Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008214.1 Hibiscus syriacus cultivar Beakdansim tig00110840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2117680
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 11
Found at i:1396690 original size:25 final size:26
Alignment explanation
Indices: 1396642--1396704 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
1396632 ATAGTGTACA
* *
1396642 TCATCTTCAATCTCTTATATAACACAC-
1 TCAT-TTC-ATCTCTTACACAACACACT
*
1396669 TCATTTCATCTCTTACACAACACGCT
1 TCATTTCATCTCTTACACAACACACT
1396695 TC-TTTCATCT
1 TCATTTCATCT
1396705 TCAATCTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 23 0.72
26 5 0.16
27 4 0.12
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.40
Consensus pattern (26 bp):
TCATTTCATCTCTTACACAACACACT
Found at i:1396717 original size:32 final size:31
Alignment explanation
Indices: 1396669--1396736 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 31
1396659 TATAACACAC
* *
1396669 TCAT-TTCATCTCTTACACAACACGCTTCTT
1 TCATCTTCATCTCTTACACAACACACTCCTT
*
1396699 TCATCTTCAATCTCTTACACAACATACTCCTT
1 TCATCTTC-ATCTCTTACACAACACACTCCTT
1396731 TCATCT
1 TCATCT
1396737 AGCCAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 4 0.12
31 3 0.09
32 26 0.79
ACGTcount: A:0.25, C:0.34, G:0.01, T:0.40
Consensus pattern (31 bp):
TCATCTTCATCTCTTACACAACACACTCCTT
Found at i:1400924 original size:131 final size:126
Alignment explanation
Indices: 1400608--1400940 Score: 328
Period size: 131 Copynumber: 2.6 Consensus size: 126
1400598 TTTTAAGAGT
*
1400608 GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACATTTTGTGCATTAAAACAATCA
1 GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACA-TTT-CGCATTAAAACAATCA
* * * ** * *
1400673 TTTATTACTCCAATTGAAAAGAGATATTACTATTTCATCTTAAAATTCAATATCGACTCAAGT
64 TTTATTACTCCAATTAAAAAGAGATATTAATATTTCATCTAAAAAACCAATATCAACTCAAGA
* * * * * *
1400736 GAAAATAATAACATTTAATGATTTTCAATCGAGAATAAAAGACATTTCGTGCATTAAAACAATCA
1 GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACATTTC--GCATTAAAACAATCA
* * * * *
1400801 TTTATTA-TCCCAATTCAAATAAAGAGATATTAATA-TTCTGTCTAAAAAACCGATATTAATTCG
64 TTTATTACT-CCAATT--AA-AAAGAGATATTAATATTTC-ATCTAAAAAACCAATATCAACTCA
1400864 AGA
124 AGA
* * * * * *
1400867 GAAAATGACAATATCAAATTATTTCCAATCGAGAATAAATGACCTCTTACGCCTTAAAGCAGTCA
1 GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACAT-TT-CGCATTAAAACAATCA
1400932 TTTATTACT
64 TTTATTACT
1400941 TCGACCGAAA
Statistics
Matches: 164, Mismatches: 31, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
127 4 0.02
128 66 0.40
130 4 0.02
131 86 0.52
132 3 0.02
133 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (126 bp):
GAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACATTTCGCATTAAAACAATCATT
TATTACTCCAATTAAAAAGAGATATTAATATTTCATCTAAAAAACCAATATCAACTCAAGA
Found at i:1405785 original size:17 final size:18
Alignment explanation
Indices: 1405758--1405793 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1405748 CATTTGTGTG
1405758 TTGATTTTTTTTAAAAAT
1 TTGATTTTTTTTAAAAAT
1405776 TTGATTTTTTTTAAAAAT
1 TTGATTTTTTTTAAAAAT
1405794 ATAATATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
TTGATTTTTTTTAAAAAT
Found at i:1408943 original size:20 final size:20
Alignment explanation
Indices: 1408901--1409008 Score: 137
Period size: 20 Copynumber: 5.3 Consensus size: 20
1408891 GTTTTCAATT
1408901 TCGCAACGTGAATAGTAAAAA
1 TCGCAACGTGAATAGT-AAAA
1408922 TCGCAACGTGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAA
1408942 TCGCAACGTGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAA
* * *
1408962 TCGCAACGCGAATTGGAAAA
1 TCGCAACGTGAATAGTAAAA
* *
1408982 TAGCAACGCGAATTTAG-AAAA
1 TCGCAACGTGAA--TAGTAAAA
1409003 TCGCAA
1 TCGCAA
1409009 AATCGTGTTG
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
20 52 0.66
21 25 0.32
22 2 0.03
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (20 bp):
TCGCAACGTGAATAGTAAAA
Found at i:1409392 original size:21 final size:21
Alignment explanation
Indices: 1409366--1409406 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1409356 TTCATTGTGA
*
1409366 TTTTACTATTTACGTTGCGAT
1 TTTTACTATTCACGTTGCGAT
1409387 TTTTACTATTCACGTTGCGA
1 TTTTACTATTCACGTTGCGA
1409407 GTTTGACTTT
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:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (21 bp):
TTTTACTATTCACGTTGCGAT
Found at i:1409431 original size:20 final size:20
Alignment explanation
Indices: 1409399--1409546 Score: 118
Period size: 20 Copynumber: 7.4 Consensus size: 20
1409389 TTACTATTCA
*
1409399 CGTTGCGAGTTTGACTTTTG
1 CGTTGCGAATTTGACTTTTG
* * * **
1409419 TGTCGCGAATTTGAAATTCCG
1 CGTTGCGAATTTG-ACTTTTG
* *
1409440 CGTTGCGAATTTGACTATCG
1 CGTTGCGAATTTGACTTTTG
* * * *
1409460 CGTTGTGAATTTAACTATCG
1 CGTTGCGAATTTGACTTTTG
* *
1409480 CGTTGCAAATTTGACTTTTA
1 CGTTGCGAATTTGACTTTTG
* *
1409500 TGTTGCGAATTTGACTATTG
1 CGTTGCGAATTTGACTTTTG
*
1409520 CGTTTCGAATTTGAC-TTTG
1 CGTTGCGAATTTGACTTTTG
*
1409539 TGTTGCGA
1 CGTTGCGA
1409547 TTTACAGATT
Statistics
Matches: 99, Mismatches: 28, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
19 9 0.09
20 75 0.76
21 15 0.15
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.41
Consensus pattern (20 bp):
CGTTGCGAATTTGACTTTTG
Found at i:1409510 original size:40 final size:40
Alignment explanation
Indices: 1409379--1409550 Score: 161
Period size: 40 Copynumber: 4.3 Consensus size: 40
1409369 TACTATTTAC
* * * *
1409379 GTTGCGATTTTTACTATTCACGTTGCGAGTTTGACTTTTGT
1 GTTGCGAATTTAACTA-TCGCGTTGCGAATTTGACTTTTGT
* * * * *
1409420 GTCGCGAATTTGAAAT-TCCGCGTTGCGAATTTGACTATCGC
1 GTTGCGAATTT-AACTAT-CGCGTTGCGAATTTGACTTTTGT
* * *
1409461 GTTGTGAATTTAACTATCGCGTTGCAAATTTGACTTTTAT
1 GTTGCGAATTTAACTATCGCGTTGCGAATTTGACTTTTGT
* * *
1409501 GTTGCGAATTTGACTATTGCGTTTCGAATTTGAC-TTTGT
1 GTTGCGAATTTAACTATCGCGTTGCGAATTTGACTTTTGT
1409540 GTTGCG-ATTTA
1 GTTGCGAATTTA
1409551 CAGATTGGCA
Statistics
Matches: 104, Mismatches: 24, Indels: 9
0.76 0.18 0.07
Matches are distributed among these distances:
38 4 0.04
39 10 0.10
40 51 0.49
41 37 0.36
42 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (40 bp):
GTTGCGAATTTAACTATCGCGTTGCGAATTTGACTTTTGT
Found at i:1409639 original size:20 final size:20
Alignment explanation
Indices: 1409596--1409672 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
1409586 GAATTACATA
* *
1409596 TTCGCGTTGCGAAATTGGA-G
1 TTCGCGTTGC-AAATTTGACT
1409616 TTCGCGTTGCAAATTTGACT
1 TTCGCGTTGCAAATTTGACT
* *
1409636 TTCGCGTTACGAATTTGACT
1 TTCGCGTTGCAAATTTGACT
* *
1409656 TTTGCGTTGCGAATTTG
1 TTCGCGTTGCAAATTTG
1409673 TTGGTCATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
19 7 0.14
20 43 0.86
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (20 bp):
TTCGCGTTGCAAATTTGACT
Found at i:1414534 original size:16 final size:16
Alignment explanation
Indices: 1414513--1414547 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1414503 TGATATTACC
*
1414513 TGACTTGGTATCAACT
1 TGACTTGGTATAAACT
*
1414529 TGACTTGTTATAAACT
1 TGACTTGGTATAAACT
1414545 TGA
1 TGA
1414548 TATGTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (16 bp):
TGACTTGGTATAAACT
Found at i:1414855 original size:13 final size:14
Alignment explanation
Indices: 1414820--1414856 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
1414810 AATCTCTATA
1414820 TTAATTAT-AATTC
1 TTAATTATAAATTC
1414833 TTATATTATAAATT-
1 TTA-ATTATAAATTC
1414847 TTAATTATAA
1 TTAATTATAA
1414857 TCATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
TTAATTATAAATTC
Found at i:1415544 original size:2 final size:2
Alignment explanation
Indices: 1415531--1415680 Score: 52
Period size: 2 Copynumber: 76.5 Consensus size: 2
1415521 ATGTTTAATA
* *
1415531 AT AT AT AA AT AT AT AT AT GA- AT AT AT AT AT AC ACT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT A-T AT AT AT AT
* * * * *
1415573 -T AT ACT TT AT ACT -T AT AT AT AT TT AT AT AT AC CT AT AT AC AT
1 AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1415615 ACT -T AT AT -T AT AT ACT -T AT A- AGT AT A- AT GT AT ACT -T AT
1 A-T AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT A-T AT AT
* * *
1415653 AT AA AT AT -T AT AT AT AC AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1415681 CTTACAAGTA
Statistics
Matches: 109, Mismatches: 20, Indels: 38
0.65 0.12 0.23
Matches are distributed among these distances:
1 11 0.10
2 91 0.83
3 7 0.06
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1415548 original size:12 final size:12
Alignment explanation
Indices: 1415527--1415561 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1415517 ACTTATGTTT
1415527 AATA-ATATATA
1 AATATATATATA
*
1415538 AATATATATATG
1 AATATATATATA
1415550 AATATATATATA
1 AATATATATATA
1415562 CACTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (12 bp):
AATATATATATA
Found at i:1415588 original size:13 final size:13
Alignment explanation
Indices: 1415552--1415634 Score: 57
Period size: 13 Copynumber: 6.3 Consensus size: 13
1415542 TATATATGAA
*
1415552 TATATATATACACT
1 TATATAT-TATACT
1415566 TATATATTATACT
1 TATATATTATACT
1415579 T-TATACTTATA-T
1 TATATA-TTATACT
* *
1415591 ATATTTATATATACC
1 -TATATAT-TATACT
*
1415606 TATATA-CATACT
1 TATATATTATACT
1415618 TATAT-TATATACT
1 TATATAT-TATACT
1415631 TATA
1 TATA
1415635 AGTATAATGT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
12 14 0.25
13 22 0.40
14 19 0.35
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (13 bp):
TATATATTATACT
Found at i:1415588 original size:20 final size:20
Alignment explanation
Indices: 1415563--1415634 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
1415553 ATATATATAC
1415563 ACTTATATATTATACTTTAT
1 ACTTATATATTATACTTTAT
* *
1415583 ACTTATATATATTTA-TATAT
1 ACTTATATAT-TATACTTTAT
* *
1415603 ACCTATATA-CATAC-TTAT
1 ACTTATATATTATACTTTAT
1415621 A-TTATATACTTATA
1 ACTTATATA-TTATA
1415635 AGTATAATGT
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
17 6 0.15
18 6 0.15
19 3 0.08
20 22 0.55
21 3 0.08
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (20 bp):
ACTTATATATTATACTTTAT
Found at i:1415602 original size:32 final size:31
Alignment explanation
Indices: 1415566--1415684 Score: 91
Period size: 32 Copynumber: 3.7 Consensus size: 31
1415556 TATATACACT
* *
1415566 TATATATTATACTTTATACTTATATATATTTA
1 TATATACTATA-TATATACTTATATATATTTA
*
1415598 TATATACCTATATACATACTTATATTATATACTTA
1 TATATA-CTATATATATACTTATA-TATAT--TTA
* *
1415633 TA-AGTA-TA-ATGTATACTTATATAAATATTA
1 TATA-TACTATATATATACTTATATATAT-TTA
*
1415663 TATATACACATATATATACTTA
1 TATATAC-TATATATATACTTA
1415685 CAAGTATAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
30 7 0.10
31 5 0.07
32 28 0.41
33 21 0.30
34 1 0.01
35 7 0.10
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (31 bp):
TATATACTATATATATACTTATATATATTTA
Found at i:1415640 original size:19 final size:19
Alignment explanation
Indices: 1415618--1415725 Score: 59
Period size: 19 Copynumber: 5.9 Consensus size: 19
1415608 TATACATACT
1415618 TATATTATATACTTATAAG
1 TATATTATATACTTATAAG
* *
1415637 TATAATGTATACTTATATA-
1 TATATTATATACTTATA-AG
* *
1415656 AATATTATATA--TA-CA-
1 TATATTATATACTTATAAG
* *
1415671 CATA-TATATACTTACAAG
1 TATATTATATACTTATAAG
*
1415689 TATAATGTGTATA-TTATAAG
1 TAT-AT-TATATACTTATAAG
* *
1415709 TAGAATATATACTTATA
1 TATATTATATACTTATA
1415726 CATTATAAGT
Statistics
Matches: 66, Mismatches: 14, Indels: 18
0.67 0.14 0.18
Matches are distributed among these distances:
14 6 0.09
15 4 0.06
16 2 0.03
17 3 0.05
18 7 0.11
19 30 0.45
20 9 0.14
21 5 0.08
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (19 bp):
TATATTATATACTTATAAG
Found at i:1416353 original size:21 final size:21
Alignment explanation
Indices: 1416329--1416379 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
1416319 AATTCAGACT
* *
1416329 TGAACTAACATCGATTCGAA-C
1 TGAACTAAC-CCGATCCGAACC
*
1416350 TGAAATTAACCCGATCCGAACC
1 TG-AACTAACCCGATCCGAACC
1416372 TGAACTAA
1 TGAACTAA
1416380 ATCAAATAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (21 bp):
TGAACTAACCCGATCCGAACC
Found at i:1428189 original size:29 final size:29
Alignment explanation
Indices: 1428144--1428200 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1428134 TTCTTTTATC
*
1428144 ATTGTGACTATACGATGGTTTAGTGTATT
1 ATTGTGACTATACGATGGTTTAGCGTATT
**
1428173 ATTGTGACTATTTGATGGTTTAGCGTAT
1 ATTGTGACTATACGATGGTTTAGCGTAT
1428201 GAAGTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.46
Consensus pattern (29 bp):
ATTGTGACTATACGATGGTTTAGCGTATT
Found at i:1434212 original size:15 final size:16
Alignment explanation
Indices: 1434185--1434214 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1434175 ATGCATAATT
1434185 TTAAAAAATATATTTC
1 TTAAAAAATATATTTC
1434201 TTAAAAAA-ATATTT
1 TTAAAAAATATATTT
1434215 TATATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAAAATATATTTC
Found at i:1434278 original size:211 final size:213
Alignment explanation
Indices: 1433910--1434334 Score: 802
Period size: 211 Copynumber: 2.0 Consensus size: 213
1433900 ATTATATCAC
1433910 ATATAATTGAATTAAAATAATTTAAAAATATATTTGAAGAGAAATAATAAATTATGCATAATTTT
1 ATATAATTGAATTAAAATAATTTAAAAATATATTTGAAGAGAAATAATAAATTATGCATAATTTT
*
1433975 AAAAATATATTTCTTAAAAAATAATATTTTATATAATTAATGTAATTAATTATGCACATTTATGT
66 AAAAATATATTTCTTAAAAAATAATATTTTATATAATTAATGTAATTAATTATACACATTTATGT
1434040 CATCTTCCAACCACCTAATGAGGCGCTGCAACCAAACTGTCATGAAATAGAGAGTTTTTTTTT-G
131 CATCTTCCAACCACCTAATGAGGCGCTGCAACCAAACTGTCATGAAATAGAGAGTTTTTTTTTGG
1434104 GGTGAACAAAAGGGGACA
196 GGTGAACAAAAGGGGACA
1434122 ATATAATTGAATTAAAATAATTTAAAAATATATTTGAAGAGAAATAATAAATTATGCATAATTTT
1 ATATAATTGAATTAAAATAATTTAAAAATATATTTGAAGAGAAATAATAAATTATGCATAATTTT
1434187 AAAAAATATATTTCTT-AAAAA-AATATTTTATATAATTAATGTAATTAATTATACACATTTATG
66 -AAAAATATATTTCTTAAAAAATAATATTTTATATAATTAATGTAATTAATTATACACATTTATG
*
1434250 TCATCTTCCAACCACCTAATGAGGCGCTGCAACCAAACTGTCATGAAATAGAGATTTTTTTTTTG
130 TCATCTTCCAACCACCTAATGAGGCGCTGCAACCAAACTGTCATGAAATAGAGAGTTTTTTTTTG
1434315 GGGTGAACAAAAGGGGACA
195 GGGTGAACAAAAGGGGACA
1434334 A
1 A
1434335 AAGGAAAAAT
Statistics
Matches: 209, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
211 104 0.50
212 90 0.43
213 15 0.07
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (213 bp):
ATATAATTGAATTAAAATAATTTAAAAATATATTTGAAGAGAAATAATAAATTATGCATAATTTT
AAAAATATATTTCTTAAAAAATAATATTTTATATAATTAATGTAATTAATTATACACATTTATGT
CATCTTCCAACCACCTAATGAGGCGCTGCAACCAAACTGTCATGAAATAGAGAGTTTTTTTTTGG
GGTGAACAAAAGGGGACA
Found at i:1434312 original size:212 final size:212
Alignment explanation
Indices: 1433910--1434334 Score: 791
Period size: 212 Copynumber: 2.0 Consensus size: 212
1433900 ATTATATCAC
1433910 ATATAATTGAATTAAAATAATTTAAAAATATATTTGAAGAGAAATAATAAATTATGCATAATTTT
1 ATATAATTGAATTAAAATAATTTAAAAATATATTTGAAGAGAAATAATAAATTATGCATAATTTT
*
1433975 AAAAATATATTTCTTAAAAAATAATATTTTATATAATTAATGTAATTAATTATGCACATTTATGT
66 AAAAATATATTTCTTAAAAAATAATATTTTATATAATTAATGTAATTAATTATACACATTTATGT
*
1434040 CATCTTCCAACCACCTAATGAGGCGCTGCAACCAAACTGTCATGAAATAGAGAGTTTTTTTTTGG
131 CATCTTCCAACCACCTAATGAGGCGCTGCAACCAAACTGTCATGAAATAGAGAGTTTTTTTTGGG
1434105 GTGAACAAAAGGGGACA
196 GTGAACAAAAGGGGACA
1434122 ATATAATTGAATTAAAATAATTTAAAAATATATTTGAAGAGAAATAATAAATTATGCATAATTTT
1 ATATAATTGAATTAAAATAATTTAAAAATATATTTGAAGAGAAATAATAAATTATGCATAATTTT
1434187 AAAAAATATATTTCTT-AAAAA-AATATTTTATATAATTAATGTAATTAATTATACACATTTATG
66 -AAAAATATATTTCTTAAAAAATAATATTTTATATAATTAATGTAATTAATTATACACATTTATG
*
1434250 TCATCTTCCAACCACCTAATGAGGCGCTGCAACCAAACTGTCATGAAATAGAGATTTTTTTTTTG
130 TCATCTTCCAACCACCTAATGAGGCGCTGCAACCAAACTGTCATGAAATAGAGA-GTTTTTTTTG
1434315 GGGTGAACAAAAGGGGACA
194 GGGTGAACAAAAGGGGACA
1434334 A
1 A
1434335 AAGGAAAAAT
Statistics
Matches: 208, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
211 95 0.46
212 98 0.47
213 15 0.07
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (212 bp):
ATATAATTGAATTAAAATAATTTAAAAATATATTTGAAGAGAAATAATAAATTATGCATAATTTT
AAAAATATATTTCTTAAAAAATAATATTTTATATAATTAATGTAATTAATTATACACATTTATGT
CATCTTCCAACCACCTAATGAGGCGCTGCAACCAAACTGTCATGAAATAGAGAGTTTTTTTTGGG
GTGAACAAAAGGGGACA
Found at i:1435680 original size:26 final size:26
Alignment explanation
Indices: 1435662--1435719 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
1435652 TTGCTAGTTG
*
1435662 GTTAAGCTTTGGTTAGTTGTTAAGCA
1 GTTAAGCTTTGGTTAGTTGCTAAGCA
*
1435688 GTTAAGCTTTGGTTAGTTGTTAAGCA
1 GTTAAGCTTTGGTTAGTTGCTAAGCA
1435714 GTTAAG
1 GTTAAG
1435720 GGCTGCTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (26 bp):
GTTAAGCTTTGGTTAGTTGCTAAGCA
Found at i:1435868 original size:15 final size:15
Alignment explanation
Indices: 1435848--1435877 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1435838 ATAAATTCCC
1435848 GGAGTCGTGTGTTCT
1 GGAGTCGTGTGTTCT
1435863 GGAGTCGTGTGTTCT
1 GGAGTCGTGTGTTCT
1435878 TGTTGCGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.13, G:0.40, T:0.40
Consensus pattern (15 bp):
GGAGTCGTGTGTTCT
Found at i:1439441 original size:65 final size:64
Alignment explanation
Indices: 1439311--1439470 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 64
1439301 AATTAAATTG
* * * * *
1439311 AACATCGAACGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACAAACCATGCACAGATGCACTCAGGATTTTATG-A
* * *
1439376 AACATCGAATGCATTTGATGCATCGATGCACAAACCATGCATAGATGCACTCTGGCTATTT-TGA
1 AACATCGAATGCATTTGATGCATCGATGCACAAACCATGCACAGATGCACTCAGGAT-TTTATGA
* * *
1439440 AATATCGAATGCACTTGATGCATTGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
1439471 TCTTAGTGCG
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 29 0.35
65 51 0.61
66 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACAAACCATGCACAGATGCACTCAGGATTTTATGA
Found at i:1446949 original size:21 final size:21
Alignment explanation
Indices: 1446907--1446958 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
1446897 ACTCCGGGAG
* * *
1446907 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCTCGAGCTCCTC
*
1446928 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCTCGAGCTCCTC
*
1446949 CT-CCTCCTCT
1 CTAGCTCCTCT
1446959 TCCGGCTCCG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.08, C:0.46, G:0.13, T:0.33
Consensus pattern (21 bp):
CTAGCTCCTCTCGAGCTCCTC
Found at i:1448219 original size:65 final size:64
Alignment explanation
Indices: 1448096--1448248 Score: 182
Period size: 65 Copynumber: 2.4 Consensus size: 64
1448086 TTGAACATTG
* * *
1448096 AATGCATTTCATGCATCGATGCACATACCATGCACCGATGTACTAAGGATTTTATGAAAACATCA
1 AATGCATTTGATGCATCGATGCACAAACCATGCACCGATGCACTAAGGATTTTATG-AAACATCA
* ** * **
1448161 AATGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACTCTGGCTATTT-TGAAACATTG
1 AATGCATTTGATGCATCGATGCACAAACCATGCACCGATGCACTAAGGAT-TTTATGAAACATCA
* *
1448225 AATGCACTTGATGCATTGATGCAC
1 AATGCATTTGATGCATCGATGCAC
1448249 TCTTAGTGCA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
64 28 0.37
65 45 0.59
66 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (64 bp):
AATGCATTTGATGCATCGATGCACAAACCATGCACCGATGCACTAAGGATTTTATGAAACATCA
Found at i:1450110 original size:24 final size:24
Alignment explanation
Indices: 1450083--1450129 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1450073 CAAAATCTGA
1450083 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
* *
1450107 GTATTGACCCAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
1450130 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:1450138 original size:24 final size:24
Alignment explanation
Indices: 1450087--1450138 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1450077 ATCTGAGTAT
** *
1450087 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
* *
1450111 TGACCCAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
1450135 TGAC
1 TGAC
1450139 TAGTACTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:1450875 original size:394 final size:394
Alignment explanation
Indices: 1450147--1450923 Score: 1437
Period size: 394 Copynumber: 2.0 Consensus size: 394
1450137 ACTAGTACTC
*
1450147 ATTTTTTCTGTTGGCTCATCATCGTTTAACTAGTCAATACAAAAACAGGAATTTGGTGCTGAAAG
1 ATTTTTTCTGTTGGCTCATCATCGTTTAACTAGTCAATACAAAAACAAGAATTTGGTGCTGAAAG
1450212 TTGATTGGGATTTGGATTAGGGAAAGATTGTCGGTTTTGAGATTGTGTTTGGTATTGGAAATGTG
66 TTGATTGGGATTTGGATTAGGGAAAGATTGTCGGTTTTGAGATTGTGTTTGGTATTGGAAATGTG
1450277 GTGAAACAAAATTTTCTTGGTGATGAAATTGTGCTGGAACCATTAAATTTTGAGGTTGATAACAA
131 GTGAAACAAAATTTTCTTGGTGATGAAATTGTGCTGGAACCATTAAATTTTGAGGTTGATAACAA
* *
1450342 CGTTGTAAATTGTGAGTACCATAAATTGGGGTTGAAGAACTTAGTTAATTACTACCCGCTACTGA
196 CGTTGTAAATTGTGAGCACCATAAACTGGGGTTGAAGAACTTAGTTAATTACTACCCGCTACTGA
* *
1450407 CCCAACTTCACTACTTCTAGGTTCAACAATATACAATTTAACATCATCTTGCGAAACACTAATGT
261 CCCAACTTCACTACTTCTAGGTTCAACAACATACAATTTAACATCATCTTGCAAAACACTAATGT
* *
1450472 AAGCAATGAATAGTTCAACATCTTCATTGTCGGTTAACAAATAAACTTTACCTTTTCTGTTGGCT
326 AAGCAATGAATAATTCAACATCTTCATTGTCGGTTAACAAATAAACTTTACATTTTCTGTTGGCT
1450537 CACA
391 CACA
* * *
1450541 ATTTTTTCTGTTGGCTCATCATCGTTTAATTGGTCAATACGAAAACAAGAATTTGGTGCTGAAAG
1 ATTTTTTCTGTTGGCTCATCATCGTTTAACTAGTCAATACAAAAACAAGAATTTGGTGCTGAAAG
*
1450606 TTGATTGGGATTTGGATTAGGGAAAGGTTGTCGGTTTTGAGATTGTGTTTGGTATTGGAAATGTG
66 TTGATTGGGATTTGGATTAGGGAAAGATTGTCGGTTTTGAGATTGTGTTTGGTATTGGAAATGTG
1450671 GTGAAACAAAATTTTCTTGGTGATGAAATTGTGCTGGAACCATTAAATTTTGAGGTTGATAACAA
131 GTGAAACAAAATTTTCTTGGTGATGAAATTGTGCTGGAACCATTAAATTTTGAGGTTGATAACAA
*
1450736 CGTTGTAAATTGTGAGCACCATAAACTGGGGTTGAAGCACTTAGTTAATTACTACCCGCTACTGA
196 CGTTGTAAATTGTGAGCACCATAAACTGGGGTTGAAGAACTTAGTTAATTACTACCCGCTACTGA
*
1450801 CCCAACTTCACTACTTTTAGGTTCAACAACATACAATTTAACATCATCTTGCAAAACACTAATGT
261 CCCAACTTCACTACTTCTAGGTTCAACAACATACAATTTAACATCATCTTGCAAAACACTAATGT
1450866 AAGCAATGAATAATTCAACATCTTCATTGTCGGTTAACAAATAAACTTTACATTTTCT
326 AAGCAATGAATAATTCAACATCTTCATTGTCGGTTAACAAATAAACTTTACATTTTCT
1450924 CTGATAAGAT
Statistics
Matches: 370, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
394 370 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (394 bp):
ATTTTTTCTGTTGGCTCATCATCGTTTAACTAGTCAATACAAAAACAAGAATTTGGTGCTGAAAG
TTGATTGGGATTTGGATTAGGGAAAGATTGTCGGTTTTGAGATTGTGTTTGGTATTGGAAATGTG
GTGAAACAAAATTTTCTTGGTGATGAAATTGTGCTGGAACCATTAAATTTTGAGGTTGATAACAA
CGTTGTAAATTGTGAGCACCATAAACTGGGGTTGAAGAACTTAGTTAATTACTACCCGCTACTGA
CCCAACTTCACTACTTCTAGGTTCAACAACATACAATTTAACATCATCTTGCAAAACACTAATGT
AAGCAATGAATAATTCAACATCTTCATTGTCGGTTAACAAATAAACTTTACATTTTCTGTTGGCT
CACA
Found at i:1451290 original size:14 final size:15
Alignment explanation
Indices: 1451254--1451291 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1451244 GATATCATTG
1451254 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
1451269 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
1451284 AAAAATTA
1 AAAAATTA
1451292 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:1451328 original size:22 final size:22
Alignment explanation
Indices: 1451299--1451351 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
1451289 TTAGAGATGG
*
1451299 GGAA-GGATGCCGTTGGATATT
1 GGAACGGATGACGTTGGATATT
1451320 GGAACGGATGACGTTGGATATT
1 GGAACGGATGACGTTGGATATT
1451342 GGAACGGATG
1 GGAACGGATG
1451352 TCACCGGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.26, C:0.09, G:0.40, T:0.25
Consensus pattern (22 bp):
GGAACGGATGACGTTGGATATT
Found at i:1451495 original size:20 final size:20
Alignment explanation
Indices: 1451452--1451559 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 20
1451442 AAAACATTTG
* *
1451452 TGTTGCGAAAAT-AAAAGC-
1 TGTTGCGAAATTAAAAATCA
*
1451470 TGTTGCGAAATTAAAATTCA
1 TGTTGCGAAATTAAAAATCA
1451490 TGTTGCG-AATTCAAAAATCGA
1 TGTTGCGAAATT-AAAAATC-A
** * *
1451511 -GTTGCGAAAACAAAATTCG
1 TGTTGCGAAATTAAAAATCA
* *
1451530 TGTTGCG-ATTTAGAAAATCT
1 TGTTGCGAAATTA-AAAATCA
1451550 TGTTGCGAAA
1 TGTTGCGAAA
1451560 AGAAACTTGT
Statistics
Matches: 68, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
18 11 0.16
19 10 0.15
20 43 0.63
21 4 0.06
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (20 bp):
TGTTGCGAAATTAAAAATCA
Found at i:1451519 original size:40 final size:40
Alignment explanation
Indices: 1451471--1451560 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
1451461 AATAAAAGCT
**
1451471 GTTGCGAAATTAAAATTCATGTTGCGAATTCA-AAAATCGA
1 GTTGCGAAAACAAAATTCATGTTGCG-ATTCAGAAAATCGA
* * **
1451511 GTTGCGAAAACAAAATTCGTGTTGCGATTTAGAAAATCTT
1 GTTGCGAAAACAAAATTCATGTTGCGATTCAGAAAATCGA
1451551 GTTGCGAAAA
1 GTTGCGAAAA
1451561 GAAACTTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (40 bp):
GTTGCGAAAACAAAATTCATGTTGCGATTCAGAAAATCGA
Found at i:1451607 original size:20 final size:20
Alignment explanation
Indices: 1451582--1451682 Score: 84
Period size: 20 Copynumber: 5.0 Consensus size: 20
1451572 TATGAAAAAT
1451582 AAATTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
*
1451602 AAATTCCGTGTTGCG-ATTT-
1 AAATT-CGCGTTGCGAATTTG
1451621 ACATATTCGCGTTGCGAATTTG
1 A-A-ATTCGCGTTGCGAATTTG
* * * *
1451643 GAA-CCTGTGTTGCGAAATTG
1 AAATTC-GCGTTGCGAATTTG
1451663 AAGA-TCGCGTTGCGAATTTG
1 AA-ATTCGCGTTGCGAATTTG
1451683 TTGGTCATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
19 2 0.03
20 44 0.69
21 18 0.28
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.35
Consensus pattern (20 bp):
AAATTCGCGTTGCGAATTTG
Found at i:1455629 original size:42 final size:42
Alignment explanation
Indices: 1455570--1455661 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
1455560 CCCGAAATCT
1455570 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTCC
* *
1455612 CGTGTTTGTTTCACGTAATTCGTTTTTTGGAAAATGTTTTCT
1 CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTCC
*
1455654 AGTGTTTG
1 CGTGTTTG
1455662 GTTGGAGGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.16, C:0.13, G:0.21, T:0.50
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTCC
Found at i:1455909 original size:22 final size:23
Alignment explanation
Indices: 1455859--1455935 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 23
1455849 ATTTTAATCA
*
1455859 AATATTAATATTAAATATTTAAAAT
1 AATA-TAATATT-AATATTTATAAT
* *
1455884 -ATAT-TTATTAATATTTCTAAT
1 AATATAATATTAATATTTATAAT
*
1455905 AATATAATATT-ATATTTTTAAT
1 AATATAATATTAATATTTATAAT
*
1455927 ATTATAATA
1 AATATAATA
1455936 AAATAATCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
21 10 0.23
22 26 0.59
23 5 0.11
24 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
AATATAATATTAATATTTATAAT
Found at i:1455949 original size:32 final size:32
Alignment explanation
Indices: 1455883--1455962 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
1455873 ATATTTAAAA
* *
1455883 TATATTTATTAATATTTCTAATAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
1455915 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
1455947 TATATTATAATAATAT
1 TATATT-TATTAATAT
1455963 AAGATATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 13 0.32
31 6 0.15
32 15 0.38
33 1 0.03
34 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:1455954 original size:23 final size:23
Alignment explanation
Indices: 1455925--1455977 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1455915 TATATTTTTA
1455925 ATATTATAATAAAATAATCA-ATT
1 ATATTATAATAAAATAA-CATATT
* *
1455948 ATATTATAATAATATAAGATATT
1 ATATTATAATAAAATAACATATT
1455971 ATATTAT
1 ATATTAT
1455978 TATTTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATTATAATAAAATAACATATT
Found at i:1456141 original size:23 final size:23
Alignment explanation
Indices: 1456115--1456159 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1456105 AATAATATTT
1456115 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
1456138 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
1456160 ATATAACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:1456512 original size:14 final size:14
Alignment explanation
Indices: 1456493--1456551 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
1456483 CCAGAAATGT
*
1456493 AATTCATTTTCCAG
1 AATTCAATTTCCAG
* *
1456507 AATTCAAATTCGAG
1 AATTCAATTTCCAG
* * *
1456521 TAATTCATTTTTCAA
1 -AATTCAATTTCCAG
1456536 AATTCAATTTCCAG
1 AATTCAATTTCCAG
1456550 AA
1 AA
1456552 AACCAGTTAC
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
14 24 0.73
15 9 0.27
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:1456516 original size:20 final size:20
Alignment explanation
Indices: 1456477--1456517 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1456467 TTCCGGGAAA
**
1456477 CATTTTCCAGAAATGTAATT
1 CATTTTCCAGAAATCAAATT
*
1456497 CATTTTCCAGAATTCAAATT
1 CATTTTCCAGAAATCAAATT
1456517 C
1 C
1456518 GAGTAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (20 bp):
CATTTTCCAGAAATCAAATT
Found at i:1456662 original size:21 final size:20
Alignment explanation
Indices: 1456622--1456670 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
1456612 GTTACCCTAG
**
1456622 CAAAGGATCAATCCTTTTGA
1 CAAAGGATCAATCCCCTTGA
1456642 CCAAAGGATCAATCCCCTTGA
1 -CAAAGGATCAATCCCCTTGA
*
1456663 AAAAGGAT
1 CAAAGGAT
1456671 TGATCCCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.22
Consensus pattern (20 bp):
CAAAGGATCAATCCCCTTGA
Found at i:1459628 original size:19 final size:20
Alignment explanation
Indices: 1459585--1459638 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1459575 AAAAGCCTGA
*
1459585 GTGCATCGATGCATAGTCTT
1 GTGCATCGATGCATAGTCAT
*
1459605 GTGCATCGATGCATGGT-AT
1 GTGCATCGATGCATAGTCAT
1459624 GTGCATCGATGCATA
1 GTGCATCGATGCATA
1459639 AAATGCATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (20 bp):
GTGCATCGATGCATAGTCAT
Found at i:1459673 original size:84 final size:84
Alignment explanation
Indices: 1459540--1459702 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 84
1459530 TGCACTAAGA
*
1459540 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCTGAGTGCATCGATGCATAG-TCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAACCTGAGTGCATCGATGCATAGAT-T
1459604 TGTGCATCGATGCATGGTAT
65 TGTGCATCGATGCATGGTAT
** *
1459624 GTGCATCGATGCATAAAATGCATTCGATG-TTTGAAAAATTATTTG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAA--ACCTGAGTGCATCGATGCATAGAT
*
1459687 TTGTGCATCGGTGCAT
64 TTGTGCATCGATGCAT
1459703 CACTTTGAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
83 9 0.13
84 59 0.83
85 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (84 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAACCTGAGTGCATCGATGCATAGATTT
GTGCATCGATGCATGGTAT
Found at i:1459694 original size:20 final size:21
Alignment explanation
Indices: 1459664--1459702 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1459654 TTGAAAAATT
1459664 ATTTGGTGCATCGATGCATGG
1 ATTTGGTGCATCGATGCATGG
*
1459685 ATTT-GTGCATCGGTGCAT
1 ATTTGGTGCATCGATGCAT
1459703 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (21 bp):
ATTTGGTGCATCGATGCATGG
Found at i:1460416 original size:20 final size:20
Alignment explanation
Indices: 1460387--1460444 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
1460377 TTTCAAAGTG
* * *
1460387 ATGCACCGATGCATCAATCT
1 ATGCATCGATGCACCAATCC
1460407 ATGCATCGATGCACCAATCC
1 ATGCATCGATGCACCAATCC
1460427 ATGCATCGATGCACCAAT
1 ATGCATCGATGCACCAAT
1460445 TAATTTTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (20 bp):
ATGCATCGATGCACCAATCC
Found at i:1460513 original size:45 final size:46
Alignment explanation
Indices: 1460464--1460554 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
1460454 AAACATCGAA
* * *
1460464 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCAACGATGCACTCAG
*
1460509 TGCATTTGATGCATCGATGCACAAGACTATGCAACGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCAACGATGCACTCAG
1460555 GCTTTTTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCAACGATGCACTCAG
Found at i:1465315 original size:11 final size:11
Alignment explanation
Indices: 1465299--1465360 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
1465289 AAAATTACAT
1465299 TATTAAAAATA
1 TATTAAAAATA
1465310 TATTAAAAATA
1 TATTAAAAATA
* * **
1465321 CACT-ATGATA
1 TATTAAAAATA
1465331 -ATTATAAAAT-
1 TATTA-AAAATA
1465341 T-TTAAAAATA
1 TATTAAAAATA
1465351 TATTAAAAAT
1 TATTAAAAAT
1465361 TCTATAATAC
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
9 7 0.18
10 8 0.21
11 24 0.62
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:1467538 original size:11 final size:11
Alignment explanation
Indices: 1467521--1467575 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
1467511 TCTTGGCTAA
*
1467521 GATTTGAGCTT
1 GATTCGAGCTT
* *
1467532 AATTTGAGCTT
1 GATTCGAGCTT
1467543 GATTCGAGCTT
1 GATTCGAGCTT
1467554 GATTCGAGCTT
1 GATTCGAGCTT
*
1467565 GATTCAAGCTT
1 GATTCGAGCTT
1467576 AAAATCGAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.40
Consensus pattern (11 bp):
GATTCGAGCTT
Found at i:1467546 original size:22 final size:22
Alignment explanation
Indices: 1467521--1467587 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
1467511 TCTTGGCTAA
* *
1467521 GATTTGAGCTTAATTTGAGCTT
1 GATTCGAGCTTAATTCGAGCTT
*
1467543 GATTCGAGCTTGATTCGAGCTT
1 GATTCGAGCTTAATTCGAGCTT
* *
1467565 GATTCAAGCTTAAAATCGAGCTT
1 GATTCGAGCTT-AATTCGAGCTT
1467588 TAATCGAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
22 29 0.76
23 9 0.24
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.37
Consensus pattern (22 bp):
GATTCGAGCTTAATTCGAGCTT
Found at i:1467592 original size:11 final size:11
Alignment explanation
Indices: 1467537--1467595 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
1467527 AGCTTAATTT
*
1467537 GAGCTTGATTC
1 GAGCTTGAATC
*
1467548 GAGCTTGATTC
1 GAGCTTGAATC
*
1467559 GAGCTTGATTC
1 GAGCTTGAATC
* *
1467570 AAGCTTAAAATC
1 GAGCTT-GAATC
*
1467582 GAGCTTTAATC
1 GAGCTTGAATC
1467593 GAG
1 GAG
1467596 TTCGAGTCCC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
11 34 0.81
12 8 0.19
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (11 bp):
GAGCTTGAATC
Found at i:1477640 original size:14 final size:15
Alignment explanation
Indices: 1477621--1477650 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1477611 TGCCGGAAGG
1477621 AATTTTTTAT-TTAA
1 AATTTTTTATCTTAA
1477635 AATTTTTTATCTTAA
1 AATTTTTTATCTTAA
1477650 A
1 A
1477651 TTAATTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTTTTTATCTTAA
Found at i:1479448 original size:65 final size:63
Alignment explanation
Indices: 1479268--1479468 Score: 201
Period size: 65 Copynumber: 3.1 Consensus size: 63
1479258 ATTATCAAAG
* * **
1479268 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGAGTTAAATTG-AACATCGAATGCA
1 TGATGCATCGATGCACC-A-CCATGCATCGATGCACTC-TG-GATATTTTGAAACATCGAATGCA
1479331 TT
62 TT
* * * ** *
1479333 TCATGCATCGATGCACTTACCATGCACCGATGCACTGAGAAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCAC-CACCATGCATCGATGCACTCTGGATATTT-TG-AAACATCGAATGCAT
1479397 T
63 T
* *
1479398 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACCA-CCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATT
1479462 TGATGCA
1 TGATGCA
1479469 CTCTTAGTGC
Statistics
Matches: 111, Mismatches: 18, Indels: 15
0.77 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 39 0.35
65 65 0.59
66 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
TGATGCATCGATGCACCACCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATT
Found at i:1482163 original size:38 final size:38
Alignment explanation
Indices: 1482064--1482177 Score: 142
Period size: 38 Copynumber: 3.0 Consensus size: 38
1482054 TGCAACAACC
* *
1482064 AACCACCAACCTACCCGGGA-TATTAATGGATAATTAAT
1 AACCACCAACCTA-CCTGAATTATTAATGGATAATTAAT
* * *
1482102 AACCACCAACCTACCTGAGTTATTAAAGGATAATTATT
1 AACCACCAACCTACCTGAATTATTAATGGATAATTAAT
*
1482140 AACCACCAACCTA-TTGATATTATTAATGGATAATTAAT
1 AACCACCAACCTACCTGA-ATTATTAATGGATAATTAAT
1482178 GCTGCAATTA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
37 6 0.09
38 59 0.91
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (38 bp):
AACCACCAACCTACCTGAATTATTAATGGATAATTAAT
Found at i:1487149 original size:18 final size:18
Alignment explanation
Indices: 1487122--1487167 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
1487112 ATTACCAACC
*
1487122 ACAAATAACACCAAGAGT
1 ACAAAGAACACCAAGAGT
1487140 ACAAAGAACACCAAGAGT
1 ACAAAGAACACCAAGAGT
1487158 ACAAAGAACA
1 ACAAAGAACA
1487168 TGGATAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.59, C:0.22, G:0.13, T:0.07
Consensus pattern (18 bp):
ACAAAGAACACCAAGAGT
Found at i:1490882 original size:21 final size:22
Alignment explanation
Indices: 1490856--1490914 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 22
1490846 GGGAGCGTTA
1490856 CAGATTCTTAGGCTG-ATTAGG
1 CAGATTCTTAGGCTGTATTAGG
*
1490877 CAGATTCTTAGGTTGATTATTAGG
1 CAGATTCTTAGGCTG--TATTAGG
*
1490901 TAGATTCTTAGGCT
1 CAGATTCTTAGGCT
1490915 AATCACTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.44
24 18 0.56
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (22 bp):
CAGATTCTTAGGCTGTATTAGG
Found at i:1490887 original size:12 final size:12
Alignment explanation
Indices: 1490856--1490913 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
1490846 GGGAGCGTTA
1490856 CAGATTCTTAGG
1 CAGATTCTTAGG
*
1490868 CTGA---TTAGG
1 CAGATTCTTAGG
1490877 CAGATTCTTAGG
1 CAGATTCTTAGG
** *
1490889 TTGATTATTAGG
1 CAGATTCTTAGG
*
1490901 TAGATTCTTAGG
1 CAGATTCTTAGG
1490913 C
1 C
1490914 TAATCACTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
9 8 0.23
12 27 0.77
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (12 bp):
CAGATTCTTAGG
Found at i:1496131 original size:2 final size:2
Alignment explanation
Indices: 1496126--1496153 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1496116 TCGCGCGCAC
1496126 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1496154 GAGGAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1499023 original size:24 final size:24
Alignment explanation
Indices: 1498995--1499091 Score: 61
Period size: 24 Copynumber: 4.0 Consensus size: 24
1498985 GAATGGTTTA
*
1498995 TCTGATTTCCGATTTGAATTCTGT
1 TCTGATTTCCGATCTGAATTCTGT
* * * *
1499019 TCTGA-TACCTGACCTGGATTTTGT
1 TCTGATTTCC-GATCTGAATTCTGT
* * * *
1499043 TCTGATTTCTGATCTGGATTATAT
1 TCTGATTTCCGATCTGAATTCTGT
* ** *
1499067 TCTGATATCTTATTTGAATTCTGT
1 TCTGATTTCCGATCTGAATTCTGT
1499091 T
1 T
1499092 TTTATTTTTG
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
23 3 0.05
24 50 0.91
25 2 0.04
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.49
Consensus pattern (24 bp):
TCTGATTTCCGATCTGAATTCTGT
Found at i:1501702 original size:29 final size:29
Alignment explanation
Indices: 1501670--1501728 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
1501660 AAAAAATTAA
* *
1501670 TTTAATTTTTTAAAT-TTATAAAAGATATT
1 TTTAAATTATTAAATATT-TAAAAGATATT
*
1501699 TTTAAATTATTAAATATTTAAAATATATT
1 TTTAAATTATTAAATATTTAAAAGATATT
1501728 T
1 T
1501729 ACTAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTAAATTATTAAATATTTAAAAGATATT
Found at i:1501792 original size:19 final size:20
Alignment explanation
Indices: 1501758--1501797 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
1501748 ATAAAATTTT
1501758 TATTTTATTATTATAA-TAA
1 TATTTTATTATTATAAGTAA
1501777 TATTTTATT-TTAATAAGTAA
1 TATTTTATTATT-ATAAGTAA
1501797 T
1 T
1501798 TAATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 13 0.68
20 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTTATTATTATAAGTAA
Found at i:1501917 original size:15 final size:15
Alignment explanation
Indices: 1501883--1501925 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
1501873 TAAAATATGG
*
1501883 AAATAATATTTA-AT
1 AAATAATATTGATAT
1501897 -AATAATATTGATAT
1 AAATAATATTGATAT
1501911 AAATAATATTAGATA
1 AAATAATATT-GATA
1501926 AATTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 9 0.36
16 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (15 bp):
AAATAATATTGATAT
Found at i:1507170 original size:15 final size:15
Alignment explanation
Indices: 1507150--1507230 Score: 99
Period size: 15 Copynumber: 5.4 Consensus size: 15
1507140 ATTTTATTAG
1507150 TATGTGAATATGTTA
1 TATGTGAATATGTTA
* *
1507165 TATGTGAATGTGTTT
1 TATGTGAATATGTTA
*
1507180 TATGTGAAAATGTTA
1 TATGTGAATATGTTA
*
1507195 TATGTGAATATGTTC
1 TATGTGAATATGTTA
* * *
1507210 TATATGAATGTGTTC
1 TATGTGAATATGTTA
1507225 TATGTG
1 TATGTG
1507231 GATAAATGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 56 1.00
ACGTcount: A:0.28, C:0.02, G:0.22, T:0.47
Consensus pattern (15 bp):
TATGTGAATATGTTA
Found at i:1507380 original size:23 final size:23
Alignment explanation
Indices: 1507354--1507462 Score: 94
Period size: 23 Copynumber: 4.7 Consensus size: 23
1507344 CGGTCCTTTG
*
1507354 GGACAATTTTATGTGGTCATTCA
1 GGACAATTCTATGTGGTCATTCA
*** **
1507377 GGACAATTCTACACGGTC-TTTT
1 GGACAATTCTATGTGGTCATTCA
* *
1507399 GCGACAATTCTATGTTGTCATTCG
1 G-GACAATTCTATGTGGTCATTCA
* * *
1507423 GGATAATTCTATGCGGTCCTTCA
1 GGACAATTCTATGTGGTCATTCA
*
1507446 GGACAAATCTATGTGGT
1 GGACAATTCTATGTGGT
1507463 ACTTTGGTGC
Statistics
Matches: 64, Mismatches: 20, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
22 3 0.05
23 58 0.91
24 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
GGACAATTCTATGTGGTCATTCA
Found at i:1507405 original size:46 final size:46
Alignment explanation
Indices: 1507337--1507462 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
1507327 GAGTCGAGGG
* * *
1507337 TTCTACGCGGTCCTTTGGGACAATTTTATGTGGTCATTCAGGACAA
1 TTCTACACGGTCCTTTGCGACAATTCTATGTGGTCATTCAGGACAA
* * * *
1507383 TTCTACACGGTCTTTTGCGACAATTCTATGTTGTCATTCGGGATAA
1 TTCTACACGGTCCTTTGCGACAATTCTATGTGGTCATTCAGGACAA
** * *
1507429 TTCTATGCGGTCCTTCAG-GACAAATCTATGTGGT
1 TTCTACACGGTCCTT-TGCGACAATTCTATGTGGT
1507463 ACTTTGGTGC
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 65 0.98
47 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (46 bp):
TTCTACACGGTCCTTTGCGACAATTCTATGTGGTCATTCAGGACAA
Found at i:1510348 original size:437 final size:436
Alignment explanation
Indices: 1509525--1510400 Score: 1602
Period size: 437 Copynumber: 2.0 Consensus size: 436
1509515 AATAAACTTG
1509525 TTTTGATTTTGATTGACCCGGGATCAACTTATTCCTATATCAGTAGTAGACTGATGAGAAATTTA
1 TTTTGATTTTGATTGACCCGGGATCAACTTATTCCTATATCAGTAGTAGACTGATGAGAAATTTA
1509590 AGAATTCAATTAAAAGCCATAAGTAGTTATGTGATTATGACTAACCCGCTAGGGCATAATGGTTG
66 AGAATTCAATTAAAAGCCATAAGTAGTTATGTGATTATGACTAACCCGCTAGGGC--AATGGTTG
1509655 GGTGAATCAAATTTTTTGAGGGTGTCCTATAAGGATTCAGGGAATTGAATTCCTTGCTAATCTAA
129 GGTGAATCAAATTTTTTGAGGGTGTCCTATAAGGATTCAGGGAATTGAATTCCTTGCTAATCTAA
1509720 TGGAATTACCCTTTGTCGAGTTCGATTATTTTTGGGAATGAATTGGTTGTATCGTTATCATGCTA
194 TGGAATTACCCTTTGTCGAGTTCGATTATTTTTGGGAATGAATTGGTTGTATCGTTATCATGCTA
1509785 ATGTTGACTGTCGATGAAGAGGGGTAGTTTTAAGAAGTTAGATGGATCAGAGTAATTGTGGTTAG
259 ATGTTGACTGTCGATGAAGAGGGGTAGTTTTAAGAAGTTAGATGGATCAGAGTAATTGTGGTTAG
1509850 CGAGAGAATTAATCATTAGCTATGTGATATCAGTATTGTCGACTAAGAAGTTAATATTGTAAGGA
324 CGAGAGAATTAATCATTAGCTATGTGATATCAGTATTGTCGACTAAGAAGTTAATATTGTAAGGA
*
1509915 TGTCAAGCTTTCATCGCTAGCGTAATTGATA-CGAGCCAAGGAGATGA
389 TGTCAAGCTTTCATCGCTAGCATAATTGATACCGAGCCAAGGAGATGA
*
1509962 TTTTGATTTTGATTGACCCGGGATCAACTTATTCCTATATCAGTAGTAGACTGATGAGAAATTTG
1 TTTTGATTTTGATTGACCCGGGATCAACTTATTCCTATATCAGTAGTAGACTGATGAGAAATTTA
1510027 AGAATTCAATTAAAAGCCATAAGTAGTTATGTGATTATGACTAACCCGCTAGGGC-ATGGTTGGG
66 AGAATTCAATTAAAAGCCATAAGTAGTTATGTGATTATGACTAACCCGCTAGGGCAATGGTTGGG
1510091 TGAATCAAATTTTTTGAGGGTGTCCTATAAGGATTCAGGGAATTGAATTCCTTGCTAATCTAATG
131 TGAATCAAATTTTTTGAGGGTGTCCTATAAGGATTCAGGGAATTGAATTCCTTGCTAATCTAATG
1510156 GAATTACCCTTTGTCGAGTTCGA-TATTATTTTGGGAATGAATTGGTTGTATCGTTATCATGCTA
196 GAATTACCCTTTGTCGAGTTCGATTA-T-TTTTGGGAATGAATTGGTTGTATCGTTATCATGCTA
1510220 ATGTTGACTGTCGATTGAAGA-GGGTAGTTTTAAGAAGTTATGATGGATCAGAGGTAATTGTGGT
259 ATGTTGACTGTCGA-TGAAGAGGGGTAGTTTTAAGAAGTTA-GATGGATCAGA-GTAATTGTGGT
1510284 TAGCGAGAGAATTAATCCATTAGCTATTGTGATATCAGTATTGTCGACTAAGAAGTT-A-ATTGT
321 TAGCGAGAGAATTAAT-CATTAGCTA-TGTGATATCAGTATTGTCGACTAAGAAGTTAATATTGT
1510347 AAGGATGTCAAGCTTTCATCGCTAGCATAATTGATACTCGAGCCAAGGAGATGA
384 AAGGATGTCAAGCTTTCATCGCTAGCATAATTGATAC-CGAGCCAAGGAGATGA
1510401 GATTGGAAGA
Statistics
Matches: 428, Mismatches: 2, Indels: 16
0.96 0.00 0.04
Matches are distributed among these distances:
433 2 0.00
434 98 0.23
435 69 0.16
436 17 0.04
437 186 0.43
438 10 0.02
439 46 0.11
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (436 bp):
TTTTGATTTTGATTGACCCGGGATCAACTTATTCCTATATCAGTAGTAGACTGATGAGAAATTTA
AGAATTCAATTAAAAGCCATAAGTAGTTATGTGATTATGACTAACCCGCTAGGGCAATGGTTGGG
TGAATCAAATTTTTTGAGGGTGTCCTATAAGGATTCAGGGAATTGAATTCCTTGCTAATCTAATG
GAATTACCCTTTGTCGAGTTCGATTATTTTTGGGAATGAATTGGTTGTATCGTTATCATGCTAAT
GTTGACTGTCGATGAAGAGGGGTAGTTTTAAGAAGTTAGATGGATCAGAGTAATTGTGGTTAGCG
AGAGAATTAATCATTAGCTATGTGATATCAGTATTGTCGACTAAGAAGTTAATATTGTAAGGATG
TCAAGCTTTCATCGCTAGCATAATTGATACCGAGCCAAGGAGATGA
Found at i:1512973 original size:53 final size:54
Alignment explanation
Indices: 1512911--1513012 Score: 197
Period size: 53 Copynumber: 1.9 Consensus size: 54
1512901 GATTATAAAG
1512911 AGAGTGGGACCAGTAGCATATCAGTTAGCATTGCCACCAAAAATGGAGATTATA
1 AGAGTGGGACCAGTAGCATATCAGTTAGCATTGCCACCAAAAATGGAGATTATA
1512965 AGAG-GGGACCAGTAGCATATCAGTTAGCATTGCCACCAAAAATGGAGA
1 AGAGTGGGACCAGTAGCATATCAGTTAGCATTGCCACCAAAAATGGAGA
1513013 AGATCTACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 44 0.92
54 4 0.08
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (54 bp):
AGAGTGGGACCAGTAGCATATCAGTTAGCATTGCCACCAAAAATGGAGATTATA
Found at i:1514061 original size:20 final size:19
Alignment explanation
Indices: 1514036--1514081 Score: 83
Period size: 20 Copynumber: 2.4 Consensus size: 19
1514026 GTAAGGGTAT
1514036 CGATACTGGAAGAACAATA
1 CGATACTGGAAGAACAATA
1514055 CCGATACTGGAAGAACAATA
1 -CGATACTGGAAGAACAATA
1514075 CGATACT
1 CGATACT
1514082 ATAAGGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (19 bp):
CGATACTGGAAGAACAATA
Found at i:1514148 original size:21 final size:20
Alignment explanation
Indices: 1514124--1514194 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
1514114 GGATGAACAA
1514124 TATCGATACTAAT-TGAAGTAG
1 TATCGATACTAATGTGAAG--G
* * *
1514145 TATCGGTACTGATGTGGAGG
1 TATCGATACTAATGTGAAGG
*
1514165 TATCGATACTAA-GAGTAAGG
1 TATCGATACTAATGTG-AAGG
1514185 TATCGATACT
1 TATCGATACT
1514195 GTAATTGAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
19 2 0.05
20 24 0.59
21 11 0.27
22 4 0.10
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.31
Consensus pattern (20 bp):
TATCGATACTAATGTGAAGG
Found at i:1514704 original size:15 final size:15
Alignment explanation
Indices: 1514684--1514724 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1514674 ATATTGAATG
*
1514684 TGTTCTATGTTAAAA
1 TGTTCTATGTGAAAA
**
1514699 TGTTCTATGTGAATG
1 TGTTCTATGTGAAAA
1514714 TGTTCTATGTG
1 TGTTCTATGTG
1514725 GATAAAGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.49
Consensus pattern (15 bp):
TGTTCTATGTGAAAA
Found at i:1514869 original size:23 final size:23
Alignment explanation
Indices: 1514843--1514909 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
1514833 CTACACGGTT
* *
1514843 CTTCAGGACAATTCTATGTTGTC
1 CTTCGGGACAATTCTATGTGGTC
* *
1514866 CTTCGGGACAATTCTACGCGGTC
1 CTTCGGGACAATTCTATGTGGTC
*
1514889 CTTCGGGACAAATCTATGTGG
1 CTTCGGGACAATTCTATGTGG
1514910 CACTTTGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (23 bp):
CTTCGGGACAATTCTATGTGGTC
Found at i:1514933 original size:24 final size:24
Alignment explanation
Indices: 1514875--1514954 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
1514865 CCTTCGGGAC
*
1514875 AATTCTACGCGGTC-CTTCGG-GACA
1 AATTCTACGTGG-CACTTCGGTG-CA
* * *
1514899 AA-TCTATGTGGCACTTTGGTGTA
1 AATTCTACGTGGCACTTCGGTGCA
*
1514922 TATTCTACGTGGCACTTCGGTGCA
1 AATTCTACGTGGCACTTCGGTGCA
1514946 AATTCTACG
1 AATTCTACG
1514955 AGACAGTTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
22 1 0.02
23 14 0.32
24 29 0.66
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.33
Consensus pattern (24 bp):
AATTCTACGTGGCACTTCGGTGCA
Found at i:1516359 original size:30 final size:30
Alignment explanation
Indices: 1516324--1516403 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
1516314 CTTACTTTAC
**
1516324 AAATAAGTATCTTAAGTATTTTTTTTGTCA
1 AAATAAGTATCTTAAGTATTTTTTTAATCA
*
1516354 AAATAAATA-CTTAAAGCTA-TTTTTTAATCA
1 AAATAAGTATCTT-AAG-TATTTTTTTAATCA
* *
1516384 AAATAGGTATCTGAAGTATT
1 AAATAAGTATCTTAAGTATT
1516404 GTACGTCAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
29 5 0.12
30 31 0.77
31 4 0.10
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (30 bp):
AAATAAGTATCTTAAGTATTTTTTTAATCA
Found at i:1526986 original size:26 final size:26
Alignment explanation
Indices: 1526950--1527009 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
1526940 CGAGTCACCC
1526950 GACCCGAATATATGAATTAGAAACCA
1 GACCCGAATATATGAATTAGAAACCA
*
1526976 GACCCGAATATATGAATTAGAAACCC
1 GACCCGAATATATGAATTAGAAACCA
1527002 GACCCGAA
1 GACCCGAA
1527010 ATAATAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (26 bp):
GACCCGAATATATGAATTAGAAACCA
Found at i:1527357 original size:196 final size:188
Alignment explanation
Indices: 1526998--1527356 Score: 483
Period size: 196 Copynumber: 1.9 Consensus size: 188
1526988 TGAATTAGAA
** * *
1526998 ACCCGACCCGAAATAATAAAAAATTATTTTTTATTCAATACAAAATGACTTAATTGAAAAAATAT
1 ACCCGACCCGAAATAATAAAAAA-TATAATTTATTCAATAAAAAATGACTTAATTAAAAAAATAT
* *
1527063 ATAGAGAGGTATTATTGTAATTATTCCTAAATATATAAGATAAAATTATATATTTTTTTGGGTCG
65 ATAGAGAGGTATTATTGTAATTATTCCAAAATATATAAGATAAAATTATATA--TTTTT--GTCA
* *
1527128 GGTCGGGTCTGGTATTTTTCACCCTAAACCCGACCCGAACCGAATATATGAACTAGAAACCCG
126 GGTCAGGTCGGGTATTTTTCACCCTAAACCCGACCCGAACCGAATATATGAACTAGAAACCCG
1527191 ACCCGACCCGAAATAATAAAAAA-A-AATTTATTCAATAAAAACAGTGACTTAATTAAAAAAAAT
1 ACCCGACCCGAAATAATAAAAAATATAATTTATTCAATAAAAA-A-TGACTTAATT-AAAAAAA-
* *
1527254 TTTATATAGAGGGGTATTATTGTAATTATTCCAAAATATATAAGGTAAAATTATATA-TTTT-TC
62 --TATATAGAGAGGTATTATTGTAATTATTCCAAAATATATAAGATAAAATTATATATTTTTGTC
*
1527317 AGGTCAGGTCGGGTATTTTTCACCCTAAACTCGAACCCGA
125 AGGTCAGGTCGGGTATTTTTCACCCTAAACCCG-ACCCGA
1527357 CTCGACCCGA
Statistics
Matches: 148, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
190 45 0.30
191 8 0.05
192 10 0.07
193 33 0.22
196 52 0.35
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (188 bp):
ACCCGACCCGAAATAATAAAAAATATAATTTATTCAATAAAAAATGACTTAATTAAAAAAATATA
TAGAGAGGTATTATTGTAATTATTCCAAAATATATAAGATAAAATTATATATTTTTGTCAGGTCA
GGTCGGGTATTTTTCACCCTAAACCCGACCCGAACCGAATATATGAACTAGAAACCCG
Found at i:1533722 original size:28 final size:27
Alignment explanation
Indices: 1533690--1533756 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
1533680 TAAACATAAT
*
1533690 AAAATTCAAAATCTAA-ATTAAAATACTG
1 AAAATTCAAAATC-AAGATTAAAATA-TA
*
1533718 AAAATT-AAATTCAATGATTAAAATATA
1 AAAATTCAAAATCAA-GATTAAAATATA
1533745 AAAATTACAAAA
1 AAAATT-CAAAA
1533757 GCAGAAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 2 0.06
27 12 0.38
28 15 0.47
29 3 0.09
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAATTCAAAATCAAGATTAAAATATA
Found at i:1535164 original size:83 final size:83
Alignment explanation
Indices: 1534849--1535471 Score: 672
Period size: 83 Copynumber: 7.6 Consensus size: 83
1534839 TATCCCTTTT
* * * * * * * *
1534849 GCCTTGAGCTATGCTGTAAATTTGATTTGCCTCTGAGTTGAATGCAATCAAACTCGAAGATCTTT
1 GCCTTGAGTTATGCTGTAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
*
1534914 GATGAACAAATAACCCTTCTC
64 GATG-ACAGATAACCCTTCTC
* * *
1534935 GCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAACG--TGTGC
1 GCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGA
* * *
1534998 TGACAGATAGCCTTTATC
66 TGACAGATAACCCTTCTC
* ** * * * * *
1535016 GCCTTGAGCTATGCTGTAAATTTGAAATGCCCTTGAGCTGAATGGAATCGAACTCGAATGACTTT
1 GCCTTGAGTTATGCTGTAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* *
1535081 GATGATAAATAACCCTTCTC
64 GATGACAGATAACCCTTCTC
* * *
1535101 GCCTTGAATTATACTGTAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG-
1 GCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGA
* * *
1535165 -G-TAGATAACTCTTCTT
66 TGACAGATAACCCTTCTC
* * *
1535181 GCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTT-A
1 GCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGA
*
1535245 TCGACAGATAA-CCTTCTA
66 T-GACAGATAACCCTTCTC
* * * * *
1535263 GCCTTGAGTTATACTATAAATGATGTGCCTTTGAGCTGATTGTAATCAAATTCGAAGGTCTTTGA
1 GCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGA
*
1535328 TGACAGATAACCTTTCTC
66 TGACAGATAACCCTTCTC
* ** * *
1535346 ACCTTGAGTTATATTATAAATGATGTGACTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG-
1 GCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGA
*
1535410 -G-CAGATAACCCTTCTT
66 TGACAGATAACCCTTCTC
** *
1535426 GCCTTGAGCCATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAAT
1 GCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAAT
1535472 GCTGCAAATG
Statistics
Matches: 449, Mismatches: 78, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
80 120 0.27
81 33 0.07
82 75 0.17
83 139 0.31
84 30 0.07
85 33 0.07
86 19 0.04
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (83 bp):
GCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGA
TGACAGATAACCCTTCTC
Found at i:1535395 original size:245 final size:244
Alignment explanation
Indices: 1534923--1535471 Score: 751
Period size: 245 Copynumber: 2.2 Consensus size: 244
1534913 TGATGAACAA
* * *
1534923 ATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* * * * *
1534988 GAACGTGTGCTGACAGATAGCCTTTATCGCCTTGAGCTATGCTGTAAATTTGAAATGCCCTTGAG
66 AAACGTGTGATGACAGATAACCTTTA-CGCCTTGAGCTATACTATAAA-TTGAAATGCCCTTGAG
* * * * *
1535053 CTGAATGGAATCGAACTCGAATGACTTTGATGATAAATAACCCTTCTCGCCTTGAATTATACTGT
129 CTGAATGGAATCAAACTCGAAGGACTTTGATGACAAATAACCCTTCTCACCTTGAATTATACTAT
* *
1535118 AAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAG
194 AAATGATGTGACTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG
*
1535169 ATAACTCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* * * * ** *
1535234 AAAGGTCTTTATCGACAGATAACCTTCTA-GCCTTGAGTTATACTATAAA-TGATGTGCCTTTGA
66 AAACGT-GTGAT-GACAGATAACCTT-TACGCCTTGAGCTATACTATAAATTGAAATGCCCTTGA
* * * * * * * *
1535297 GCTGATTGTAATCAAATTCGAAGGTCTTTGATGACAGATAACCTTTCTCACCTTGAGTTATATTA
128 GCTGAATGGAATCAAACTCGAAGGACTTTGATGACAAATAACCCTTCTCACCTTGAATTATACTA
1535362 TAAATGATGTGACTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG
193 TAAATGATGTGACTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG
*
1535414 ATAACCCTTCTTGCCTTGAGCCATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAAT
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAAT
1535472 GCTGCAAATG
Statistics
Matches: 267, Mismatches: 33, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
245 169 0.63
246 65 0.24
247 19 0.07
248 12 0.04
249 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (244 bp):
ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
AAACGTGTGATGACAGATAACCTTTACGCCTTGAGCTATACTATAAATTGAAATGCCCTTGAGCT
GAATGGAATCAAACTCGAAGGACTTTGATGACAAATAACCCTTCTCACCTTGAATTATACTATAA
ATGATGTGACTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG
Found at i:1535492 original size:32 final size:33
Alignment explanation
Indices: 1535436--1535503 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 33
1535426 GCCTTGAGCC
*
1535436 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTA
1 ATGCTGCAAATGA-GTGCCTTTGAGCTGAGTATA
1535470 ATGCTGCAAATGA-TGCCTTTGAGCTGAGTATA
1 ATGCTGCAAATGAGTGCCTTTGAGCTGAGTATA
1535502 AT
1 AT
1535504 CGAACTCGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 20 0.61
34 13 0.39
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (33 bp):
ATGCTGCAAATGAGTGCCTTTGAGCTGAGTATA
Found at i:1535508 original size:112 final size:114
Alignment explanation
Indices: 1535374--1535586 Score: 340
Period size: 115 Copynumber: 1.9 Consensus size: 114
1535364 AATGATGTGA
* **
1535374 CTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG-G-CAGATAACCCTTCTTGCCTTGAGCCA
1 CTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGTGACAGATAACCCTTCTACCCTTGAGCCA
1535437 TGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATGCTGCAAATGATGC
66 TGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATGCTGCAAATGATGC
**
1535486 CTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTACCCTTGAGTT
1 CTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTG-TGACAGATAACCCTTCTACCCTTGAGCC
* *
1535551 ATGCTGTAAATGATGTGTCTTTGAGCTGAGTGTAAT
65 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAAT
1535587 TGAACTCCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
112 35 0.38
114 1 0.01
115 55 0.60
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (114 bp):
CTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGTGACAGATAACCCTTCTACCCTTGAGCCA
TGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATGCTGCAAATGATGC
Found at i:1535601 original size:83 final size:80
Alignment explanation
Indices: 1535470--1536743 Score: 1500
Period size: 80 Copynumber: 15.6 Consensus size: 80
1535460 GCTGAGTGTA
* *
1535470 ATGCTGCAAATGA--TGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGTTGACAGATAA
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAA
*
1535533 CCCTTCTACCCTTGAGTT
63 CCCTTCTAGCCTTGAGTT
* * *
1535551 ATGCTGTAAATGATGTGTCTTTGAGCTGAGTGTAATTGAACTCCAAGGTCTTTGGCAGATAACCC
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAA-CC
1535616 TTCTTGCCTTGAGTTTCCTTGAGTT
65 --CTT--C-T-AG---CCTTGAGTT
* * * * * *
1535641 ATGCTGCAAATGATGTGCCCTTGAGATGAATGTATTCGAAATCGAAGGTCTTTGTTGACAGATAA
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAA
*
1535706 CCCTTCTAGTCTTGAGTT
63 CCCTTCTAGCCTTGAGTT
* * **
1535724 ATACTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAATGTCTTTGGCAGATTGCCC
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCC
* *
1535789 TTCTTGCCTTGAGCT
66 TTCTAGCCTTGAGTT
* * *
1535804 ATGCTGCAAATGATATACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAA
*
1535869 CCCTTCTAGACTTGAGTT
63 CCCTTCTAGCCTTGAGTT
* * * *
1535887 ATGTTTTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCC
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCC
* * *
1535952 TTCTTGGCTTGAACTT
66 TTCTAGCCTTG-AGTT
* * * * *
1535968 -TACTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGTTGACAGATAAA
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-T-TTGGCAGATAAC
*
1536032 CCTTCTAGCATTGAGTT
64 CCTTCTAGCCTTGAGTT
* * *
1536049 ATACTGTAAATGATGTGCTTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCC
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCC
*
1536114 TTCTTA-CCTTGAGCT
66 TTC-TAGCCTTGAGTT
* * * * * *
1536129 ATGCGGCAAAAGACGTGTCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAACCC
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCC
* * *
1536194 TTTTTGCCTTGAGCT
66 TTCTAGCCTTGAGTT
*
1536209 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAA
*
1536274 CCCTTATAGCCTTGAGTT
63 CCCTTCTAGCCTTGAGTT
* *
1536292 ATGTTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTTACAGATAA
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG---GCAGATAA
1536357 CCCTTCTAGCCTTGAGTT
63 CCCTTCTAGCCTTGAGTT
* ** *
1536375 ATACTGTAAATGATGTGCCTTTGAGCTGAGTGTAATAAAACTCGAAGGTCTTTGATGACAGGTAA
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAA
*
1536440 CCTTTCTCA-CCTTGAGTT
63 CCCTTCT-AGCCTTGAGTT
* * * *
1536458 ATACTATTAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGCAGATAACCC
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCC
* *
1536523 TTCTTGCCTTGAGCT
66 TTCTAGCCTTGAGTT
* * * *
1536538 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACACGAAGGTCTTTGGCAGATAGCCC
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCC
*
1536603 TTCTTGCCTTGAGTT
66 TTCTAGCCTTGAGTT
* * *
1536618 ATACT-TCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGCC
1 ATGCTGT-AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACC
* *
1536682 CTTCTTGCCTTGAGCT
65 CTTCTAGCCTTGAGTT
* * *
1536698 ATGCTGT-AATGATGTACATTTGAGTTGAGTGTAATCGAACTCGAAG
1 ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
1536744 TTGAGTGTAA
Statistics
Matches: 1032, Mismatches: 128, Indels: 68
0.84 0.10 0.06
Matches are distributed among these distances:
79 36 0.03
80 445 0.43
81 29 0.03
82 66 0.06
83 379 0.37
84 3 0.00
85 1 0.00
86 3 0.00
87 2 0.00
88 1 0.00
90 57 0.06
92 3 0.00
93 7 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (80 bp):
ATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCC
TTCTAGCCTTGAGTT
Found at i:1535725 original size:368 final size:357
Alignment explanation
Indices: 1535129--1535839 Score: 973
Period size: 368 Copynumber: 2.0 Consensus size: 357
1535119 AATGATGTGT
* * * **
1535129 CTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAACTCTTCTTGCCTTGAGCTATG
1 CTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTACCCTTGAGCTATG
1535194 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTATCGACAGATAACCT
66 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTATCGACAGATAACCT
* * * *
1535259 TCTAGCCTTGAGTTATACTATAAATGATGTGCCTTTGAGCTGATTGTAATCAAATTCGAAGGTCT
131 TCTAGCCTTGAGTTATACTACAAATGATGTGCCCTTGAGATGAATGTAATCAAATTCGAAGGTCT
* *
1535324 TTGATGACAGATAACCTTTCTCACCTTGAGTTATATTATAAATGATGTGACTTTGAGCTGAGTGT
196 TTGATGACAGATAACCCTTCTCACCTTGAGTTATACTATAAATGATGTGACTTTGAGCTGAGTGT
* *
1535389 AATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCCATGCTGCAAATGATGTGC
261 AATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCCATGCTGCAAATGATATAC
1535454 CTTTGAGCTGAGTGTAATGCTGCAAATGATGC
326 CTTTGAGCTGAGTGTAATGCTGCAAATGATGC
*
1535486 CTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTACCCTTGAGTT
1 CTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTG--G-CAGATAACCCTTCTACCCTTGAGCT
* * * * *
1535551 ATGCTGTAAATGATGTGTCTTTGAGCTGAGTGTAATTGAACTCCAAGGTC-TT-T-GGCAGATAA
63 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTATCGACAGATAA
* * *
1535613 CCCTTCTTGCCTTGAGTTTCCTTGAGTTATGCTGCAAATGATGTGCCCTTGAGATGAATGTATTC
128 --C--CTT--C-T-AG---CCTTGAGTTATACTACAAATGATGTGCCCTTGAGATGAATGTAATC
* * *
1535678 GAAA-TCGAAGGTCTTTGTTGACAGATAACCCTTCT-AGTCTTGAGTTATACTGTAAATGATGTG
182 -AAATTCGAAGGTCTTTGATGACAGATAACCCTTCTCA-CCTTGAGTTATACTATAAATGATGTG
* * ** *
1535741 CCTTTGAGCTGAGTGTAATCGAACTCGAATGTCTTTGGCAGATTGCCCTTCTTGCCTTGAGCTAT
245 ACTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCCAT
1535806 GCTGCAAATGATATACCTTTGAGCTGAGTGTAAT
310 GCTGCAAATGATATACCTTTGAGCTGAGTGTAAT
1535840 CGAACTCGAA
Statistics
Matches: 308, Mismatches: 30, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
357 43 0.14
358 1 0.00
359 4 0.01
360 66 0.21
361 3 0.01
363 1 0.00
364 1 0.00
365 2 0.01
367 1 0.00
368 183 0.59
369 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (357 bp):
CTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTACCCTTGAGCTATG
CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTATCGACAGATAACCT
TCTAGCCTTGAGTTATACTACAAATGATGTGCCCTTGAGATGAATGTAATCAAATTCGAAGGTCT
TTGATGACAGATAACCCTTCTCACCTTGAGTTATACTATAAATGATGTGACTTTGAGCTGAGTGT
AATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCCATGCTGCAAATGATATAC
CTTTGAGCTGAGTGTAATGCTGCAAATGATGC
Found at i:1535902 original size:163 final size:163
Alignment explanation
Indices: 1535470--1536743 Score: 1620
Period size: 163 Copynumber: 7.8 Consensus size: 163
1535460 GCTGAGTGTA
*
1535470 ATGCTGCAAATGA--TGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGTTGACAGATAA
1 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
* * * *
1535533 CCCTTCTACCCTTGAGTTATGCTGTAAATGATGTGTCTTTGAGCTGAGTGTAATTGAACTCCAAG
66 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
1535598 GTCTTTGGCAGATAACCCTTCTTGCCTTGAGTTTCCTTGAGTT
131 GTCTTTGGCAGATAACCCTTCTTGCCTTGAG----C------T
* * * * *
1535641 ATGCTGCAAATGATGTGCCCTTGAGATGAATGTATTCGAAATCGAAGGTCTTTGTTGACAGATAA
1 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
* * *
1535706 CCCTTCTAGTCTTGAGTTATACTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAT
66 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
**
1535771 GTCTTTGGCAGATTGCCCTTCTTGCCTTGAGCT
131 GTCTTTGGCAGATAACCCTTCTTGCCTTGAGCT
* *
1535804 ATGCTGCAAATGATATACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
1 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
* * *
1535869 CCCTTCTAGACTTGAGTTATGTTTTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
66 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * * *
1535934 GTCTTTGGTAGATAGCCCTTCTTGGCTTGAACT
131 GTCTTTGGCAGATAACCCTTCTTGCCTTGAGCT
* * *
1535967 TTACTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTGTTGACAGATAA
1 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
* * * * *
1536031 ACCTTCTAGCATTGAGTTATACTGTAAATGATGTGCTTTTGAGTTGAGTGTAATCGAACTCGAAG
66 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
*
1536096 GTCTTTGGCAGATAACCCTTCTTACCTTGAGCT
131 GTCTTTGGCAGATAACCCTTCTTGCCTTGAGCT
* * * * *
1536129 ATGCGGCAAAAGACGTGTCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTG--G-CAGATAA
1 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
* * * *
1536191 CCCTTTTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
66 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * *
1536256 GTCTTTGTTGACAGATAACCCTTATAGCCTTGAGTT
131 GTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGCT
* * *
1536292 ATGTTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTTACAGATAA
1 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
* **
1536357 CCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCTTTGAGCTGAGTGTAATAAAACTCGAAG
66 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * ** *
1536422 GTCTTTGATGACAGGTAACCTTTCTCACCTTGAGTT
131 GTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGCT
* *** *
1536458 ATACTATTAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTG--G-CAGATAA
1 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
* * * * *
1536520 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACACGAAG
66 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* *
1536585 GTCTTTGGCAGATAGCCCTTCTTGCCTTGAGTT
131 GTCTTTGGCAGATAACCCTTCTTGCCTTGAGCT
* * * *
1536618 ATACTTCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTG--G-CAGATAG
1 ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
* * * * *
1536680 CCCTTCTTGCCTTGAGCTATGCTGT-AATGATGTACATTTGAGTTGAGTGTAATCGAACTCGAAG
66 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
1536744 TTGAGTGTAA
Statistics
Matches: 976, Mismatches: 118, Indels: 30
0.87 0.10 0.03
Matches are distributed among these distances:
159 34 0.03
160 170 0.17
161 2 0.00
162 144 0.15
163 337 0.35
166 144 0.15
169 1 0.00
171 13 0.01
173 131 0.13
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (163 bp):
ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAA
CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
GTCTTTGGCAGATAACCCTTCTTGCCTTGAGCT
Found at i:1536747 original size:22 final size:22
Alignment explanation
Indices: 1536720--1536765 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
1536710 TGTACATTTG
1536720 AGTTGAGTGTAATCGAACTCGA
1 AGTTGAGTGTAATCGAACTCGA
1536742 AGTTGAGTGTAATCGAACTCGA
1 AGTTGAGTGTAATCGAACTCGA
1536764 AG
1 AG
1536766 GTCTTTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (22 bp):
AGTTGAGTGTAATCGAACTCGA
Found at i:1536806 original size:104 final size:101
Alignment explanation
Indices: 1536644--1536846 Score: 309
Period size: 104 Copynumber: 2.0 Consensus size: 101
1536634 GCCTTTGAGC
* *
1536644 TGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGT-AAT
1 TGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAAT
1536708 GATGTACATTTGAGTTGAGTGTAATCGAACTCGAAGT
66 GATGTACATTTGAGTTGAGTG-AATCGAACTCGAAGT
* *
1536745 TGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
1 TGAGTGTAATCAAACTCGAAGGTCTTTG--G-CAGATAACCCTTCTAGCCTTGAGCTATGCTGTA
* *
1536810 AATGATGTGCCTTTGAGTTGAGTGAATCGAACTCGAA
63 AATGATGTACATTTGAGTTGAGTGAATCGAACTCGAA
1536847 TGTCTTTGGC
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
101 27 0.29
103 1 0.01
104 42 0.46
105 22 0.24
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (101 bp):
TGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAAT
GATGTACATTTGAGTTGAGTGAATCGAACTCGAAGT
Found at i:1537082 original size:80 final size:80
Alignment explanation
Indices: 1536745--1537533 Score: 845
Period size: 80 Copynumber: 9.7 Consensus size: 80
1536735 AACTCGAAGT
* * *
1536745 TGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
1 TGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGCTATGCTGCA
*
1536810 AATGATGTGCCTTTGAGT
63 AATGATGTGCCTTTGAGC
* * *
1536828 TGAGTG-AATCGAACTCGAATGTCTTTGGC-GAATAACCCTTCTTGCCTTAAGCTATACTGCAAA
1 TGAGTGTAATCGAACTCGAAGGTCTTTGGCAG-ATAACCCTTCTTGCCTTGAGCTATGCTGCAAA
*
1536891 TGA--TACCTTTGAGC
65 TGATGTGCCTTTGAGC
* * * ** * * *
1536905 TGAATGTAATCAAACTCGAA-GTCTTTATTGACAGATAA-CCTT-TTAATCTTGAGTTATACTGT
1 TGAGTGTAATCGAACTCGAAGGTC--T-TTGGCAGATAACCCTTCTT-GCCTTGAGCTATGCTGC
*
1536967 AAATAATGTGCCTTTGAGC
62 AAATGATGTGCCTTTGAGC
* * * *
1536986 TGAATGTCATCGAACTCGAATGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAAT
1 TGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAAT
* *
1537051 GATGTACCTTTGAGT
66 GATGTGCCTTTGAGC
* * * * * * *
1537066 TGTGTGTAATCAAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTA
1 TGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGCTATGCTGCA
*
1537131 AATGATGTGCCTTTGAGA
63 AATGATGTGCCTTTGAGC
* * * *
1537149 TGAGTGTAATCTAACTCGAAGGTCTTTGGCAGATAACCCTTATTGCCTTGAACTTTGCTGCAAAT
1 TGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAAT
*
1537214 GATGTGCCTTTGAGG
66 GATGTGCCTTTGAGC
* ** * * * * *
1537229 TGAGTGTAATCGAACTCGAATGTGTTTTTTTACAGATAAACCTTCTAGCATTGAGTTATGCTGTA
1 TGAGTGTAATCGAACTCGAA-G-G-TCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCA
1537294 AATGATGTGCCTTTGAGC
63 AATGATGTGCCTTTGAGC
* ***
1537312 TGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGTTCTTCTTGCCTTGAGCTATGCTGCAAAT
1 TGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAAT
*
1537377 GATGTACCTTTGAGC
66 GATGTGCCTTTGAGC
* * * * *
1537392 TGAATGGAATCGAACTCGAAGGTCTTTGGCAGAGAACCCTTCTTACCTTGAGCTATGATGCAAAT
1 TGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAAT
*
1537457 GATGTACCTTTGAGC
66 GATGTGCCTTTGAGC
* * * *
1537472 TGAGCGTAATCGAACTCGAAAGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCT
1 TGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGCTATGCT
1537534 ATAAATAGTT
Statistics
Matches: 588, Mismatches: 97, Indels: 42
0.81 0.13 0.06
Matches are distributed among these distances:
77 17 0.03
78 15 0.03
79 62 0.11
80 267 0.45
81 34 0.06
82 27 0.05
83 166 0.28
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (80 bp):
TGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAAT
GATGTGCCTTTGAGC
Found at i:1537176 original size:163 final size:163
Alignment explanation
Indices: 1536745--1537533 Score: 1022
Period size: 163 Copynumber: 4.9 Consensus size: 163
1536735 AACTCGAAGT
1536745 TGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
1 TGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
* *
1536810 AATGATGTGCCTTTGAGTTGAGTG-AATCGAACTCGAATGTCTTTGGC-GAATAACCCTTCTTGC
66 AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG-ATAACCCTTCTTGC
* *
1536873 CTTAAGCTATACTGCAAATGA--TACCTTTGAGC
130 CTTGAGCTATGCTGCAAATGATGTACCTTTGAGC
* * * * ** *
1536905 TGAATGTAATCAAACTCGAA-GTCTTTATTGACAGATAA-CCTTTTAATCTTGAGTTATACTGTA
1 TGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
* * * * *
1536968 AATAATGTGCCTTTGAGCTGAATGTCATCGAACTCGAATGTCTTTGGCAGATAGCCCTTCTTGCC
66 AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCC
*
1537033 TTGAGCTATGCTGCAAATGATGTACCTTTGAGT
131 TTGAGCTATGCTGCAAATGATGTACCTTTGAGC
* * * *
1537066 TGTGTGTAATCAAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTA
1 TGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
* * *
1537131 AATGATGTGCCTTTGAGATGAGTGTAATCTAACTCGAAGGTCTTTGGCAGATAACCCTTATTGCC
66 AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCC
* * * *
1537196 TTGAACTTTGCTGCAAATGATGTGCCTTTGAGG
131 TTGAGCTATGCTGCAAATGATGTACCTTTGAGC
* * * * * *
1537229 TGAGTGTAATCGAACTCGAATGTGTTTTTTTACAGATAAACCTTCTAGCATTGAGTTATGCTGTA
1 TGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
* ***
1537294 AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGTTCTTCTTGCC
66 AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCC
1537359 TTGAGCTATGCTGCAAATGATGTACCTTTGAGC
131 TTGAGCTATGCTGCAAATGATGTACCTTTGAGC
* * * * * *
1537392 TGAATGGAATCGAACTCGAAGGTCTTTG--G-CAGAGAACCCTTCTTA-CCTTGAGCTATGATGC
1 TGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTC-TAGCCTTGAGTTATGCTGT
* * *
1537453 AAATGATGTACCTTTGAGCTGAGCGTAATCGAACTCGAAAGTCTTTGTTGACAGATAACCCTTCT
65 AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAACCCTTCT
* *
1537518 AGCCTTGAGTTATGCT
127 TGCCTTGAGCTATGCT
1537534 ATAAATAGTT
Statistics
Matches: 541, Mismatches: 78, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
158 42 0.08
159 71 0.13
160 86 0.16
161 29 0.05
162 18 0.03
163 295 0.55
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (163 bp):
TGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCC
TTGAGCTATGCTGCAAATGATGTACCTTTGAGC
Found at i:1537379 original size:243 final size:240
Alignment explanation
Indices: 1536745--1537539 Score: 951
Period size: 243 Copynumber: 3.3 Consensus size: 240
1536735 AACTCGAAGT
1536745 TGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
1 TGAGTGTAATCGAACTCGAA-GTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
*
1536810 AATGATGTGCCTTTGAGTTGAGTG-AATCGAACTCGAATGTCTTTGGCGAATAACCCTTCTTGCC
65 AATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGGC-AATAACCCTTCTTGCC
* * *
1536874 TTAAGCTATACTGCAAATGA--TACCTTTGAGCTGAATGTAATCAAACTCGAA-GTCTTTATTGA
129 TTGAGCTATGCTGCAAATGATGTACCTTTGAGCTGAATGTAATCAAACTCGAAGGTC--T-TTGG
* * * * *
1536936 CAGATAA-CCTTTTAATCTTG-AGTTATACTGTAAATAATGTGCCTTTGAGC
191 CAGATAACCCTTTT-ACCTTGAACTT-TGCTGCAAATGATGTGCCTTTGAGC
* * * * * *
1536986 TGAATGTCATCGAACTCGAATGTCTTTG--G-CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCA
1 TGAGTGTAATCGAACTCGAA-GTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
* * * * *
1537048 AATGATGTACCTTTGAGTTGTGTGTAATCAAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTA
65 AATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CA-ATAACCCTTCTT
* * * * * * *
1537113 GCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGATGAGTGTAATCTAACTCGAAGGTCTTTGG
126 GCCTTGAGCTATGCTGCAAATGATGTACCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTGG
* *
1537178 CAGATAACCCTTATTGCCTTGAACTTTGCTGCAAATGATGTGCCTTTGAGG
191 CAGATAACCCTT-TTACCTTGAACTTTGCTGCAAATGATGTGCCTTTGAGC
* * * * *
1537229 TGAGTGTAATCGAACTCGAATGTGTTTTTTTACAGATAAACCTTCTAGCATTGAGTTATGCTGTA
1 TGAGTGTAATCGAACTCGAA-GTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
* ***
1537294 AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCATATAGTTCTTCTTGCC
65 AATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGGCA-ATAACCCTTCTTGCC
* *
1537359 TTGAGCTATGCTGCAAATGATGTACCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTTGGCAG
129 TTGAGCTATGCTGCAAATGATGTACCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTGGCAG
* * * * *
1537424 AGAACCCTTCTTACCTTGAGCTATGATGCAAATGATGTACCTTTGAGC
194 ATAACCCTT-TTACCTTGAACTTTGCTGCAAATGATGTGCCTTTGAGC
* *
1537472 TGAGCGTAATCGAACTCGAAAGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTATA
1 TGAGTGTAATCGAACTCG-AAGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
1537537 AAT
65 AAT
1537540 AGTTTCTTTT
Statistics
Matches: 465, Mismatches: 74, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
238 51 0.11
239 19 0.04
241 27 0.06
242 40 0.09
243 222 0.48
244 35 0.08
245 3 0.01
246 68 0.15
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (240 bp):
TGAGTGTAATCGAACTCGAAGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAA
ATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGGCAATAACCCTTCTTGCCTT
GAGCTATGCTGCAAATGATGTACCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTGGCAGAT
AACCCTTTTACCTTGAACTTTGCTGCAAATGATGTGCCTTTGAGC
Found at i:1543535 original size:29 final size:29
Alignment explanation
Indices: 1543478--1543535 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1543468 GTATTGGCCG
* *
1543478 TAGGTCGCCATGCCTTCCGGGTGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
1543507 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
1543536 AAGAGATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.34, G:0.28, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:1543599 original size:14 final size:14
Alignment explanation
Indices: 1543580--1543619 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
1543570 CTGGGCATCT
1543580 GAGGCCATCCGACC
1 GAGGCCATCCGACC
*
1543594 GAGGCCATCCTACC
1 GAGGCCATCCGACC
1543608 GAGGCCATCCGA
1 GAGGCCATCCGA
1543620 GAGCATCCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.40, G:0.28, T:0.10
Consensus pattern (14 bp):
GAGGCCATCCGACC
Found at i:1543631 original size:20 final size:21
Alignment explanation
Indices: 1543606--1543663 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
1543596 GGCCATCCTA
1543606 CCGAGGCCATCCGAGAGC-AT
1 CCGAGGCCATCCGAGAGCTAT
1543626 CCGAGGCCATCCGAACGAGCTAT
1 CCGAGGCCATCCG-A-GAGCTAT
* *
1543649 GCGAGGGCATCCGAG
1 CCGAGGCCATCCGAG
1543664 GGCAACCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 13 0.39
21 2 0.06
22 5 0.15
23 13 0.39
ACGTcount: A:0.24, C:0.33, G:0.33, T:0.10
Consensus pattern (21 bp):
CCGAGGCCATCCGAGAGCTAT
Found at i:1543664 original size:33 final size:32
Alignment explanation
Indices: 1543592--1543697 Score: 113
Period size: 33 Copynumber: 3.2 Consensus size: 32
1543582 GGCCATCCGA
* * * *
1543592 CCGAGGCCATCCTACCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCC-AACGA-GCTATGCGAGGGCAT
1543626 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGCCATCC-AACGAGCTATGCGAGGGCAT
* * *
1543659 CCGAGGGCAACCAAGCGAGCTATGCGAGGGAAT
1 CCGAGGCCATCCAA-CGAGCTATGCGAGGGCAT
1543692 CCGAGG
1 CCGAGG
1543698 GAAGCCGAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
32 2 0.03
33 45 0.71
34 16 0.25
ACGTcount: A:0.25, C:0.31, G:0.33, T:0.10
Consensus pattern (32 bp):
CCGAGGCCATCCAACGAGCTATGCGAGGGCAT
Found at i:1543665 original size:10 final size:10
Alignment explanation
Indices: 1543606--1543667 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
1543596 GGCCATCCTA
*
1543606 CCGAGGCCAT
1 CCGAGGGCAT
*
1543616 CCGAGAGCAT
1 CCGAGGGCAT
*
1543626 CCGAGGCCAT
1 CCGAGGGCAT
*
1543636 CCGAACGAGCTAT
1 CCG-A-GGGC-AT
*
1543649 GCGAGGGCAT
1 CCGAGGGCAT
1543659 CCGAGGGCA
1 CCGAGGGCA
1543668 ACCAAGCGAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
10 29 0.73
11 4 0.10
12 3 0.08
13 4 0.10
ACGTcount: A:0.24, C:0.32, G:0.34, T:0.10
Consensus pattern (10 bp):
CCGAGGGCAT
Found at i:1543709 original size:33 final size:33
Alignment explanation
Indices: 1543624--1543710 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 33
1543614 ATCCGAGAGC
* * * *
1543624 ATCCGAGGCCATCCGAACGAGCTATGCGAGGGC
1 ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
*
1543657 ATCCGAGGGCAACCAAGCGAGCTATGCGAGGGA
1 ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
1543690 ATCCGAGGG-AAGCCGAGCGAG
1 ATCCGAGGGCAA-CCGAGCGAG
1543711 GGTAGGTCGC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 2 0.04
33 45 0.96
ACGTcount: A:0.28, C:0.26, G:0.37, T:0.09
Consensus pattern (33 bp):
ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
Found at i:1543747 original size:29 final size:29
Alignment explanation
Indices: 1543714--1543798 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
1543704 GAGCGAGGGT
* *
1543714 AGGTCGCCTGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
1543743 AGGTCGCCCGGAGGGCATGGCAACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
1543772 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
1543799 TGTGTTGGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.21, C:0.29, G:0.36, T:0.13
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:1550793 original size:16 final size:17
Alignment explanation
Indices: 1550767--1550798 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1550757 TATTAAGTTA
1550767 TATTAAAAGTTTTTAAT
1 TATTAAAAGTTTTTAAT
1550784 TATT-AAAGTTTTTAA
1 TATTAAAAGTTTTTAA
1550799 AATTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TATTAAAAGTTTTTAAT
Found at i:1550803 original size:15 final size:16
Alignment explanation
Indices: 1550772--1550804 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1550762 AGTTATATTA
*
1550772 AAAGTTTTTAATTATT
1 AAAGTTTTTAATAATT
1550788 AAAGTTTTTAA-AATT
1 AAAGTTTTTAATAATT
1550803 AA
1 AA
1550805 TAAATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
AAAGTTTTTAATAATT
Found at i:1576250 original size:17 final size:19
Alignment explanation
Indices: 1576204--1576243 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1576194 AATATTGAAT
* *
1576204 TTTAAGATTTTATATTCGA
1 TTTAAAATTATATATTCGA
1576223 TTTAAAATTATATATTCGA
1 TTTAAAATTATATATTCGA
1576242 TT
1 TT
1576244 AAATTATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (19 bp):
TTTAAAATTATATATTCGA
Found at i:1577902 original size:19 final size:19
Alignment explanation
Indices: 1577858--1577902 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1577848 AAGCTTGGAA
* *
1577858 ATCGAAAAAGACGGCGATC
1 ATCGAAGAAGACGACGATC
1577877 ATCGAAGAAGACGACGATC
1 ATCGAAGAAGACGACGATC
*
1577896 ATTGAAG
1 ATCGAAG
1577903 CTAAAAACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (19 bp):
ATCGAAGAAGACGACGATC
Found at i:1582427 original size:20 final size:20
Alignment explanation
Indices: 1582361--1582437 Score: 84
Period size: 20 Copynumber: 3.6 Consensus size: 20
1582351 CCCCTCGCTA
*
1582361 TGTATCGATACACTATGAATG
1 TGTACCGATACACT-TGAATG
1582382 TGTACCGATACATTCCTTGAATG
1 TGTACCGATACA---CTTGAATG
*
1582405 TGTATCGATACACTT-ACATG
1 TGTACCGATACACTTGA-ATG
1582425 TGTACCGATACAC
1 TGTACCGATACAC
1582438 CCGTCGGGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 1 0.02
20 18 0.37
21 11 0.22
23 17 0.35
24 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (20 bp):
TGTACCGATACACTTGAATG
Found at i:1582858 original size:20 final size:19
Alignment explanation
Indices: 1582826--1582872 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
1582816 AATAAAAAAA
1582826 TGTTTTATTTTTAAA-ATTGT
1 TGTTTT-TTTTTAAATA-TGT
*
1582846 TGTTTTTTATTTAATTATGT
1 TGTTTTTT-TTTAAATATGT
1582866 TGTTTTT
1 TGTTTTT
1582873 ATGAAAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 21 0.88
21 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (19 bp):
TGTTTTTTTTTAAATATGT
Found at i:1582925 original size:12 final size:13
Alignment explanation
Indices: 1582896--1582928 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1582886 GTATAATGAT
*
1582896 TTTTCAAACATTG
1 TTTTCAAACATAG
1582909 TTTTCAAA-ATAG
1 TTTTCAAACATAG
1582921 TTTTCAAA
1 TTTTCAAA
1582929 TTTTGCCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:1584497 original size:13 final size:13
Alignment explanation
Indices: 1584479--1584503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1584469 CCCAATTTAC
1584479 ATATTGTTTATGA
1 ATATTGTTTATGA
1584492 ATATTGTTTATG
1 ATATTGTTTATG
1584504 GACTAATGAC
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:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (13 bp):
ATATTGTTTATGA
Found at i:1585243 original size:22 final size:22
Alignment explanation
Indices: 1585184--1585244 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
1585174 TTTTACACTG
*
1585184 AGTGTA-CCGATACACATTGAT
1 AGTGTACCCGATACACCTTGAT
1585205 AGTGTACCCGATACACCTTGAT
1 AGTGTACCCGATACACCTTGAT
1585227 AGTGTACCCGATACACCT
1 AGTGTACCCGATACACCT
1585245 ACGCTCTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 6 0.16
22 32 0.84
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (22 bp):
AGTGTACCCGATACACCTTGAT
Found at i:1587147 original size:131 final size:132
Alignment explanation
Indices: 1586912--1587175 Score: 521
Period size: 131 Copynumber: 2.0 Consensus size: 132
1586902 TTACCGAGCA
1586912 TGATTGTTGAAGTATAATACTGCATAAACTTTCCAATAAAATTGCCCAATTGAGTTGCAACTCCT
1 TGATTGTTGAAGTATAATACTGCATAAACTTTCCAATAAAATTGCCCAATTGAGTTGCAACTCCT
1586977 TCAAAGACAAATCCTACTGTTAAATCTTCAATTTGGACCCAAAAATCCATTGTTTGAAGATGAAC
66 TCAAAGACAAATCCTACTGTTAAATCTTCAATTTGGACCCAAAAATCCATTGTTTGAAGATGAAC
1587042 AG
131 AG
1587044 TGATTGTTGAAGTATAATACTGCATAAACTTTCCAAT-AAATTGCCCAATTGAGTTGCAACTCCT
1 TGATTGTTGAAGTATAATACTGCATAAACTTTCCAATAAAATTGCCCAATTGAGTTGCAACTCCT
1587108 TCAAAGACAAATCCTACTGTTAAATCTTCAATTTGGACCCAAAAATCCATTGTTTGAAGATGAAC
66 TCAAAGACAAATCCTACTGTTAAATCTTCAATTTGGACCCAAAAATCCATTGTTTGAAGATGAAC
1587173 AG
131 AG
1587175 T
1 T
1587176 TTTTGTGTCA
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
131 95 0.72
132 37 0.28
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (132 bp):
TGATTGTTGAAGTATAATACTGCATAAACTTTCCAATAAAATTGCCCAATTGAGTTGCAACTCCT
TCAAAGACAAATCCTACTGTTAAATCTTCAATTTGGACCCAAAAATCCATTGTTTGAAGATGAAC
AG
Found at i:1587623 original size:18 final size:17
Alignment explanation
Indices: 1587584--1587635 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
1587574 AACATAACAA
* *
1587584 TAAAACCCTAAATAAGG
1 TAAAACCTTAAAGAAGG
*
1587601 CAAAACCTTATAAGAAGG
1 TAAAACCTTA-AAGAAGG
1587619 TAAAAACCTTAAGAGAA
1 T-AAAACCTTAA-AGAA
1587636 AAAGGGCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 8 0.29
18 7 0.25
19 13 0.46
ACGTcount: A:0.54, C:0.15, G:0.13, T:0.17
Consensus pattern (17 bp):
TAAAACCTTAAAGAAGG
Found at i:1588355 original size:24 final size:23
Alignment explanation
Indices: 1588328--1588373 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1588318 TAATCTGGTC
1588328 ATTATTAAATTGAATTTTATTTTA
1 ATTATT-AATTGAATTTTATTTTA
**
1588352 ATTATTAATTTTATTTTATTTT
1 ATTATTAATTGAATTTTATTTT
1588374 GCATCCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTATTAATTGAATTTTATTTTA
Found at i:1588727 original size:27 final size:27
Alignment explanation
Indices: 1588687--1588757 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
1588677 AGTGTTTTAC
* *
1588687 TAACAAAGCTGGTAAAACACCCAATAA
1 TAACAAAACCGGTAAAACACCCAATAA
* *
1588714 TAACAAAACCGGTAAAACATCTAATAA
1 TAACAAAACCGGTAAAACACCCAATAA
*
1588741 TAACAAAATCGGTAAAA
1 TAACAAAACCGGTAAAA
1588758 ATAATAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.55, C:0.18, G:0.10, T:0.17
Consensus pattern (27 bp):
TAACAAAACCGGTAAAACACCCAATAA
Found at i:1588762 original size:24 final size:26
Alignment explanation
Indices: 1588687--1588765 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
1588677 AGTGTTTTAC
* * *
1588687 TAACAAAGCTGGTAAAACACCCAATAA
1 TAACAAAACCGGTAAAACA-CTAATAA
1588714 TAACAAAACCGGTAAAACATCTAATAA
1 TAACAAAACCGGTAAAACA-CTAATAA
*
1588741 TAACAAAATCGGTAAAA-A-TAATAA
1 TAACAAAACCGGTAAAACACTAATAA
1588765 T
1 T
1588766 GTTTTCGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
24 7 0.15
26 1 0.02
27 39 0.83
ACGTcount: A:0.56, C:0.16, G:0.09, T:0.19
Consensus pattern (26 bp):
TAACAAAACCGGTAAAACACTAATAA
Found at i:1589714 original size:19 final size:19
Alignment explanation
Indices: 1589662--1589716 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
1589652 ATACTCAAAA
*
1589662 TAAATTTATTTT-ATGAATT
1 TAAA-TTATTTTAATTAATT
* *
1589681 TAATATTA-ATAAATTAATT
1 TAA-ATTATTTTAATTAATT
1589700 TAAATTATTTTAATTAA
1 TAAATTATTTTAATTAA
1589717 AATATTAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
18 5 0.18
19 22 0.79
20 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TAAATTATTTTAATTAATT
Found at i:1589775 original size:23 final size:23
Alignment explanation
Indices: 1589749--1589795 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1589739 AAAATATATT
1589749 TATTAATATTTCT-AATAATATAA
1 TATT-ATATTTCTAAATAATATAA
* *
1589772 TATTATATTTTTAAATATTATAA
1 TATTATATTTCTAAATAATATAA
1589795 T
1 T
1589796 GAAATAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTATATTTCTAAATAATATAA
Found at i:1589777 original size:26 final size:24
Alignment explanation
Indices: 1589713--1589777 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
1589703 ATTATTTTAA
1589713 TTAAAATAT-TAATTATTAAAATAT
1 TTAAAATATAT-ATTATTAAAATAT
*
1589737 TTAAAATATAT-TTATTAATAT-T
1 TTAAAATATATATTATTAAAATAT
1589759 TCTAATAATATAATATTAT
1 T-TAA-AATAT-ATATTAT
1589778 ATTTTTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.06
23 12 0.34
24 14 0.40
25 3 0.09
26 4 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TTAAAATATATATTATTAAAATAT
Found at i:1589956 original size:27 final size:27
Alignment explanation
Indices: 1589876--1589967 Score: 73
Period size: 27 Copynumber: 3.3 Consensus size: 27
1589866 AATTAAGTTT
* *
1589876 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
1589903 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
1589930 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
*
1589959 ATAATATTT
1 ATATTATTT
1589968 TAATAAAGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
25 1 0.02
26 7 0.14
27 19 0.37
28 12 0.24
29 12 0.24
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:1590129 original size:27 final size:25
Alignment explanation
Indices: 1590099--1590179 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 25
1590089 TTATAAAATT
1590099 ATATTTTAATAATAAATAATTATTTTA
1 ATATTTTAATAATAAATAATTA--TTA
*
1590126 ATATTTTAAAAAT-AATAA-TATTA
1 ATATTTTAATAATAAATAATTATTA
*
1590149 A-ATTTT-ATTATAAATAA-TATTA
1 ATATTTTAATAATAAATAATTATTA
*
1590171 TTTATTTTA
1 -ATATTTTA
1590180 TTTAATATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
21 3 0.07
22 15 0.33
23 4 0.09
24 5 0.11
25 2 0.04
26 5 0.11
27 12 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATATTTTAATAATAAATAATTATTA
Found at i:1590138 original size:23 final size:22
Alignment explanation
Indices: 1590112--1590155 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1590102 TTTTAATAAT
* *
1590112 AAATAATTATTTTAATATTTTAA
1 AAATAATAATATTAA-ATTTTAA
1590135 AAATAATAATATTAAATTTTA
1 AAATAATAATATTAAATTTTA
1590156 TTATAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAATATTAAATTTTAA
Found at i:1590281 original size:36 final size:36
Alignment explanation
Indices: 1590240--1590325 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
1590230 AATTTTAAAT
*
1590240 AATATTTTTCAAATATCATA-AA-ACATTTTATAAAAA
1 AATATTTTTCAAA-A-CATATAATACATTTTACAAAAA
*
1590276 AATATTTTTCAAAACATATAATTCATTTTACAAAAA
1 AATATTTTTCAAAACATATAATACATTTTACAAAAA
1590312 AATATTTTTCAAAA
1 AATATTTTTCAAAA
1590326 AACTTTTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 4 0.09
35 3 0.07
36 39 0.85
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (36 bp):
AATATTTTTCAAAACATATAATACATTTTACAAAAA
Found at i:1599164 original size:206 final size:206
Alignment explanation
Indices: 1598810--1599220 Score: 669
Period size: 206 Copynumber: 2.0 Consensus size: 206
1598800 TCTGCAGTGG
* **
1598810 TGGAAGCTTGAAAGTCAGGGTTCTTGATGGTTTTCGTCCACGTCTGAATAGAGTGGCCTGTTAGT
1 TGGAAGCTTGAAAGTCAGGGTTCTTGATGGTTTTCGACCACGTCCAAATAGAGTGGCCTGTTAGT
* * *
1598875 TTCTGGTTCAGTTGATTGGGCAGCCTTGAATAGGGAATTCGTTTTCTGGGTATAGAATTGAAGAC
66 TTCTGGTTCAGTTGATTAGGCAGCCTTGAATAGGGAATCCATTTTCTGGGTATAGAATTGAAGAC
* *
1598940 CCCCACATAATGGTAGTGGAAGTGTCGTGAATGTTTCTATAGTGTTCACTGCTAGGTGTTAGATT
131 CACCACATAATGGTAGTGGAAGTGTCATGAATGTTTCTATAGTGTTCACTGCTAGGTGTTAGATT
1599005 TGGTATCTTGT
196 TGGTATCTTGT
* * *
1599016 TGGAAGCTTGAAAGTCAGGGTTCTTGTTGGTTTTTGACCACGTCCAAATAGGGTGGCCTGTTAGT
1 TGGAAGCTTGAAAGTCAGGGTTCTTGATGGTTTTCGACCACGTCCAAATAGAGTGGCCTGTTAGT
*
1599081 TTCTGGTTTAGTTGATTAGGCAGCCTTGAATAGGGAATCCATTTTCTGGGTATAGAATTGAAGAC
66 TTCTGGTTCAGTTGATTAGGCAGCCTTGAATAGGGAATCCATTTTCTGGGTATAGAATTGAAGAC
* * * *
1599146 CACCGCATAATGGTAGTGGAAGTGTCATGAATGTTTTTGTAGTGTTCATTGCTAGGTGTTAGATT
131 CACCACATAATGGTAGTGGAAGTGTCATGAATGTTTCTATAGTGTTCACTGCTAGGTGTTAGATT
*
1599211 TGGTGTCTTG
196 TGGTATCTTG
1599221 CATGTGTATG
Statistics
Matches: 188, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
206 188 1.00
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (206 bp):
TGGAAGCTTGAAAGTCAGGGTTCTTGATGGTTTTCGACCACGTCCAAATAGAGTGGCCTGTTAGT
TTCTGGTTCAGTTGATTAGGCAGCCTTGAATAGGGAATCCATTTTCTGGGTATAGAATTGAAGAC
CACCACATAATGGTAGTGGAAGTGTCATGAATGTTTCTATAGTGTTCACTGCTAGGTGTTAGATT
TGGTATCTTGT
Found at i:1605038 original size:25 final size:26
Alignment explanation
Indices: 1604982--1605039 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
1604972 AATAAGTTAC
* *
1604982 TATAAATGATTTTTAATATTATAATT
1 TATAAATGATTTTTAATAATATAATA
*
1605008 TTTAAAT-ATTTTTAAATAAT-TAATA
1 TATAAATGATTTTT-AATAATATAATA
1605033 TATAAAT
1 TATAAAT
1605040 TACTTGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TATAAATGATTTTTAATAATATAATA
Found at i:1607280 original size:18 final size:18
Alignment explanation
Indices: 1607257--1607294 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1607247 CTTTTAAGAA
1607257 ATATGA-TTATAAAGTAGT
1 ATATGAGTT-TAAAGTAGT
*
1607275 ATATGAGTTTAAAGTTGT
1 ATATGAGTTTAAAGTAGT
1607293 AT
1 AT
1607295 TTAGACCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (18 bp):
ATATGAGTTTAAAGTAGT
Done.