Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 8 of 349
Found at i:2415161 original size:18 final size:17
Alignment explanation
Indices: 2415135--2415169 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2415125 AATATTAAGA
*
2415135 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2415152 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2415170 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2415181 original size:120 final size:120
Alignment explanation
Indices: 2415028--2415311 Score: 428
Period size: 120 Copynumber: 2.4 Consensus size: 120
2415018 TAATTGAAAA
* * * *
2415028 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATACA
* * *
2415092 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAAAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
2415147 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATACA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATACA
*
2415212 TTATGATTTCAGTAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
*
2415267 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
2415312 ATGATTAAAT
Statistics
Matches: 148, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
119 14 0.09
120 129 0.87
121 5 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATACA
TTATGATTTCAGAAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
Found at i:2415283 original size:18 final size:17
Alignment explanation
Indices: 2415255--2415289 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2415245 ATTATTAAGA
*
2415255 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2415272 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2415290 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2415289 original size:16 final size:16
Alignment explanation
Indices: 2415255--2415309 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
2415245 ATTATTAAGA
2415255 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
2415272 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
2415288 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
2415302 ATGTTTAA
1 AT-TTTAA
2415310 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:2415546 original size:16 final size:16
Alignment explanation
Indices: 2415525--2415576 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
2415515 GATTTGCTAT
2415525 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
2415541 TACACCTTTAATTCAA
1 TACACCTCTAATCCAA
2415557 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
2415573 TACA
1 TACA
2415577 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:2417328 original size:15 final size:15
Alignment explanation
Indices: 2417308--2417336 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2417298 TTTTTGATTT
2417308 TTTTTCTATTTTTTG
1 TTTTTCTATTTTTTG
2417323 TTTTTCTATTTTTT
1 TTTTTCTATTTTTT
2417337 TTCTCCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTCTATTTTTTG
Found at i:2420841 original size:29 final size:31
Alignment explanation
Indices: 2420784--2420841 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
2420774 TATGAGGACC
* *
2420784 TAATTAATATACACTCAATAGTTTTGGGATG
1 TAATTAAAATACACTCAATAGTTTAGGGATG
*
2420815 TAATTAAAATA-ACTTAA-AGTTTAGGGA
1 TAATTAAAATACACTCAATAGTTTAGGGA
2420842 CTAATTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (31 bp):
TAATTAAAATACACTCAATAGTTTAGGGATG
Found at i:2425871 original size:15 final size:15
Alignment explanation
Indices: 2425844--2425891 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
2425834 TGTTTATAAA
2425844 TATTT-AATCATTATT
1 TATTTAAAT-ATTATT
*
2425859 TATTTAAATATTATG
1 TATTTAAATATTATT
* *
2425874 AATTTAAATAATATT
1 TATTTAAATATTATT
2425889 TAT
1 TAT
2425892 ATCAGCATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 24 0.89
16 3 0.11
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAAATATTATT
Found at i:2426577 original size:83 final size:83
Alignment explanation
Indices: 2426428--2426590 Score: 195
Period size: 83 Copynumber: 2.0 Consensus size: 83
2426418 GCTTCTCGCC
* * * *
2426428 ACCTCGCGATGTGGAGCACAAAGGAGATGTGTGAGCCGCAAGATGGATCGCCCCATCGTGTGTCA
1 ACCTCGCGAGGTGGAGCACAAAGGAGATATGTGAGCCGCAAGATGGATCACCCCATCGTGTCTCA
*
2426493 CA-TCTCATCCACATGATG
66 CACTC-CATCAACATGATG
* ** * * *
2426511 ACCTCGCTAGGTGGAGCAC-AAGAGAGATATGTGAGTTGCGAGATGGATCACCTCATTGTGTCTC
1 ACCTCGCGAGGTGGAGCACAAAG-GAGATATGTGAGCCGCAAGATGGATCACCCCATCGTGTCTC
2426575 ACACTCCATCAACATG
65 ACACTCCATCAACATG
2426591 GCAACCTCGT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
82 3 0.04
83 62 0.93
84 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.22
Consensus pattern (83 bp):
ACCTCGCGAGGTGGAGCACAAAGGAGATATGTGAGCCGCAAGATGGATCACCCCATCGTGTCTCA
CACTCCATCAACATGATG
Found at i:2426598 original size:83 final size:83
Alignment explanation
Indices: 2426428--2426609 Score: 188
Period size: 83 Copynumber: 2.2 Consensus size: 83
2426418 GCTTCTCGCC
* * * *
2426428 ACCTCGCGATGTGGAGCACAAAGGAGATGTGTGAGCCGCAAGATGGATCGCCCCATCGTGTGTCA
1 ACCTCGCGAGGTGGAGCACAAAGGAGATATGTGAGCCGCAAGATGGATCACCCCATCGTGTCTCA
* **
2426493 CATCTCATCCACATGATG
66 CATCTCATCAACATGACA
* ** * * *
2426511 ACCTCGCTAGGTGGAGCAC-AAGAGAGATATGTGAGTTGCGAGATGGATCACCTCATTGTGTCTC
1 ACCTCGCGAGGTGGAGCACAAAG-GAGATATGTGAGCCGCAAGATGGATCACCCCATCGTGTCTC
*
2426575 ACA-CTCCATCAACATGGCA
65 ACATCT-CATCAACATGACA
* *
2426594 ACCTCGTGAAGTGGAG
1 ACCTCGCGAGGTGGAG
2426610 AGTAAAGAAC
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
82 5 0.06
83 75 0.94
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.21
Consensus pattern (83 bp):
ACCTCGCGAGGTGGAGCACAAAGGAGATATGTGAGCCGCAAGATGGATCACCCCATCGTGTCTCA
CATCTCATCAACATGACA
Found at i:2427158 original size:31 final size:31
Alignment explanation
Indices: 2427118--2427213 Score: 87
Period size: 30 Copynumber: 3.2 Consensus size: 31
2427108 ATATGTTTCA
2427118 AATT-TATATATGAATTTTGATTTAATGTGT
1 AATTATATATATGAATTTTGATTTAATGTGT
* * *
2427148 AA-TATAATATATTAATTTTAATTTGA--TGT
1 AATTAT-ATATATGAATTTTGATTTAATGTGT
* *
2427177 AATTATATATACGAAATTTAGATTTAA--TGT
1 AATTATATATATG-AATTTTGATTTAATGTGT
2427207 AATTATA
1 AATTATA
2427214 CATAAAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
29 11 0.20
30 26 0.48
31 17 0.31
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (31 bp):
AATTATATATATGAATTTTGATTTAATGTGT
Found at i:2427233 original size:30 final size:29
Alignment explanation
Indices: 2427165--2427240 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 29
2427155 TATATTAATT
* * ** *
2427165 TTAATTTGATGTAATTATATATACGAAAT
1 TTAATTTAATGTAATTATACATAAAAAAA
2427194 TTAGATTTAATGTAATTATACATAAAAAAA
1 TTA-ATTTAATGTAATTATACATAAAAAAA
*
2427224 TTAATTTTAATTTAATT
1 TTAA-TTTAATGTAATT
2427241 GTATAATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 4 0.10
30 35 0.90
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (29 bp):
TTAATTTAATGTAATTATACATAAAAAAA
Found at i:2431342 original size:6 final size:5
Alignment explanation
Indices: 2431311--2431339 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2431301 TAAATTTGTT
2431311 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
2431340 TATATTTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:2432492 original size:31 final size:31
Alignment explanation
Indices: 2432457--2432523 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
2432447 TTAATATACT
* *
2432457 ATTTGATATTTGAGTTT-GACTTTAATGTTCA
1 ATTTGATACTCGAGTTTAGA-TTTAATGTTCA
* *
2432488 ATTTGGTACTCGAGTTTAGATTTATTGTTCA
1 ATTTGATACTCGAGTTTAGATTTAATGTTCA
2432519 ATTTG
1 ATTTG
2432524 GTACCAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (31 bp):
ATTTGATACTCGAGTTTAGATTTAATGTTCA
Found at i:2432524 original size:31 final size:31
Alignment explanation
Indices: 2432468--2432527 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
2432458 TTTGATATTT
2432468 GAGTTTGACTTTAATGTTCAATTTGGTACTC
1 GAGTTTGACTTTAATGTTCAATTTGGTACTC
*
2432499 GAGTTTAGA-TTTATTGTTCAATTTGGTAC
1 GAGTTT-GACTTTAATGTTCAATTTGGTAC
2432528 CAAATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.47
Consensus pattern (31 bp):
GAGTTTGACTTTAATGTTCAATTTGGTACTC
Found at i:2434233 original size:22 final size:22
Alignment explanation
Indices: 2434208--2434259 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
2434198 AAAAAATCCA
*
2434208 AAAATTAAATCATA-AAAAAAAT
1 AAAATTAAAT-ATATAAAAAAAG
** *
2434230 AAAACAAAATATATAGAAAAAG
1 AAAATTAAATATATAAAAAAAG
2434252 AAAATTAA
1 AAAATTAA
2434260 TGTTGTTCAG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (22 bp):
AAAATTAAATATATAAAAAAAG
Found at i:2441518 original size:20 final size:20
Alignment explanation
Indices: 2441493--2441531 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2441483 AATAACATCG
2441493 TGTTCGAACTTGCATCTCCC
1 TGTTCGAACTTGCATCTCCC
2441513 TGTTCGAACTTGCATCTCC
1 TGTTCGAACTTGCATCTCC
2441532 TTGAGAGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.33, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTTCGAACTTGCATCTCCC
Found at i:2442503 original size:18 final size:19
Alignment explanation
Indices: 2442480--2442518 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
2442470 ATTTAACCGA
*
2442480 ATTTAATATATAT-TATTT
1 ATTTAATATAAATATATTT
*
2442498 ATTTAATTTAAATATATTT
1 ATTTAATATAAATATATTT
2442517 AT
1 AT
2442519 AATATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTAATATAAATATATTT
Found at i:2442515 original size:22 final size:22
Alignment explanation
Indices: 2442479--2442532 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
2442469 AATTTAACCG
* *
2442479 AATTT-AATATATATTATTTATTT
1 AATTTAAATATAT-TTA-TAATAT
2442502 AATTTAAATATATTTATAATAT
1 AATTTAAATATATTTATAATAT
2442524 AATTTAAAT
1 AATTTAAAT
2442533 TAATCTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 13 0.46
23 8 0.29
24 7 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATTTAAATATATTTATAATAT
Found at i:2442596 original size:17 final size:16
Alignment explanation
Indices: 2442558--2442609 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
2442548 CGATTATAAT
*
2442558 ATATATTTTTATATTTT
1 ATATATTTTTA-ATTTA
*
2442575 TTATATTTTTAATTTAA
1 ATATATTTTTAATTT-A
* *
2442592 ATATATTTATAATATA
1 ATATATTTTTAATTTA
2442608 AT
1 AT
2442610 TTAAATGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATATTTTTAATTTA
Found at i:2445714 original size:31 final size:31
Alignment explanation
Indices: 2445640--2445717 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
2445630 TTTACCAGCC
**
2445640 CAAT-GACTTAAATAAAACTTTTGAATAGTT
1 CAATCGACTTAAATAAAACTTTCAAATAGTT
*
2445670 TAATC-ACTTAAATAAAATCTTTCAAATAGTT
1 CAATCGACTTAAATAAAA-CTTTCAAATAGTT
*
2445701 CAA-CGACTAAAATAAAA
1 CAATCGACTTAAATAAAA
2445718 ATTTATTCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 16 0.40
31 24 0.60
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (31 bp):
CAATCGACTTAAATAAAACTTTCAAATAGTT
Found at i:2447283 original size:30 final size:29
Alignment explanation
Indices: 2447249--2447329 Score: 78
Period size: 30 Copynumber: 2.9 Consensus size: 29
2447239 TATATTTCGC
*
2447249 TTTAAAAATAATAAAATTTATATTTATATT
1 TTTAAAAATAATAAAATTTATATTTAT-TA
* * * *
2447279 TTTAAAATTATTAAAATATA-AATTATTA
1 TTTAAAAATAATAAAATTTATATTTATTA
*
2447307 ATT-AAAATAATAAAA-TTATATTT
1 TTTAAAAATAATAAAATTTATATTT
2447330 TTACTATTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
26 2 0.05
27 13 0.32
28 3 0.08
29 5 0.12
30 17 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTAAAAATAATAAAATTTATATTTATTA
Found at i:2447326 original size:28 final size:30
Alignment explanation
Indices: 2447253--2447327 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 30
2447243 TTTCGCTTTA
* **
2447253 AAAATAATAAAATT-TATATTTATATTTTT
1 AAAATAATAAAATTATATAATTATATAATT
*
2447282 AAAATTATTAAAA-TATA-AATTAT-TAATT
1 AAAA-TAATAAAATTATATAATTATATAATT
2447310 AAAATAATAAAATTATAT
1 AAAATAATAAAATTATAT
2447328 TTTTACTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
27 7 0.19
28 11 0.30
29 10 0.27
30 9 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATAATAAAATTATATAATTATATAATT
Found at i:2447338 original size:28 final size:27
Alignment explanation
Indices: 2447253--2447338 Score: 75
Period size: 30 Copynumber: 3.0 Consensus size: 27
2447243 TTTCGCTTTA
* *
2447253 AAAATAATAAAATTTATATTTATATTTTT
1 AAAATAATAAAA-TTATATTTTTA-TATT
* * *
2447282 AAAATTATTAAAATATAAATTATTA-ATT
1 AAAA-TAATAAAAT-TATATTTTTATATT
2447310 AAAATAATAAAATTATATTTTTACTATT
1 AAAATAATAAAATTATATTTTTA-TATT
2447338 A
1 A
2447339 TATAAATTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
26 8 0.18
27 8 0.18
28 10 0.22
29 5 0.11
30 14 0.31
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
AAAATAATAAAATTATATTTTTATATT
Found at i:2451084 original size:149 final size:144
Alignment explanation
Indices: 2450891--2451177 Score: 450
Period size: 149 Copynumber: 2.0 Consensus size: 144
2450881 AAAACACCCA
* * *
2450891 TAGGGATTTTTTAAGGGGATTTTACAGGATCTTATAATCGTTGAAATTTTGAAATAAATTGATGG
1 TAGGGATTTTTTAAGGGGATTTTACAGGATCTCATAACCCTTGAAATTTTGAAATAAATTGATGG
* *
2450956 GTTATATTCCCTAAAACTATAATTAAAGCTTAACTTCACAGAACAA-ACTAATAATTCTGCAATT
66 GTTAAATTCCCTAAAACTATAATTAAAGCTTAACTTCACAGAACAAGA-TAATAATGCTGCAA--
2451020 TTCTCTTCCTTAAAAAT
128 TTCTCTTCCTTAAAAAT
2451037 TAGGGATTTTTTAAGAATGGGATTTTACAGGATCTCATAACCCTTGAAATTTTGAAATAAATTGA
1 TAGGGATTTTTTAAG---GGGATTTTACAGGATCTCATAACCCTTGAAATTTTGAAATAAATTGA
* *
2451102 TGGGTTAAATTCCCTAAAACTATAATTAGAGCTTAACTTCACAGAACAAGATACTAATGCTGCAA
63 TGGGTTAAATTCCCTAAAACTATAATTAAAGCTTAACTTCACAGAACAAGATAATAATGCTGCAA
2451167 TTCTCTTCCTT
128 TTCTCTTCCTT
2451178 GAACTGGCAA
Statistics
Matches: 130, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
146 15 0.12
147 11 0.08
149 103 0.79
150 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (144 bp):
TAGGGATTTTTTAAGGGGATTTTACAGGATCTCATAACCCTTGAAATTTTGAAATAAATTGATGG
GTTAAATTCCCTAAAACTATAATTAAAGCTTAACTTCACAGAACAAGATAATAATGCTGCAATTC
TCTTCCTTAAAAAT
Found at i:2451840 original size:12 final size:14
Alignment explanation
Indices: 2451809--2451837 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2451799 CAATTTCTAC
2451809 AGAAAATTTCGAAG
1 AGAAAATTTCGAAG
2451823 AGAAAATTTCGAAG
1 AGAAAATTTCGAAG
2451837 A
1 A
2451838 AAAGAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AGAAAATTTCGAAG
Found at i:2452941 original size:14 final size:14
Alignment explanation
Indices: 2452906--2452942 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2452896 TTTGGCAATA
2452906 CTTTTG-AAAAGTG
1 CTTTTGAAAAAGTG
*
2452919 -TTGTGAAAAAGTG
1 CTTTTGAAAAAGTG
2452932 CTTTTGAAAAA
1 CTTTTGAAAAA
2452943 TTTGGTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 4 0.20
13 7 0.35
14 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (14 bp):
CTTTTGAAAAAGTG
Found at i:2460484 original size:15 final size:14
Alignment explanation
Indices: 2460464--2460528 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
2460454 TAATCTCTGT
2460464 ATTTTAATTTAATTA
1 ATTTTAATTT-ATTA
*
2460479 ATTTTAATTTTTTA
1 ATTTTAATTTATTA
*
2460493 ATTTTTTTATTTAGTTA
1 A--TTTTAATTTA-TTA
*
2460510 ATATTAATTT-TTA
1 ATTTTAATTTATTA
2460523 TATTTT
1 -ATTTT
2460529 TAAAATTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
13 3 0.08
14 8 0.20
15 17 0.43
16 8 0.20
17 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (14 bp):
ATTTTAATTTATTA
Found at i:2460505 original size:31 final size:31
Alignment explanation
Indices: 2460465--2460529 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
2460455 AATCTCTGTA
*
2460465 TTTTAATTTAATTAATTTTAATTTTT-TAATT
1 TTTTAATTTAATTAATATTAATTTTTAT-ATT
* *
2460496 TTTTTATTTAGTTAATATTAATTTTTATATT
1 TTTTAATTTAATTAATATTAATTTTTATATT
2460527 TTT
1 TTT
2460530 AAAATTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (31 bp):
TTTTAATTTAATTAATATTAATTTTTATATT
Found at i:2460531 original size:21 final size:22
Alignment explanation
Indices: 2460490--2460531 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
2460480 TTTTAATTTT
*
2460490 TTAATTTTTTTATTTAGTTAATA
1 TTAATTTTTATATTTA-TTAATA
2460513 TTAATTTTTATATTT-TTAA
1 TTAATTTTTATATTTATTAA
2460532 AATTTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
23 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTAATTTTTATATTTATTAATA
Found at i:2462650 original size:3 final size:3
Alignment explanation
Indices: 2462642--2462715 Score: 132
Period size: 3 Copynumber: 25.0 Consensus size: 3
2462632 GTATATACAT
*
2462642 ATA ATA ATA ATA ATG ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2462689 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
2462716 CAAGAAAATC
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 66 0.97
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2464996 original size:91 final size:91
Alignment explanation
Indices: 2464848--2465015 Score: 255
Period size: 91 Copynumber: 1.8 Consensus size: 91
2464838 CGAGATTCTT
* *** *
2464848 TTTTTGTTGCGTGGTTAAGAAAATGTTTGGCTTGAAATCGCACTAGAATTTTCTGTTTGTTTGCT
1 TTTTCGTTGCGTGGTTAAGAAAATGTTTAAATTGAAATCGCACTAGAATTTTCTGTTTGCTTGCT
2464913 GAGAAACACTGTTTGAATTCTTTTTA
66 GAGAAACACTGTTTGAATTCTTTTTA
* * * *
2464939 TTTTCGTTGCGTGGTTCAGAAACTGTTTAAATTGAATTCGCACTAGAATTTTTTGTTTGCTTGCT
1 TTTTCGTTGCGTGGTTAAGAAAATGTTTAAATTGAAATCGCACTAGAATTTTCTGTTTGCTTGCT
2465004 GAGAAACACTGT
66 GAGAAACACTGT
2465016 GAGAAAAACT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 68 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.43
Consensus pattern (91 bp):
TTTTCGTTGCGTGGTTAAGAAAATGTTTAAATTGAAATCGCACTAGAATTTTCTGTTTGCTTGCT
GAGAAACACTGTTTGAATTCTTTTTA
Found at i:2465103 original size:100 final size:101
Alignment explanation
Indices: 2464912--2465294 Score: 468
Period size: 100 Copynumber: 3.8 Consensus size: 101
2464902 GTTTGTTTGC
* * * * *
2464912 TGAGAAACACTGTTTGAATTCTTTTTATTTTCGTTGCGTGGTTCAGAAACTGTTTAAATTGAATT
1 TGAGAAAAACTGTTTGAATTC-TTTT-TTTTCGTTGCATGGTTAAGAAAATGTTTAATTTGAATT
* *
2464977 CGCACTAGAATTTTTTGTTTGCTTGCTGAGAAACACTG
64 CGCACTAGAATTTTCTGATTGCTTGCTGAGAAACACTG
* * * * * * *
2465015 TGAGAAAAACTGGTTGAATTCTTTTTTTTGGTCGCGT-GATAAGAAAATGTTTGATTCGAATTCG
1 TGAGAAAAACTGTTTGAATTCTTTTTTTTCGTTGCATGGTTAAGAAAATGTTTAATTTGAATTCG
* * *
2465079 CATTAGAGTTTTCTGATTGTTTGCTGAGAAACACTG
66 CACTAGAATTTTCTGATTGCTTGCTGAGAAACACTG
2465115 TGAGAAAAACTGTTTGAATTCTTTTTTTTCGTTGCATGGTTAAGAAAATG-TTAATTTGAATTCG
1 TGAGAAAAACTGTTTGAATTCTTTTTTTTCGTTGCATGGTTAAGAAAATGTTTAATTTGAATTCG
* * * *
2465179 CACTAGAATTCTCTGACTGGTAGCTGAGAAACAC--
66 CACTAGAATTTTCTGATTGCTTGCTGAGAAACACTG
* * * * *
2465213 TGAGAAAAAATCGTTTGAATTTTTTTTATTTTGTTGCATGGTTAAGAAATTGTTTAATTTGAACT
1 TGAGAAAAACT-GTTTGAATTCTTTTT-TTTCGTTGCATGGTTAAGAAAATGTTTAATTTGAATT
2465278 CGCACTAGAATTTTCTG
64 CGCACTAGAATTTTCTG
2465295 TTTTTGGTTG
Statistics
Matches: 242, Mismatches: 34, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
98 10 0.04
99 14 0.06
100 147 0.61
101 48 0.20
102 4 0.02
103 19 0.08
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (101 bp):
TGAGAAAAACTGTTTGAATTCTTTTTTTTCGTTGCATGGTTAAGAAAATGTTTAATTTGAATTCG
CACTAGAATTTTCTGATTGCTTGCTGAGAAACACTG
Found at i:2465305 original size:56 final size:55
Alignment explanation
Indices: 2465241--2465349 Score: 155
Period size: 56 Copynumber: 2.0 Consensus size: 55
2465231 ATTTTTTTTA
*
2465241 TTTTGTTGCATGGTTAAGAAATTGTTTAATTTGAACTCGCACTAGAATTTTCTGT
1 TTTTGTTGCATGGTTAAGAAAATGTTTAATTTGAACTCGCACTAGAATTTTCTGT
* * * * *
2465296 TTTTGGTTGCGTGGTTAATAAAATGTTTAATTTGAATTCGCATTAGAGTTTTCT
1 TTTT-GTTGCATGGTTAAGAAAATGTTTAATTTGAACTCGCACTAGAATTTTCT
2465350 CATTGTTTCC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 4 0.09
56 43 0.91
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (55 bp):
TTTTGTTGCATGGTTAAGAAAATGTTTAATTTGAACTCGCACTAGAATTTTCTGT
Found at i:2467886 original size:15 final size:15
Alignment explanation
Indices: 2467866--2467894 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2467856 AAATCGCCTC
2467866 TTTAATTCTTGTTTT
1 TTTAATTCTTGTTTT
2467881 TTTAATTCTTGTTT
1 TTTAATTCTTGTTT
2467895 CCATTTATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTAATTCTTGTTTT
Found at i:2471013 original size:21 final size:22
Alignment explanation
Indices: 2470984--2471030 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
2470974 CAGAAGGAGT
*
2470984 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
2471006 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
2471027 GAGT
1 GAGT
2471031 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:2478056 original size:23 final size:24
Alignment explanation
Indices: 2478020--2478064 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
2478010 TGATGAATTT
2478020 TGGGTTTTGATTGCTA-TATTTTC
1 TGGGTTTTGATTGCTATTATTTTC
2478043 TGGGTTTGTG-TTGCTATTATTT
1 TGGGTTT-TGATTGCTATTATTT
2478065 GTAACAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.11, C:0.07, G:0.24, T:0.58
Consensus pattern (24 bp):
TGGGTTTTGATTGCTATTATTTTC
Found at i:2489999 original size:14 final size:14
Alignment explanation
Indices: 2489980--2490006 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2489970 TATTATAAGG
2489980 TCAAACTACAAAAT
1 TCAAACTACAAAAT
2489994 TCAAACTACAAAA
1 TCAAACTACAAAA
2490007 ATAGTCACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (14 bp):
TCAAACTACAAAAT
Found at i:2492520 original size:47 final size:46
Alignment explanation
Indices: 2492424--2492579 Score: 190
Period size: 47 Copynumber: 3.3 Consensus size: 46
2492414 TGCACACTTT
* * *
2492424 TCACAATTGGTCATTCGGCCTTATCACA-TATTCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATTATACACTTTCACAT-TCA
** * *
2492470 TCACATTAACCATTCGGCCTTATCTCATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
*
2492517 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
2492564 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
2492580 ATCTTAAGTA
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
45 19 0.20
46 5 0.05
47 71 0.75
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATTATACACTTTCACATTCA
Found at i:2497238 original size:18 final size:18
Alignment explanation
Indices: 2497205--2497253 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
2497195 AGACGATGAT
* *
2497205 GACGACGATGAAGGCGAA
1 GACGACGACGACGGCGAA
* * *
2497223 GGCGACGGCGACGGCGAT
1 GACGACGACGACGGCGAA
2497241 GACGACGACGACG
1 GACGACGACGACG
2497254 ATGATGACAG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.43, T:0.04
Consensus pattern (18 bp):
GACGACGACGACGGCGAA
Found at i:2503575 original size:13 final size:13
Alignment explanation
Indices: 2503557--2503582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2503547 ATAAAGCTTT
2503557 GGTTGAGTGATAA
1 GGTTGAGTGATAA
2503570 GGTTGAGTGATAA
1 GGTTGAGTGATAA
2503583 ATTTAATGTT
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:0.00, G:0.38, T:0.31
Consensus pattern (13 bp):
GGTTGAGTGATAA
Found at i:2504751 original size:31 final size:32
Alignment explanation
Indices: 2504716--2504784 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
2504706 TTTAATACTC
*
2504716 AAACTTGACAATTTTTT-C-TAATTTGGTACCT
1 AAACTTGAC-ATTTTTTCCTTAAGTTGGTACCT
* *
2504747 AAACTTGACCTTTTTTCCTTAAGTTGGTACTT
1 AAACTTGACATTTTTTCCTTAAGTTGGTACCT
2504779 AAACTT
1 AAACTT
2504785 TTTGGGGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 6 0.18
31 10 0.30
32 17 0.52
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (32 bp):
AAACTTGACATTTTTTCCTTAAGTTGGTACCT
Found at i:2511145 original size:14 final size:14
Alignment explanation
Indices: 2511126--2511153 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2511116 GGCCTGTGAT
2511126 TCAAGATTTTAAAC
1 TCAAGATTTTAAAC
2511140 TCAAGATTTTAAAC
1 TCAAGATTTTAAAC
2511154 AACTAACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TCAAGATTTTAAAC
Found at i:2519988 original size:7 final size:7
Alignment explanation
Indices: 2519976--2520016 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
2519966 CAAGTTCGAG
2519976 GATTTAA
1 GATTTAA
*
2519983 GATTTAG
1 GATTTAA
2519990 GATTTAA
1 GATTTAA
*
2519997 AATTTAA
1 GATTTAA
*
2520004 AATTTAA
1 GATTTAA
2520011 GATTTA
1 GATTTA
2520017 GGGTTAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
GATTTAA
Found at i:2519993 original size:14 final size:14
Alignment explanation
Indices: 2519974--2520018 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
2519964 CTCAAGTTCG
2519974 AGGATTTAAGATTT
1 AGGATTTAAGATTT
*
2519988 AGGATTTAAAATTT
1 AGGATTTAAGATTT
**
2520002 AAAATTTAAGATTT
1 AGGATTTAAGATTT
2520016 AGG
1 AGG
2520019 GTTAGTTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (14 bp):
AGGATTTAAGATTT
Found at i:2520003 original size:21 final size:21
Alignment explanation
Indices: 2519977--2520016 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2519967 AAGTTCGAGG
* *
2519977 ATTTAAGATTTAGGATTTAAA
1 ATTTAAAATTTAAGATTTAAA
2519998 ATTTAAAATTTAAGATTTA
1 ATTTAAAATTTAAGATTTA
2520017 GGGTTAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (21 bp):
ATTTAAAATTTAAGATTTAAA
Found at i:2520977 original size:7 final size:7
Alignment explanation
Indices: 2520965--2521003 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
2520955 TCGTTTTTTA
2520965 TTTAGGG
1 TTTAGGG
2520972 TTTAGGG
1 TTTAGGG
*
2520979 TTTAAGG
1 TTTAGGG
2520986 TTTAGGG
1 TTTAGGG
2520993 TTTAGGG
1 TTTAGGG
2521000 TTTA
1 TTTA
2521004 TATCAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:2524176 original size:3 final size:3
Alignment explanation
Indices: 2524153--2524222 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
2524143 AATATCCTTG
* * *
2524153 TTA TT- TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
2524199 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
2524223 GTACGCGTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:2524219 original size:23 final size:22
Alignment explanation
Indices: 2524164--2524225 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
2524154 TATTTTATAT
*
2524164 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
2524185 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
2524207 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
2524226 CGCGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:2524232 original size:23 final size:23
Alignment explanation
Indices: 2524188--2524233 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2524178 GTATTACTAT
**
2524188 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTACGAGTATA
* *
2524211 TATTTTTATTATGTACGCGTATA
1 TATTATTATTATGTACGAGTATA
2524234 CATGTATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (23 bp):
TATTATTATTATGTACGAGTATA
Found at i:2524267 original size:12 final size:12
Alignment explanation
Indices: 2524252--2524294 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
2524242 TATATTTTCA
2524252 TATTTAATATTT
1 TATTTAATATTT
*
2524264 TATTTCAT-TTT
1 TATTTAATATTT
2524275 T-TTTAATATTT
1 TATTTAATATTT
2524286 TATTATAAT
1 TATT-TAAT
2524295 TTATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 5 0.19
11 8 0.31
12 9 0.35
13 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTAATATTT
Found at i:2524830 original size:17 final size:18
Alignment explanation
Indices: 2524798--2524835 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2524788 CTTGTTATTG
*
2524798 TATATAATTGATTTTTTT
1 TATATAATTGATTTTTGT
*
2524816 TATAT-ATTTATTTTTGT
1 TATATAATTGATTTTTGT
2524833 TAT
1 TAT
2524836 CTTCGCTCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TATATAATTGATTTTTGT
Found at i:2537109 original size:46 final size:46
Alignment explanation
Indices: 2536911--2537611 Score: 234
Period size: 44 Copynumber: 15.6 Consensus size: 46
2536901 ATTATACAGG
* *
2536911 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
* * ** **
2536957 TCCTATCTCCCTGAGATTACAGTGGAGCGGA-TTAA-AA-TAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCA-GA
* ** * * * *
2537001 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC---GCA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAGAATTTCAGA
* * * *
2537042 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
* ** * *
2537088 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAG-AATTTCAGA
* * * * ** * *
2537132 TCTTATCTCTCTAAGATTACAGCGGAGTAGATTGAAG-CTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAT-TTCAGA
* * * ** **
2537176 TCCTATCTCTCTGAGATTACAGTGGAGCGGA-TTAA-AA-TAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCA-GA
** ** * * * *
2537220 TCTTATCTATCTGA-AGTTACAGCAGAGTAGATC---GCA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAGAATTTCAGA
* * * *
2537261 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
* ** * *
2537307 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAG-AATTTCAGA
* * * ** * *
2537351 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG-CTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAT-TTCAGA
* * * ** **
2537395 TCCTATCTCTCTGA-AGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAGAATTTCA-GA
** * * *
2537439 TCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCAC-ATCAG-ATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGA-C-CGA--AGAATT----TC--AGA
* *
2537493 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
* *
2537539 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
*
2537585 TCTTATCTCCCTGAGATTACAGCGGAG
1 TCTTATCTCCCTGAGATTACAGTGGAG
2537612 TAGATTGAAT
Statistics
Matches: 496, Mismatches: 105, Indels: 108
0.70 0.15 0.15
Matches are distributed among these distances:
41 53 0.11
42 4 0.01
43 13 0.03
44 206 0.42
45 4 0.01
46 175 0.35
47 2 0.00
48 3 0.01
49 1 0.00
51 1 0.00
52 4 0.01
53 2 0.00
54 26 0.05
55 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGA
Found at i:2537141 original size:131 final size:131
Alignment explanation
Indices: 2536907--2537163 Score: 356
Period size: 131 Copynumber: 2.0 Consensus size: 131
2536897 GTTTATTATA
* *
2536907 CAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
1 CAGGTCTTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
* *
2536972 ATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGCAGAGTAGATCGC
66 ATTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCTCT-AAGATTACAGCAGAGTAGATCGC
2537036 AT
130 AT
* ** * *
2537038 CAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
* * * * *
2537103 GTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCTCTAAGATTACAGCGGAGTAGAT
66 ATTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCTCTAAGATTACAGCAGAGTAGAT
2537164 TGAAGCTAGT
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
130 5 0.05
131 105 0.95
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (131 bp):
CAGGTCTTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCCTATCTCCCTGAG
ATTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCTCTAAGATTACAGCAGAGTAGATCGCA
T
Found at i:2537152 original size:44 final size:44
Alignment explanation
Indices: 2537085--2537523 Score: 243
Period size: 44 Copynumber: 9.8 Consensus size: 44
2537075 GAAGAATTTC
* *
2537085 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * *
2537129 AGATCTTATCTCTCTAAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * *** *
2537173 TA-ATCCTATCTCTCTGAGATTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* ** * * * *
2537216 AGGATCTTATCTATCTGA-AGTTACAGCAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCTCTGAGA-TTACAGTGGAGCAGATTGAAGCCAG
* * * * * ** * *
2537260 -G-TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAG-AATTTC
1 AGATCTTATCTCTCTGAGATTACAGTGGAGCAGATTGAAGCCA---G
* *
2537304 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * *
2537348 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * *** *
2537392 TA-ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAGA-TTACAGTGGAGCAGATTGAAGCCAG
*
2537435 AGGATCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAGA-TTACAGT-G-G-AG-------CAGATTGAAGCCAG
* *
2537490 AGATCTTATCTCCCTGAGATTACAGTGGAACAGA
1 AGATCTTATCTCTCTGAGATTACAGTGGAGCAGA
2537524 CCGAAAAATT
Statistics
Matches: 302, Mismatches: 64, Indels: 58
0.71 0.15 0.14
Matches are distributed among these distances:
41 28 0.09
42 3 0.01
43 10 0.03
44 186 0.62
45 5 0.02
46 33 0.11
47 3 0.01
51 1 0.00
52 1 0.00
53 1 0.00
54 26 0.09
55 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCTCTGAGATTACAGTGGAGCAGATTGAAGCCAG
Found at i:2537335 original size:219 final size:219
Alignment explanation
Indices: 2536956--2537705 Score: 1101
Period size: 219 Copynumber: 3.4 Consensus size: 219
2536946 AGAATTTCAG
*
2536956 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 ATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
2537021 AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCA
66 AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCA
*
2537086 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTAAGATTA
131 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTA
2537151 CAGCGGAGTAGATTGAAGCTAGTA
196 CAGCGGAGTAGATTGAAGCTAGTA
*
2537175 ATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTATCTGAAGTTAC
1 ATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
2537240 AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCA
66 AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCA
2537305 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTA
131 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTA
2537370 CAGCGGAGTAGATTGAAGCTAGTA
196 CAGCGGAGTAGATTGAAGCTAGTA
*
2537394 ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTTTGAAGTTA
1 ATCCTATCTCTCTGAGA-TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
* * * * * **
2537458 CAGTAGAGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGTGGAACAG
65 CAGCAGAGTAGAT--C-GC--A-T-----CAG-G-TCTTATCACCCTGAGGTTACAGGGGAGTAG
* * * ** ** *
2537523 ACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAA-AAATTTCAGATC
117 ACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGATC
* **
2537587 TTATCTCCCTGAGATTACAGCGGAGTAGATTGAATATAGTA
179 TTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
*
2537628 ATCCTATCTGC-CTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
1 ATCCTATCT-CTCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
*
2537692 CAGTAGAGTAGATC
65 CAGCAGAGTAGATC
2537706 ACAGCAGACA
Statistics
Matches: 487, Mismatches: 25, Indels: 25
0.91 0.05 0.05
Matches are distributed among these distances:
218 1 0.00
219 288 0.59
221 1 0.00
222 1 0.00
224 1 0.00
225 1 0.00
230 3 0.01
231 2 0.00
232 73 0.15
234 114 0.23
235 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (219 bp):
ATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCA
GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTA
CAGCGGAGTAGATTGAAGCTAGTA
Found at i:2537668 original size:234 final size:232
Alignment explanation
Indices: 2537261--2537713 Score: 669
Period size: 234 Copynumber: 1.9 Consensus size: 232
2537251 TCGCATCAGG
* ** * *
2537261 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCACCCTGAGATTACAGGGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
* ** ** * * *
2537326 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAACAGACCGAAGAAACAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATA
*
2537391 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTTTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
*
2537456 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACAGCAGATTGAAGCCAGAGA
* *
2537493 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCACCCTGAGATTACAGGGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
*
2537558 CAGTGGAACAGACCGAA-AAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAT
66 CAGTGGAACAGACCGAAGAAA---CAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAG
*
2537622 ATAGTAATCCTATCTGC-CTG-AGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCT
128 ATAGTAATCCTATCT-CTCTGAAG-TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCT
2537685 GAAGTTACAGTAGAGTAGATCACAGCAGA
191 GAAGTTACAGTAGAGTAGATCACAGCAGA
2537714 CAAAAACACA
Statistics
Matches: 197, Mismatches: 19, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
231 1 0.01
232 72 0.37
233 2 0.01
234 121 0.61
235 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (232 bp):
TCTTATCACCCTGAGATTACAGGGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
CAGTGGAACAGACCGAAGAAACAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATA
GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGTAGATCACAGCAGATTGAAGCCAGAGA
Found at i:2537680 original size:44 final size:44
Alignment explanation
Indices: 2537583--2537704 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
2537573 AAAAATTTCA
* *
2537583 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAATATAGT
1 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTAAATAAAGT
* * * * *
2537627 AATCCTATCTGCCTGAGATTACAGTGGAGTGGATTAAAATAAAG-
1 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATT-AAATAAAGT
* **
2537671 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGTAGAT
2537705 CACAGCAGAC
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 1 0.02
44 56 0.89
45 6 0.10
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTAAATAAAGT
Found at i:2539006 original size:3 final size:3
Alignment explanation
Indices: 2538983--2539052 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
2538973 AATATCCTTG
* * *
2538983 TTA TT- TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
2539029 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
2539053 GTACGCGTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:2539049 original size:23 final size:22
Alignment explanation
Indices: 2538994--2539055 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
2538984 TATTTTATAT
*
2538994 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
2539015 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
2539037 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
2539056 CGCGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:2539062 original size:23 final size:23
Alignment explanation
Indices: 2539018--2539063 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2539008 GTATTACTAT
**
2539018 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTACGAGTATA
* *
2539041 TATTTTTATTATGTACGCGTATA
1 TATTATTATTATGTACGAGTATA
2539064 CATGTATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (23 bp):
TATTATTATTATGTACGAGTATA
Found at i:2539097 original size:12 final size:12
Alignment explanation
Indices: 2539082--2539124 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
2539072 TATATTTTCA
2539082 TATTTAATATTT
1 TATTTAATATTT
*
2539094 TATTTCAT-TTT
1 TATTTAATATTT
2539105 T-TTTAATATTT
1 TATTTAATATTT
2539116 TATTATAAT
1 TATT-TAAT
2539125 TTATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 5 0.19
11 8 0.31
12 9 0.35
13 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTAATATTT
Found at i:2539664 original size:17 final size:18
Alignment explanation
Indices: 2539632--2539669 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2539622 CTTGTTATTG
*
2539632 TATATAATTGATTTTTTT
1 TATATAATTGATTTTTGT
*
2539650 TATAT-ATTTATTTTTGT
1 TATATAATTGATTTTTGT
2539667 TAT
1 TAT
2539670 CTTCGCTCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TATATAATTGATTTTTGT
Found at i:2546754 original size:22 final size:21
Alignment explanation
Indices: 2546705--2546760 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
2546695 AAATAGAATA
*
2546705 ATTTATAT-TTTATTTTATAT
1 ATTTATATATTTGTTTTATAT
*
2546725 A--TAAATATTTGTTTATATAT
1 ATTTATATATTTGTTT-TATAT
2546745 ATTTATATATTTGTTT
1 ATTTATATATTTGTTT
2546761 GCTAACGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 7 0.24
22 12 0.41
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
ATTTATATATTTGTTTTATAT
Found at i:2548749 original size:21 final size:22
Alignment explanation
Indices: 2548708--2548750 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2548698 ATTTTTTATA
*
2548708 AAAATGAAAATAAAAATACTTG
1 AAAATGAAAATAAAAAAACTTG
*
2548730 AAAATTAAAA-AAAAAAACTTG
1 AAAATGAAAATAAAAAAACTTG
2548751 TTTTCATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (22 bp):
AAAATGAAAATAAAAAAACTTG
Found at i:2551473 original size:31 final size:30
Alignment explanation
Indices: 2551400--2551476 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
2551390 ATAAATTTTA
*
2551400 AAAT-TATATATG-AACTTTGATTTGGTCC
1 AAATATATATATGAAACTCTGATTTGGTCC
* * * *
2551428 AATTATACACATGAAACTCTGATTGTGGTTC
1 AAATATATATATGAAACTCTGATT-TGGTCC
2551459 AAATATATATATGAAACT
1 AAATATATATATGAAACT
2551477 TCAATTTCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 3 0.08
29 6 0.16
30 9 0.24
31 20 0.53
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (30 bp):
AAATATATATATGAAACTCTGATTTGGTCC
Found at i:2554734 original size:17 final size:17
Alignment explanation
Indices: 2554712--2554765 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
2554702 TTTTAGTATT
2554712 AAATAAACTCAGTATAA
1 AAATAAACTCAGTATAA
* * *
2554729 AAATAAATTTTAGTAT-T
1 AAATAAA-CTCAGTATAA
2554746 AAATAAACTCAGTATAA
1 AAATAAACTCAGTATAA
2554763 AAA
1 AAA
2554766 AAGCTAGTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
16 6 0.21
17 17 0.59
18 6 0.21
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (17 bp):
AAATAAACTCAGTATAA
Found at i:2554742 original size:34 final size:34
Alignment explanation
Indices: 2554699--2554765 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
2554689 TACAATGTGC
2554699 AAATTTTAGTATTAAATAAACTCAGTATAAAAAT
1 AAATTTTAGTATTAAATAAACTCAGTATAAAAAT
2554733 AAATTTTAGTATTAAATAAACTCAGTATAAAAA
1 AAATTTTAGTATTAAATAAACTCAGTATAAAAA
2554766 AAGCTAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (34 bp):
AAATTTTAGTATTAAATAAACTCAGTATAAAAAT
Found at i:2557503 original size:16 final size:15
Alignment explanation
Indices: 2557477--2557510 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2557467 CGGTTTTTGC
2557477 TATATATTATAAAAA
1 TATATATTATAAAAA
*
2557492 TATATGATTATAAAGA
1 TATAT-ATTATAAAAA
2557508 TAT
1 TAT
2557511 TTTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (15 bp):
TATATATTATAAAAA
Found at i:2560903 original size:14 final size:14
Alignment explanation
Indices: 2560884--2560914 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2560874 ATTCAGAGAT
*
2560884 ATTTAAATTTGGTA
1 ATTTAAATTTGGAA
2560898 ATTTAAATTTGGAA
1 ATTTAAATTTGGAA
2560912 ATT
1 ATT
2560915 CGATTAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
ATTTAAATTTGGAA
Found at i:2564392 original size:53 final size:52
Alignment explanation
Indices: 2564329--2564432 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 52
2564319 AATACTAGGC
2564329 ATACCTCCACACAAACATTGTATCTGATGCTCTCGTGTACTATCATCCTCGCA
1 ATACCTCCACACAAACATTGTATCTGATGCTCTCGTGTAC-ATCATCCTCGCA
*
2564382 ATACCTCCACACAAACATTGTATTTGATGCTCTCGTGTACATCATCCTCGC
1 ATACCTCCACACAAACATTGTATCTGATGCTCTCGTGTACATCATCCTCGC
2564433 TATATGATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 11 0.22
53 39 0.78
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.31
Consensus pattern (52 bp):
ATACCTCCACACAAACATTGTATCTGATGCTCTCGTGTACATCATCCTCGCA
Found at i:2565103 original size:5 final size:5
Alignment explanation
Indices: 2565090--2565125 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
2565080 AAGACTACTT
2565090 TTTTAG TTTTG TTTTG TTTTG TTTT- TTTTG TTTTG T
1 TTTT-G TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG T
2565126 GAGGGGTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.03, C:0.00, G:0.17, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:2565504 original size:10 final size:10
Alignment explanation
Indices: 2565485--2565514 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2565475 ATTTTACTAA
2565485 TATATATATG
1 TATATATATG
*
2565495 TATATGTATG
1 TATATATATG
2565505 TATATATATG
1 TATATATATG
2565515 CTTCAGTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (10 bp):
TATATATATG
Found at i:2572782 original size:88 final size:87
Alignment explanation
Indices: 2572615--2572789 Score: 314
Period size: 87 Copynumber: 2.0 Consensus size: 87
2572605 AATTTGGATT
* *
2572615 AGTACGAATTTAAATTAAAGGTTTATATGTTAAAAAGTCCTTAAGAAATTGCAAAAAATCAATTA
1 AGTACAAATTTAAATTAAAGGTTTATATGTTAAAAAATCCTTAAGAAATTGCAAAAAATCAATTA
2572680 AGCCCTTATATTAAATTCTCAC
66 AGCCCTTATATTAAATTCTCAC
*
2572702 AGTACAAATTTAAATTAAAGGTTTATATGTTAAAAAATCCTTAAGAAATTGTAAAAAGATCAATT
1 AGTACAAATTTAAATTAAAGGTTTATATGTTAAAAAATCCTTAAGAAATTGCAAAAA-ATCAATT
2572767 AAGCCCTTATATTAAATTCTCAC
65 AAGCCCTTATATTAAATTCTCAC
2572790 CTAATTAAGC
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
87 54 0.64
88 30 0.36
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (87 bp):
AGTACAAATTTAAATTAAAGGTTTATATGTTAAAAAATCCTTAAGAAATTGCAAAAAATCAATTA
AGCCCTTATATTAAATTCTCAC
Found at i:2572955 original size:9 final size:9
Alignment explanation
Indices: 2572919--2573016 Score: 67
Period size: 9 Copynumber: 10.8 Consensus size: 9
2572909 AATATTTTTC
2572919 TATAAAAAT
1 TATAAAAAT
2572928 TATTAAAAAT
1 TA-TAAAAAT
* *
2572938 CATACAAAT
1 TATAAAAAT
2572947 TATAAAAATAT
1 TAT-AAAA-AT
*
2572958 TATTAAAATT
1 TA-TAAAAAT
* *
2572968 TATATAACT
1 TATAAAAAT
*
2572977 TATAATAA-
1 TATAAAAAT
*
2572985 T-TAATAAT
1 TATAAAAAT
2572993 TATAAAAA-
1 TATAAAAAT
2573001 TATAAAAAT
1 TATAAAAAT
*
2573010 AATAAAA
1 TATAAAA
2573017 CATATTTAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
7 6 0.09
8 10 0.14
9 31 0.44
10 14 0.20
11 8 0.11
12 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
TATAAAAAT
Found at i:2573644 original size:27 final size:28
Alignment explanation
Indices: 2573613--2573673 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
2573603 TTTTTTTATA
2573613 ATTTTTATAAGTTTAT-ATAATTTTAATG
1 ATTTTTATAAGTTTATAATAA-TTTAATG
* * *
2573641 -TTTTTATTATTTTTTAATAATTTAATG
1 ATTTTTATAAGTTTATAATAATTTAATG
2573668 ATTTTT
1 ATTTTT
2573674 TATTAATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (28 bp):
ATTTTTATAAGTTTATAATAATTTAATG
Found at i:2573671 original size:19 final size:19
Alignment explanation
Indices: 2573649--2573718 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
2573639 TGTTTTTATT
2573649 ATTTTTTAATAATTTAATG
1 ATTTTTTAATAATTTAATG
* *
2573668 ATTTTTTATTAATTCT-ATA
1 ATTTTTTAATAATT-TAATG
*
2573687 ATTTGTTT-ATAATTTATTAG
1 ATTT-TTTAATAATTTAAT-G
2573707 A-TTTTTAATAAT
1 ATTTTTTAATAAT
2573719 ATTTATAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 4 0.10
19 32 0.78
20 5 0.12
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTTTTAATAATTTAATG
Found at i:2573879 original size:15 final size:16
Alignment explanation
Indices: 2573849--2573885 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
2573839 ATATTAAAAT
2573849 AAATTTTATATTTTTA
1 AAATTTTATATTTTTA
*
2573865 ATATTTTAT-TTTTTA
1 AAATTTTATATTTTTA
2573880 AAATTT
1 AAATTT
2573886 AAAATAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AAATTTTATATTTTTA
Found at i:2578758 original size:29 final size:29
Alignment explanation
Indices: 2578723--2578791 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
2578713 TTTGAAAATG
2578723 TAAAATTTAG-ATCCTATATTTTT-ATTTT
1 TAAAATTTAGCATCCTAT-TTTTTAATTTT
*
2578751 TAAGAATTTAGTCATTCTATTTTTTAGATTTT
1 TAA-AATTTAG-CATCCTATTTTTTA-ATTTT
2578783 TAAAATTTA
1 TAAAATTTA
2578792 AGTCCAATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
28 3 0.09
29 7 0.20
30 5 0.14
31 12 0.34
32 8 0.23
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (29 bp):
TAAAATTTAGCATCCTATTTTTTAATTTT
Found at i:2581423 original size:25 final size:26
Alignment explanation
Indices: 2581390--2581445 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 26
2581380 TTTTGGTGTT
2581390 ATTTTCTTGTGGAACACTTCCTTTTG
1 ATTTTCTTGTGGAACACTTCCTTTTG
2581416 -TTTTCTTGTGGAACACTTCCTTTTG
1 ATTTTCTTGTGGAACACTTCCTTTTG
2581441 ATTTT
1 ATTTT
2581446 TCTTTAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.54
Consensus pattern (26 bp):
ATTTTCTTGTGGAACACTTCCTTTTG
Found at i:2581874 original size:29 final size:30
Alignment explanation
Indices: 2581792--2581875 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 30
2581782 TTTATATAAC
* * *
2581792 TTTTAAAGGG-TTAAATTATGAAATTTTTAT
1 TTTTAAAGGGATCAAA-TATGAAATTTTAAA
2581822 TTTTAAAGGGATCAAATATG-AATTTTAAA
1 TTTTAAAGGGATCAAATATGAAATTTTAAA
2581851 TTTT-AAGAGGATCAAAT-TGAAATTT
1 TTTTAAAG-GGATCAAATATGAAATTT
2581876 CACCCTTAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
28 5 0.10
29 25 0.52
30 14 0.29
31 4 0.08
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (30 bp):
TTTTAAAGGGATCAAATATGAAATTTTAAA
Found at i:2582972 original size:23 final size:25
Alignment explanation
Indices: 2582937--2582994 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
2582927 AGGAGTGGTA
*
2582937 AATAAACTATTAAT-TTT-ATTTTT
1 AATAAAATATTAATATTTAATTTTT
*
2582960 AATAAAATTTTAATACTTTAATTTTT
1 AATAAAATATTAATA-TTTAATTTTT
*
2582986 AATGAAATA
1 AATAAAATA
2582995 AAGAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 12 0.43
25 3 0.11
26 13 0.46
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (25 bp):
AATAAAATATTAATATTTAATTTTT
Found at i:2585847 original size:13 final size:14
Alignment explanation
Indices: 2585825--2585864 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
2585815 CCGATTAAAT
2585825 AATAATTATTATAA
1 AATAATTATTATAA
*
2585839 AAT-ATTATTTTAA
1 AATAATTATTATAA
*
2585852 ATTAATTATTATA
1 AATAATTATTATA
2585865 TAATTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAATTATTATAA
Found at i:2585880 original size:27 final size:26
Alignment explanation
Indices: 2585818--2585883 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
2585808 GACTTAACCG
* *
2585818 ATTAAATAATAATTATTATAAAATATT
1 ATTAAA-ATTAATTATTATAAAATAAT
* *
2585845 ATTTTAAATTAATTATTATATAATTAAT
1 A-TTAAAATTAATTATTATA-AAATAAT
2585873 ATTAAAATTAA
1 ATTAAAATTAA
2585884 AATTTATCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 22 0.69
28 10 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTAAAATTAATTATTATAAAATAAT
Found at i:2585883 original size:12 final size:14
Alignment explanation
Indices: 2585827--2585883 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
2585817 GATTAAATAA
*
2585827 TAATTATTATAAAA
1 TAATTATTATAAAT
*
2585841 T-ATTATTTTAAAT
1 TAATTATTATAAAT
2585854 TAATTATTATATAAT
1 TAATTATTATA-AAT
2585869 TAA-TATTA-AAAT
1 TAATTATTATAAAT
2585881 TAA
1 TAA
2585884 AATTTATCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
12 6 0.16
13 12 0.32
14 14 0.37
15 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTATTATAAAT
Found at i:2598439 original size:21 final size:21
Alignment explanation
Indices: 2598408--2598457 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
2598398 TCTAATAAAG
* *
2598408 AATATAA-ATATACATTTAATC
1 AATATAATATA-AAATTAAATC
2598429 AACTATAATATAAAATTAAATC
1 AA-TATAATATAAAATTAAATC
2598451 AATATAA
1 AATATAA
2598458 AATATAAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 7 0.28
22 15 0.60
23 3 0.12
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (21 bp):
AATATAATATAAAATTAAATC
Found at i:2599331 original size:22 final size:23
Alignment explanation
Indices: 2599304--2599346 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2599294 TAATATATAT
* *
2599304 ATTTT-AACTTTAGATTAAATAA
1 ATTTTAAAATTTAAATTAAATAA
2599326 ATTTTAAAATTTAAATTAAAT
1 ATTTTAAAATTTAAATTAAAT
2599347 GTTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTTTAAAATTTAAATTAAATAA
Found at i:2599418 original size:21 final size:21
Alignment explanation
Indices: 2599371--2599421 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2599361 TTGTTTTAAA
2599371 TTTAATTATAAAATATAATAAT
1 TTTAA-TATAAAATATAATAAT
* *
2599393 ATTAATATAAAATA-ATATATT
1 TTTAATATAAAATATA-ATAAT
2599414 TTTAATAT
1 TTTAATAT
2599422 TTTATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTAATATAAAATATAATAAT
Found at i:2600081 original size:24 final size:23
Alignment explanation
Indices: 2600020--2600081 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
2600010 TGGCGACATG
* *
2600020 TTTCCCACTTAACTAGGTTTTTT
1 TTTCCCAATTAACTAGGTTATTT
* * *
2600043 TTTCCTAGTTAAACTATGTTATTT
1 TTTCCCAATT-AACTAGGTTATTT
2600067 TTTCCCAATCTAACT
1 TTTCCCAAT-TAACT
2600082 TTGATTGTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 8 0.26
24 22 0.71
25 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.50
Consensus pattern (23 bp):
TTTCCCAATTAACTAGGTTATTT
Found at i:2601276 original size:20 final size:21
Alignment explanation
Indices: 2601246--2601289 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
2601236 TACTTTTATA
2601246 TTAATTTTTATATT-TTATATT
1 TTAATTTTTATATTCTTA-ATT
*
2601267 TTAA-TTTTATTTTCTTAATT
1 TTAATTTTTATATTCTTAATT
2601287 TTA
1 TTA
2601290 TGATAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
TTAATTTTTATATTCTTAATT
Found at i:2601284 original size:14 final size:13
Alignment explanation
Indices: 2601251--2601290 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
2601241 TTATATTAAT
2601251 TTTTATATTTTATA
1 TTTTA-ATTTTATA
*
2601265 TTTTAATTTTATT
1 TTTTAATTTTATA
2601278 TTCTTAATTTTAT
1 TT-TTAATTTTAT
2601291 GATAACTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTAATTTTATA
Found at i:2602378 original size:24 final size:24
Alignment explanation
Indices: 2602350--2602397 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2602340 TATGGTAGGG
2602350 GCAGAGACGAGAGTGGGAGAGGCA
1 GCAGAGACGAGAGTGGGAGAGGCA
2602374 GCAGAGACGAGAGTGGGAGAGGCA
1 GCAGAGACGAGAGTGGGAGAGGCA
2602398 AAGGCTCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.50, T:0.04
Consensus pattern (24 bp):
GCAGAGACGAGAGTGGGAGAGGCA
Found at i:2605058 original size:25 final size:23
Alignment explanation
Indices: 2605013--2605060 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
2605003 AGCAAAGCAA
*
2605013 AGCAAAACCCATCATTAATCTAC
1 AGCAAAACCCATCAGTAATCTAC
*
2605036 AGCAAAACCACCATCAGTCATCTAC
1 AGCAAAA-C-CCATCAGTAATCTAC
2605061 TACAGTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 1 0.05
25 13 0.62
ACGTcount: A:0.42, C:0.33, G:0.06, T:0.19
Consensus pattern (23 bp):
AGCAAAACCCATCAGTAATCTAC
Found at i:2611126 original size:28 final size:28
Alignment explanation
Indices: 2611094--2611156 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
2611084 GTCATTATTA
2611094 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
2611122 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
2611150 ACCCCAT
1 ACCCCAT
2611157 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:2611316 original size:14 final size:14
Alignment explanation
Indices: 2611276--2611316 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2611266 AAAAAGAAGA
2611276 TACACTCTCTCTTC
1 TACACTCTCTCTTC
2611290 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
2611301 TACACTCTTTCTTC
1 TACACTCTCTCTTC
2611315 TA
1 TA
2611317 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:2616555 original size:28 final size:28
Alignment explanation
Indices: 2616515--2616571 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
2616505 GTGATTATCA
2616515 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
2616543 ACCCCATATGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
2616571 A
1 A
2616572 ACTTATTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:2616739 original size:14 final size:14
Alignment explanation
Indices: 2616699--2616739 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2616689 AAAAAGAAGA
2616699 TACACTCTCTCTTC
1 TACACTCTCTCTTC
2616713 TACA-TC-CTC-TC
1 TACACTCTCTCTTC
*
2616724 TACACTCTTTCTTC
1 TACACTCTCTCTTC
2616738 TA
1 TA
2616740 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.44
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:2622328 original size:49 final size:49
Alignment explanation
Indices: 2622275--2622372 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
2622265 ACACAAAAAG
2622275 TTAAATTTAATCCAATGCTTACTTTGCTATTTGAACTGTTCAAATTGAT
1 TTAAATTTAATCCAATGCTTACTTTGCTATTTGAACTGTTCAAATTGAT
2622324 TTAAATTTAATCCAATGCTTACTTTGCTATTTGAACTGTTCAAATTGAT
1 TTAAATTTAATCCAATGCTTACTTTGCTATTTGAACTGTTCAAATTGAT
2622373 GATAACCAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (49 bp):
TTAAATTTAATCCAATGCTTACTTTGCTATTTGAACTGTTCAAATTGAT
Found at i:2626675 original size:9 final size:8
Alignment explanation
Indices: 2626659--2626684 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2626649 TACAATTTAA
2626659 TATTTTTT
1 TATTTTTT
2626667 TATTTTTT
1 TATTTTTT
2626675 TATTTTTT
1 TATTTTTT
2626683 TA
1 TA
2626685 AAATTCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TATTTTTT
Found at i:2627803 original size:16 final size:16
Alignment explanation
Indices: 2627746--2627805 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
2627736 GTTAACTGAG
2627746 AATGA-CTAAAATAGA
1 AATGATCTAAAATAGA
* *
2627761 AATGATCT-AAATCGTG
1 AATGATCTAAAATAG-A
* *
2627777 AGTGAT-AAAAATAGA
1 AATGATCTAAAATAGA
2627792 AATGATCTAAAATA
1 AATGATCTAAAATA
2627806 TTAGTGACTA
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
15 15 0.45
16 18 0.55
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (16 bp):
AATGATCTAAAATAGA
Found at i:2627812 original size:31 final size:32
Alignment explanation
Indices: 2627748--2627817 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
2627738 TAACTGAGAA
*
2627748 TGACT-AAAATAGAAATGATCTAAATCGTGAG
1 TGACTAAAAATAGAAATGATCTAAATCATGAG
*
2627779 TGA-TAAAAATAGAAATGATCTAAAAT-ATTAG
1 TGACTAAAAATAGAAATGATCT-AAATCATGAG
2627810 TGACTAAA
1 TGACTAAA
2627818 TTAAATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 1 0.03
31 25 0.74
32 8 0.24
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (32 bp):
TGACTAAAAATAGAAATGATCTAAATCATGAG
Found at i:2630548 original size:14 final size:14
Alignment explanation
Indices: 2630529--2630558 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2630519 TAAAAATTTA
2630529 AGCAATTAGTGATT
1 AGCAATTAGTGATT
2630543 AGCAATTAGTGATT
1 AGCAATTAGTGATT
2630557 AG
1 AG
2630559 TTGATAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (14 bp):
AGCAATTAGTGATT
Found at i:2630767 original size:12 final size:12
Alignment explanation
Indices: 2630750--2630777 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2630740 TAAATACCAC
2630750 TAAATTTTCTTT
1 TAAATTTTCTTT
2630762 TAAATTTTCTTT
1 TAAATTTTCTTT
2630774 TAAA
1 TAAA
2630778 AAATTGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (12 bp):
TAAATTTTCTTT
Found at i:2638664 original size:32 final size:32
Alignment explanation
Indices: 2638619--2638682 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
2638609 TAGTTAAGAA
2638619 AAAAAAACAAAAATTAGATATAAAAATAAATG
1 AAAAAAACAAAAATTAGATATAAAAATAAATG
*
2638651 AAAAAAACGAAAATTAGATATAAAAATAAATG
1 AAAAAAACAAAAATTAGATATAAAAATAAATG
2638683 GAACATTGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.19
Consensus pattern (32 bp):
AAAAAAACAAAAATTAGATATAAAAATAAATG
Found at i:2638675 original size:19 final size:18
Alignment explanation
Indices: 2638621--2638676 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 18
2638611 GTTAAGAAAA
2638621 AAAAACAAAAATTAGATAT
1 AAAAAC-AAAATTAGATAT
*
2638640 AAAAA-TAAA-T-GA-A-
1 AAAAACAAAATTAGATAT
2638653 AAAAACGAAAATTAGATAT
1 AAAAAC-AAAATTAGATAT
2638672 AAAAA
1 AAAAA
2638677 TAAATGGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
13 5 0.17
14 1 0.03
15 5 0.17
16 2 0.07
17 5 0.17
18 1 0.03
19 10 0.34
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.18
Consensus pattern (18 bp):
AAAAACAAAATTAGATAT
Found at i:2639272 original size:17 final size:17
Alignment explanation
Indices: 2639250--2639307 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
2639240 TTTAATTTTT
2639250 ATATAAAAATTAAAAAA
1 ATATAAAAATTAAAAAA
* *
2639267 ATATAATACATCAAAAACA
1 ATATAA-AAATTAAAAA-A
2639286 ATA-AAAATATTAAAATAA
1 ATATAAAA-ATTAAAA-AA
2639304 ATAT
1 ATAT
2639308 TTCTCAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 7 0.22
18 20 0.62
19 5 0.16
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAAAATTAAAAAA
Found at i:2639562 original size:45 final size:45
Alignment explanation
Indices: 2639498--2639591 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
2639488 AAACAGTGAG
2639498 AAAATAATAATTTCCTTTTACAAATTCGAGCCAAGCCCAGGCCAA
1 AAAATAATAATTTCCTTTTACAAATTCGAGCCAAGCCCAGGCCAA
* *
2639543 AAAATAATAATTTCTTTTTACAAATTCGAGCGAAGCCCAGGCCAA
1 AAAATAATAATTTCCTTTTACAAATTCGAGCCAAGCCCAGGCCAA
2639588 AAAA
1 AAAA
2639592 ACTTACCTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (45 bp):
AAAATAATAATTTCCTTTTACAAATTCGAGCCAAGCCCAGGCCAA
Found at i:2641289 original size:27 final size:28
Alignment explanation
Indices: 2641259--2641311 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
2641249 TATATAATAC
2641259 TAATAAAATTAAAATTAAATC-ATATTT
1 TAATAAAATTAAAATTAAATCTATATTT
* *
2641286 TAATAAAATTAATATTCAATCTATAT
1 TAATAAAATTAAAATTAAATCTATAT
2641312 AAATTAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (28 bp):
TAATAAAATTAAAATTAAATCTATATTT
Found at i:2648160 original size:2 final size:2
Alignment explanation
Indices: 2648153--2648179 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2648143 TGATAAAATA
2648153 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2648180 AGTCAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2648585 original size:14 final size:14
Alignment explanation
Indices: 2648556--2648584 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2648546 ACATGTAATA
2648556 TTCTTTGTTTTTTT
1 TTCTTTGTTTTTTT
2648570 TTCTTT-TTTTTTT
1 TTCTTTGTTTTTTT
2648583 TT
1 TT
2648585 TGGTGATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (14 bp):
TTCTTTGTTTTTTT
Found at i:2655671 original size:25 final size:24
Alignment explanation
Indices: 2655627--2655673 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
2655617 TGTTGTGTTG
2655627 TGTTTTTTTTTTTTCATAATTATT
1 TGTTTTTTTTTTTTCATAATTATT
2655651 TGTTTTCTTATTTTTTC-TAATTA
1 TGTTTT-TT-TTTTTTCATAATTA
2655674 ATGAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.29
25 8 0.38
26 7 0.33
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.72
Consensus pattern (24 bp):
TGTTTTTTTTTTTTCATAATTATT
Found at i:2660443 original size:18 final size:19
Alignment explanation
Indices: 2660422--2660461 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2660412 GGAAAGCTTC
*
2660422 AAAAAAGAAAAAAGAA-AA
1 AAAAAACAAAAAAGAATAA
*
2660440 AAAAAACAAAATAGAATAA
1 AAAAAACAAAAAAGAATAA
2660459 AAA
1 AAA
2660462 TGAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.85, C:0.03, G:0.07, T:0.05
Consensus pattern (19 bp):
AAAAAACAAAAAAGAATAA
Found at i:2664746 original size:20 final size:20
Alignment explanation
Indices: 2664725--2664763 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
2664715 TTTTAATATA
2664725 AAAATTAAA-AAAT-AATTT
1 AAAATTAAATAAATAAATTT
*
2664743 TAAATTAAATAAATAAATTT
1 AAAATTAAATAAATAAATTT
2664763 A
1 A
2664764 TTCAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATTAAATAAATAAATTT
Found at i:2664749 original size:18 final size:19
Alignment explanation
Indices: 2664726--2664763 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2664716 TTTAATATAA
*
2664726 AAATTAAA-AAATAATTTT
1 AAATTAAATAAATAAATTT
2664744 AAATTAAATAAATAAATTT
1 AAATTAAATAAATAAATTT
2664763 A
1 A
2664764 TTCAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTAAATAAATAAATTT
Found at i:2668937 original size:11 final size:11
Alignment explanation
Indices: 2668901--2668938 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2668891 CAAACACCTA
2668901 AAAATTAATTTT
1 AAAA-TAATTTT
*
2668913 AAAAT-ATTTC
1 AAAATAATTTT
2668923 AAAATAATTTT
1 AAAATAATTTT
2668934 AAAAT
1 AAAAT
2668939 CCTATAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 9 0.39
11 10 0.43
12 4 0.17
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:2670012 original size:12 final size:12
Alignment explanation
Indices: 2669995--2670020 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2669985 TCACAAGATA
2669995 TCATGCTTGAAT
1 TCATGCTTGAAT
2670007 TCATGCTTGAAT
1 TCATGCTTGAAT
2670019 TC
1 TC
2670021 GGTTTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (12 bp):
TCATGCTTGAAT
Found at i:2671303 original size:13 final size:13
Alignment explanation
Indices: 2671281--2671343 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
2671271 TTTGGCAATA
*
2671281 CTTTTGAAAAGTG
1 CTTTTAAAAAGTG
2671294 CTTTTAAAAAGTG
1 CTTTTAAAAAGTG
* *
2671307 -TTGTGAAAAAGTA
1 CTT-TTAAAAAGTG
*
2671320 CTTTTGAAAAGTG
1 CTTTTAAAAAGTG
2671333 CTTTTGAAAAA
1 CTTTT-AAAAA
2671344 TTTAATTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
12 2 0.05
13 32 0.80
14 6 0.15
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (13 bp):
CTTTTAAAAAGTG
Found at i:2671323 original size:26 final size:27
Alignment explanation
Indices: 2671287--2671343 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
2671277 AATACTTTTG
*
2671287 AAAAGTGCTTTTAAAAAGTG-TTGTGA
1 AAAAGTACTTTTAAAAAGTGCTTGTGA
* *
2671313 AAAAGTACTTTTGAAAAGTGCTTTTGA
1 AAAAGTACTTTTAAAAAGTGCTTGTGA
2671340 AAAA
1 AAAA
2671344 TTTAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.33
Consensus pattern (27 bp):
AAAAGTACTTTTAAAAAGTGCTTGTGA
Found at i:2671663 original size:22 final size:19
Alignment explanation
Indices: 2671598--2671665 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 19
2671588 ATGTAATCTA
2671598 TATTTTAAATATTTAAATAT
1 TATTTTAAATATTT-AATAT
*
2671618 AATTATTAAATATTTGTAATTAT
1 TATT-TTAAATA-TT-TAA-TAT
*
2671641 TATTTTAAATATAT-ATAT
1 TATTTTAAATATTTAATAT
2671659 ATATTTT
1 -TATTTT
2671666 TTTATTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
18 3 0.08
19 7 0.17
20 4 0.10
21 8 0.20
22 11 0.28
23 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (19 bp):
TATTTTAAATATTTAATAT
Found at i:2674002 original size:69 final size:69
Alignment explanation
Indices: 2673891--2674035 Score: 272
Period size: 69 Copynumber: 2.1 Consensus size: 69
2673881 CATTATACCA
2673891 ATAAAATATATGGTTACTTCGTTAAGAACAGATAAAAGAACTGTTCTTAGCATTCAATCATAAAT
1 ATAAAATATATGGTTACTTCGTTAAGAACAGATAAAAGAACTGTTCTTAGCATTCAATCATAAAT
2673956 GCTG
66 GCTG
*
2673960 ATAAAATATATGGTTACTTTGTTAAGAACAGATAAAAGAACTGTTCTTAGCATTCAATCATAAAT
1 ATAAAATATATGGTTACTTCGTTAAGAACAGATAAAAGAACTGTTCTTAGCATTCAATCATAAAT
2674025 GCTG
66 GCTG
2674029 ATCAAAA
1 AT-AAAA
2674036 GAGAAACACT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 70 0.95
70 4 0.05
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (69 bp):
ATAAAATATATGGTTACTTCGTTAAGAACAGATAAAAGAACTGTTCTTAGCATTCAATCATAAAT
GCTG
Done.