGTTAGAGTATCTCC
*** ** * *
1461687 TTTGGAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAA-CTA
65 -TCAAAAATAACAGGGTCGGAGCATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAATC-A
* * * *
1461751 GGGTTGGAGTATCCCCACGGAACTAACGGG
128 GGGTTAGAATATCCCCACAGAAATAACGGG
1461781 GTTGGAGCAT
Statistics
Matches: 133, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
194 3 0.02
195 125 0.94
196 5 0.04
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (195 bp):
TTAGAGTATCCCCAATAGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTAGAGTATCTCCT
CAAAAATAACAGGGTCGGAGCATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAAATCAGGG
TTAGAATATCCCCACAGAAATAACGGGATCGAGGAAAAATCGATATTTTGGAAATAAAAACAGGG
Found at i:1461855 original size:274 final size:273
Alignment explanation
Indices: 1461344--1461858 Score: 683
Period size: 274 Copynumber: 1.9 Consensus size: 273
1461334 CCTCAAAACT
* * **
1461344 AACAGGGTTGGAGTATCCCCAATGGTAAAAAATTGATATTTTGGAAATAAAAACGAGGTTGAGTA
1 AACAGGGTTAGAGTATCCCCAATAGTAAAAAATCAATATTTTGGAAATAAAAACGAGGTTGAGTA
* *
1461409 TCCCCTCAGAAATAACGGGATTAGAGTATCCCCAATGGTGAAAATTTGATATTTTAGAAATAAAA
66 TCCCCTCAGAAATAACGGGATTAGAGTATCCCCAATGGTGAAAAATCGATATTTTAGAAATAAAA
* * * *
1461474 TCGAGGTTAGAGTATCTCCTCAAAAATAACAGGGTCGGTGCATCCCCGATGGTGAAAAATCGATA
131 TAGAGGTTAGAGTATCCCCACAAAAATAACAGGGTCGGAGCATCCCCGATGGTGAAAAATCGATA
*
1461539 TTTTGGAAATAAAATCGGGGTTAGAATATCCCCTCAGAAATAACGGGATCGAGGAAAAATCGATA
196 TTTTGGAAATAAAATCAGGGTTAGAATATCCCCTCAGAAATAACGGGATCGAGGAAAAATCGATA
1461604 TTTTGGAAATAAA
261 TTTTGGAAATAAA
* * *
1461617 AACAGGGTTAGAGTATCCCCAATAGTGAAAAATCAATATTTTGGAAATAAAAATGGGGTTGGAGT
1 AACAGGGTTAGAGTATCCCCAATAGTAAAAAATCAATATTTTGGAAATAAAAACGAGGTT-GAGT
* ** * * * * *
1461682 ATCCCTTTGGAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGGAAATAAA
65 ATCCCCTCAGAAATAACGGGATTAGAGTATCCCCAATGGTGAAAAATCGATATTTTAGAAATAAA
* ** * * * *
1461747 ACTAG-GGTTGGAGTATCCCCACGGAACTAACGGGGTTGGAGCATCCCTGATGGTGAAAAATCGA
130 A-TAGAGGTTAGAGTATCCCCACAAAAATAACAGGGTCGGAGCATCCCCGATGGTGAAAAATCGA
* * * **
1461811 TATTTTGGAAATAAAAAT-AGGGTTGGAGTATCCTCTTGGAAATAACGG
194 TATTTTGGAAAT-AAAATCAGGGTTAGAATATCCCCTCAGAAATAACGG
1461859 TGTTGGAGTA
Statistics
Matches: 205, Mismatches: 34, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
273 53 0.26
274 145 0.71
275 7 0.03
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (273 bp):
AACAGGGTTAGAGTATCCCCAATAGTAAAAAATCAATATTTTGGAAATAAAAACGAGGTTGAGTA
TCCCCTCAGAAATAACGGGATTAGAGTATCCCCAATGGTGAAAAATCGATATTTTAGAAATAAAA
TAGAGGTTAGAGTATCCCCACAAAAATAACAGGGTCGGAGCATCCCCGATGGTGAAAAATCGATA
TTTTGGAAATAAAATCAGGGTTAGAATATCCCCTCAGAAATAACGGGATCGAGGAAAAATCGATA
TTTTGGAAATAAA
Found at i:1462346 original size:19 final size:19
Alignment explanation
Indices: 1462324--1462406 Score: 97
Period size: 19 Copynumber: 4.6 Consensus size: 19
1462314 ATTATGCTTA
1462324 TATCGATACATGTTTATTG
1 TATCGATACATGTTTATTG
1462343 TATCGATAC------ATTG
1 TATCGATACATGTTTATTG
1462356 TATCGATACATGTTTATTG
1 TATCGATACATGTTTATTG
* *
1462375 TATCGATACATGCATAATTG
1 TATCGATACATG-TTTATTG
1462395 TATCGATACATG
1 TATCGATACATG
1462407 AAACTGGCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
13 13 0.24
19 25 0.45
20 17 0.31
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (19 bp):
TATCGATACATGTTTATTG
Found at i:1462357 original size:13 final size:13
Alignment explanation
Indices: 1462339--1462366 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1462329 ATACATGTTT
1462339 ATTGTATCGATAC
1 ATTGTATCGATAC
1462352 ATTGTATCGATAC
1 ATTGTATCGATAC
1462365 AT
1 AT
1462367 GTTTATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:1462365 original size:32 final size:32
Alignment explanation
Indices: 1462324--1462385 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
1462314 ATTATGCTTA
1462324 TATCGATACATGTTTATTGTATCGATACATTG
1 TATCGATACATGTTTATTGTATCGATACATTG
1462356 TATCGATACATGTTTATTGTATCGATACAT
1 TATCGATACATGTTTATTGTATCGATACAT
1462386 GCATAATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (32 bp):
TATCGATACATGTTTATTGTATCGATACATTG
Found at i:1462396 original size:20 final size:19
Alignment explanation
Indices: 1462303--1462407 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 19
1462293 TATATCCAGA
* **
1462303 TGTATCGATACATTATGCT
1 TGTATCGATACATGATAAT
* * *
1462322 TATATCGATACATGTTTAT
1 TGTATCGATACATGATAAT
1462341 TGTATCGATAC------AT
1 TGTATCGATACATGATAAT
* *
1462354 TGTATCGATACATGTTTAT
1 TGTATCGATACATGATAAT
1462373 TGTATCGATACATGCATAAT
1 TGTATCGATACATG-ATAAT
1462393 TGTATCGATACATGA
1 TGTATCGATACATGA
1462408 AACTGGCAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
13 13 0.18
19 41 0.58
20 17 0.24
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATGATAAT
Found at i:1462472 original size:33 final size:32
Alignment explanation
Indices: 1462435--1462499 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1462425 TACCATTGTT
1462435 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
1462468 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGA-GAATTGTATCGATACA
1462500 TTGTCCCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Done.