Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold475
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: 1773841
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 4 of 12
Found at i:596139 original size:19 final size:20
Alignment explanation
Indices: 596115--596164 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
596105 ATACATTGTG
596115 TCGATACAAAACT-TATGTA
1 TCGATACAAAACTGTATGTA
** *
596134 TCGATACATTTACTGTTTGTA
1 TCGATACA-AAACTGTATGTA
596155 TCGATACAAA
1 TCGATACAAA
596165 TAATAGAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 8 0.33
20 3 0.12
21 13 0.54
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (20 bp):
TCGATACAAAACTGTATGTA
Found at i:596534 original size:20 final size:21
Alignment explanation
Indices: 596511--596556 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
596501 TCCAGTATTG
*
596511 ATACATTCACTT-ATGTATCA
1 ATACATTAACTTGATGTATCA
*
596531 ATACATTAACTTGTTGTATCA
1 ATACATTAACTTGATGTATCA
596552 ATACA
1 ATACA
596557 AAATATAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (21 bp):
ATACATTAACTTGATGTATCA
Found at i:598586 original size:79 final size:77
Alignment explanation
Indices: 598430--598645 Score: 245
Period size: 79 Copynumber: 2.7 Consensus size: 77
598420 ACGGGGCTAA
* * * *
598430 AGTATCCCCGATTATGGAAAATCGGTGTTCT-AGAAATAAAAATCGGGGTTGGAGTTTCCCCTCA
1 AGTATCCCTGATTAT-GAAAATCGGTGTTTTGA-AAAT-AAAATC-GGGTTGGAGTATCCCCGCA
598494 AAAATAACAGGGTTGG
62 AAAATAACAGGGTTGG
* * **
598510 AGTATCCCTGATTATAGAAAATCAGTATTTTGAAAATAAAATCAGGGTTGGAGTATCTTCGCAAA
1 AGTATCCCTGATTAT-GAAAATCGGTGTTTTGAAAATAAAATC-GGGTTGGAGTATCCCCGCAAA
*
598575 AATAACGGGGTTGG
64 AATAACAGGGTTGG
* * *
598589 AGTATCCCTGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATC
1 AGTATCCCTGATTATGA-AAATCGGTGTTTTGAAAATAAAATCGG-GTTGGAGTATC
598646 ACCGATTGCA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 4 0.03
79 82 0.70
80 30 0.26
81 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (77 bp):
AGTATCCCTGATTATGAAAATCGGTGTTTTGAAAATAAAATCGGGTTGGAGTATCCCCGCAAAAA
TAACAGGGTTGG
Found at i:598640 original size:51 final size:50
Alignment explanation
Indices: 598584--598698 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 50
598574 AAATAACGGG
** * * *
598584 GTTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCC-GATTGCAAAAAATTGGTATTTTAGAAATAAAATCGGA
*
598635 GTTGGAGTATCACCGATTGCAAAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATC-CCGATTGCAAAAAATTGGTATTTTAGAAATAAAATCGGA
598686 GTTGGAGTATCCC
1 GTTGGAGTATCCC
598699 CTCGGAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 2 0.04
51 53 0.93
52 2 0.04
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (50 bp):
GTTGGAGTATCCCGATTGCAAAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:598908 original size:234 final size:233
Alignment explanation
Indices: 598495--598933 Score: 553
Period size: 234 Copynumber: 1.9 Consensus size: 233
598485 TTCCCCTCAA
* * * * * *
598495 AAATAACAGGGTTGGAGTATCCCTGATTATAGAAAATCAGTATTTTGAAAATAAAATCAGGGTTG
1 AAATAACAGGGTTGGAGTATCCCCGATTATAAAAAAACAATATTTTCAAAATAAAACCAGGGTTG
* * * *
598560 GAGTATCTTCGCAAAAATAACGGGGTTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGGAAA
66 GAGTATCTTCG-AAAAATAACAGGGTTGGAGTATCCCCGA-T-TGAAAAATTGGTGTTTTGAAAA
* *** * * *
598625 TAAAATCGGAGTTGGAGTATCACCGATTGCAAAAAATTGGTATTTTAGAAATAAAATCGGGGTTG
128 TAAAATCAGAGTTGGAGTATCACCGATTGCAAAAAATCAATACTTTAGAAATAAAATCGGAGTTA
598690 GAGTATCCCCTCGGAATAATGGAATTAGAGTATCCCCGATG
193 GAGTATCCCCTCGGAATAATGGAATTAGAGTATCCCCGATG
* * *
598731 AAATAACCGGGTTGGAGTA-CCCCGATTATGAAAAAAACAATATTTTCAGATATAAAGCCAGGGT
1 AAATAACAGGGTTGGAGTATCCCCGATTAT-AAAAAAACAATATTTTCA-AAATAAAACCAGGGT
*
598795 TGGAGTATCCCTTCG-GAAATAACAGGGTTGGAGTATCCCCGA-TGAAAAATTGGTGTTTTGAAA
64 TGGAGTAT--CTTCGAAAAATAACAGGGTTGGAGTATCCCCGATTGAAAAATTGGTGTTTTGAAA
***
598858 ATAAAATCAGAGTTGGAGTATC-CCTGATTGCGGTAAATCAATACTTTAGAAATAAAATCGGAGT
127 ATAAAATCAGAGTTGGAGTATCACC-GATTGCAAAAAATCAATACTTTAGAAATAAAATCGGAGT
*
598922 TAGAGTCTCCCC
191 TAGAGTATCCCC
598934 GATTAAGAAA
Statistics
Matches: 173, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
233 2 0.01
234 81 0.47
235 9 0.05
236 32 0.18
237 44 0.25
239 5 0.03
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (233 bp):
AAATAACAGGGTTGGAGTATCCCCGATTATAAAAAAACAATATTTTCAAAATAAAACCAGGGTTG
GAGTATCTTCGAAAAATAACAGGGTTGGAGTATCCCCGATTGAAAAATTGGTGTTTTGAAAATAA
AATCAGAGTTGGAGTATCACCGATTGCAAAAAATCAATACTTTAGAAATAAAATCGGAGTTAGAG
TATCCCCTCGGAATAATGGAATTAGAGTATCCCCGATG
Found at i:601583 original size:19 final size:19
Alignment explanation
Indices: 601559--601609 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
601549 TTTCAACGAT
601559 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
601578 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
601597 TTGTATCGATACA
1 TTGTATCGATACA
601610 ATGTATCGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:601700 original size:52 final size:50
Alignment explanation
Indices: 601640--601789 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 50
601630 TGCCAAGAAA
** *
601640 ATGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCTG
1 ATGTATCGATACATTGA--AATGTATCGATACATGCAGGCAAATTTGCCCAG
* *
601692 ATGTATCGATACACTATGAAATGTATCGATTCATACAGGCAAATTTGCCCAG
1 ATGTATCGATACA-T-TGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
601744 ATGTATCGATATACCA-TGAAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCG--ATA-CATTGAAATGTATCGATACATGCAGGCAAATTT
601790 TCATATTTCG
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
52 77 0.90
53 1 0.01
54 6 0.07
55 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (50 bp):
ATGTATCGATACATTGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:608296 original size:32 final size:32
Alignment explanation
Indices: 608241--608373 Score: 194
Period size: 32 Copynumber: 4.1 Consensus size: 32
608231 TTCAACGATT
* * *
608241 TGTATCAATACAGAAAGTGTTGTATCGATCCAA
1 TGTATCGATACA-TAAGTGTTGTATCGATACAA
608274 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
608306 TGTATCGATACCTAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
608338 TGTATCGATACATAAGTTTTGTATCGATACAT
1 TGTATCGATACATAAGTGTTGTATCGATACAA
608370 TGTA
1 TGTA
608374 AGCTACTACC
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
32 82 0.88
33 11 0.12
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:608298 original size:19 final size:18
Alignment explanation
Indices: 608274--608369 Score: 86
Period size: 19 Copynumber: 5.7 Consensus size: 18
608264 ATCGATCCAA
608274 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
608293 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
608306 TGTATCGATACCTAAGTTT
1 TGTATCGATACATAAG-TT
608325 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
608338 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
608357 TGTATCGATACAT
1 TGTATCGATACAT
608370 TGTAAGCTAC
Statistics
Matches: 65, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 35 0.54
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:608311 original size:13 final size:13
Alignment explanation
Indices: 608293--608349 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
608283 ACATAAGTGT
608293 TGTATCGATACAA
1 TGTATCGATACAA
608306 TGTATCGATACCTAA
1 TGTATCGATA-C-AA
608321 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
608338 TGTATCGATACA
1 TGTATCGATACA
608350 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 22 0.58
14 1 0.03
15 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:608429 original size:13 final size:13
Alignment explanation
Indices: 608411--608435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
608401 ATTACTCAAA
608411 TGTATCGATACAT
1 TGTATCGATACAT
608424 TGTATCGATACA
1 TGTATCGATACA
608436 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:608488 original size:52 final size:52
Alignment explanation
Indices: 608444--608624 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
608434 CACTAATCTT
*
608444 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
608496 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
608548 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
608600 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
608625 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:617807 original size:49 final size:49
Alignment explanation
Indices: 617720--617986 Score: 354
Period size: 49 Copynumber: 5.3 Consensus size: 49
617710 TAGTGACCAA
* *
617720 CATATTGGCGCCTTTTTCATCTTTAAGTCCAATATCGCTGACCTTGAATCAG
1 CATATTGGCACC--TTT-ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* *
617772 CATATTGGCACCTTTACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAG
1 CATATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
*
617821 CATATTGGCACCTTTGTCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
1 CATATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* *
617870 CATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAG
1 CATATTGGCACC-TT-T-ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * * * * *
617922 CATATTGGCACCTTCATCTTTAAGTCTAGTATCACTGGCCTTAAATTAG
1 CATATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
*
617971 CATATTGGCATCTTTA
1 CATATTGGCACCTTTA
617987 ACATTCCTAA
Statistics
Matches: 192, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
49 130 0.68
50 5 0.03
51 3 0.02
52 54 0.28
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (49 bp):
CATATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
Found at i:618032 original size:101 final size:99
Alignment explanation
Indices: 617735--618016 Score: 386
Period size: 101 Copynumber: 2.8 Consensus size: 99
617725 TGGCGCCTTT
* *
617735 TTCATCTTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTTACCTT-TAAGTCC
1 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACATTCTAAGTCC
617799 AATGTCGCTGGCCTTGAATCAGCATATTGGCACC
66 AATGTCGCTGGCCTTGAATCAGCATATTGGCACC
** * * *
617833 TTTGTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGT
1 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ACAT-TCTAAGT
617898 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC
64 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC
* * * * * * *
617934 TTCATCTTTAAGTCTAGTATCACTGGCCTTAAATTAGCATATTGGCATCTTTAACATTCCTAAGC
1 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ACATT-CTAAGT
*
617999 CCAATGTCGTTGGCCTTG
64 CCAATGTCGCTGGCCTTG
618017 TCTCAGGACA
Statistics
Matches: 160, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
98 48 0.30
99 2 0.01
100 2 0.01
101 108 0.68
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (99 bp):
TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACATTCTAAGTCC
AATGTCGCTGGCCTTGAATCAGCATATTGGCACC
Found at i:618753 original size:19 final size:19
Alignment explanation
Indices: 618729--618779 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
618719 TTTCAACGAT
618729 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATG
* *
618748 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAATG
618767 TTGTATCGATACA
1 TTGTATCGATACA
618780 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAATG
Found at i:618850 original size:13 final size:13
Alignment explanation
Indices: 618832--618856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
618822 ATTGCTCAAA
618832 TGTATCGATACAT
1 TGTATCGATACAT
618845 TGTATCGATACA
1 TGTATCGATACA
618857 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:618909 original size:52 final size:51
Alignment explanation
Indices: 618845--618993 Score: 194
Period size: 52 Copynumber: 2.9 Consensus size: 51
618835 ATCGATACAT
** *
618845 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGAT-AATGTATCGATACATGCAGGCAAATTTGCCCAAA
* *
618897 TGTATCGATACACT-ATGAAATGTATCGATACATACAGGAAAATTTGCCCAAA
1 TGTATCGATACACTGAT--AATGTATCGATACATGCAGGCAAATTTGCCCAAA
618949 TGTATCGATACACCATGA-AATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACA-C-TGATAATGTATCGATACATGCAGGCAAATTT
618994 TCATATTTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
51 2 0.02
52 80 0.94
53 1 0.01
54 1 0.01
55 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (51 bp):
TGTATCGATACACTGATAATGTATCGATACATGCAGGCAAATTTGCCCAAA
Found at i:622139 original size:20 final size:20
Alignment explanation
Indices: 622096--622259 Score: 125
Period size: 20 Copynumber: 7.8 Consensus size: 20
622086 AAAATGCATG
* *
622096 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGC
622116 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
* *
622136 AATGTGTTGATACAATGAGC
1 AATGTATCGATACAATGAGC
* * *
622156 AATGTATTGATATAATGCA-A
1 AATGTATCGATACAATG-AGC
* *
622176 AATGTATCGATACATCTGGGTAAACCC
1 AATGTATCGATACA-AT--G---A-GC
622203 AGAATGTATCGATACAATGAGC
1 --AATGTATCGATACAATGAGC
*
622225 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAGC
622245 AATGTATCGATACAA
1 AATGTATCGATACAA
622260 ATTGTGAAAA
Statistics
Matches: 118, Mismatches: 15, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.01
20 95 0.81
21 2 0.02
22 1 0.01
23 2 0.02
25 1 0.01
26 1 0.01
28 1 0.01
29 14 0.12
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:624507 original size:165 final size:166
Alignment explanation
Indices: 624292--624999 Score: 905
Period size: 166 Copynumber: 4.3 Consensus size: 166
624282 TTCAAACATC
*
624292 AAAATTTATCAAATATTATCATTTATTTCT-TATTAATTCA-TTTCTCAAAAATTAATTCATGTT
1 AAAATTCATCAAATATTATCATTTATTT-TATATTAATTCAGTTT-TCAAAAATTAATTCATGTT
*
624355 CATGAGTTTTTGACTTTTTCCTTGAAA-TCCTCTTTTTTTGAAATACGGTGTTTTCTACTCCGTA
64 CATGAGTTTTTGATTTTTTCCTTGAAATTCCTCTTTTTTTGAAATACGGTGTTTTCTACTCCGTA
* * **
624419 AACTTTTTCGAGGGGATTTTTCTCGGTTTTCAACTTTT
129 AATTTTTTCGAGGGGATTTTTCTCAGTTTTCATTTTTT
* * * *
624457 AAAATTCATCAAATGTTGTCATTTATTTTATATTAAATCAGTTTTCAAAAATTAATTCATTTTCA
1 AAAATTCATCAAATATTATCATTTATTTTATATTAATTCAGTTTTCAAAAATTAATTCATGTTCA
* * *
624522 TGAGTTTTTGATTTTTTCCTTAAAATTTCCAC-TTTTTTGAAATTCGGTGTTTTCTACTCCGTAA
66 TGAGTTTTTGATTTTTTCCTTGAAA-TTCCTCTTTTTTTGAAATACGGTGTTTTCTACTCCGTAA
* *
624586 ATTTTTTCGAGGGGATTTTTCTCGGTTTTTATTTTTT
130 ATTTTTTCGAGGGGATTTTTCTCAGTTTTCATTTTTT
* * * * *
624623 AAAATTTATCAAATATCATTATTTATTTCATATTAATTAAGTTTTCAAAAATTAATTCATGTTCA
1 AAAATTCATCAAATATTATCATTTATTTTATATTAATTCAGTTTTCAAAAATTAATTCATGTTCA
* * * *
624688 TGAGTTTTTGATTTTTTTCTTGAAATTCCT-TTTTTTCTAAAATACGGTATTTTTTACTCCGTAA
66 TGAGTTTTTGATTTTTTCCTTGAAATTCCTCTTTTTT-TGAAATACGGTGTTTTCTACTCCGTAA
* ** *
624752 ATTTTTTTTGATAGGATTTTTCTCAGTTTTTATTTTTT
130 A-TTTTTTCGAGGGGATTTTTCTCAGTTTTCATTTTTT
* * * * *
624790 AAAATTCTTCAAATATTATCATTTATTTTATATTAATTTATTTTTTAAAAATTAATTCATTTTCA
1 AAAATTCATCAAATATTATCATTTATTTTATATTAATTCAGTTTTCAAAAATTAATTCATGTTCA
* *
624855 TGAGTTTTTTATTTTTTTACTTGAAATT--T-TTTTTTTCGAAATACGGTGTTTTCTACTCCGTA
66 TGAGTTTTTGA-TTTTTTCCTTGAAATTCCTCTTTTTTT-GAAATACGGTGTTTTCTACTCCGTA
* *
624917 AATTTTTTCGAGGGGA-TTTTCTAAGTTTCCATTTTTT
129 AATTTTTTCGAGGGGATTTTTCTCAGTTTTCATTTTTT
* * * * *
624954 AAAAGTCATCAAATATCATTATCTATTTCATATTAATTCA-TTTTCA
1 AAAATTCATCAAATATTATCATTTATTTTATATTAATTCAGTTTTCA
625000 TGATTCTTTT
Statistics
Matches: 473, Mismatches: 61, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
163 5 0.01
164 52 0.11
165 98 0.21
166 201 0.42
167 102 0.22
168 15 0.03
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (166 bp):
AAAATTCATCAAATATTATCATTTATTTTATATTAATTCAGTTTTCAAAAATTAATTCATGTTCA
TGAGTTTTTGATTTTTTCCTTGAAATTCCTCTTTTTTTGAAATACGGTGTTTTCTACTCCGTAAA
TTTTTTCGAGGGGATTTTTCTCAGTTTTCATTTTTT
Found at i:624816 original size:167 final size:164
Alignment explanation
Indices: 624292--625358 Score: 890
Period size: 166 Copynumber: 6.5 Consensus size: 164
624282 TTCAAACATC
*
624292 AAAATT-TATCAAATATTATCATTTATTTCTTATTAATTCATTTCTCAAAAATTAATTCATGTTC
1 AAAATTCT-TCAAATATTATCATTTATTTCATATTAATTCATTT-TCAAAAATTAATTCATGTTC
*
624356 ATGAGTTTTTGACTTTTTCCTTGAAA-TCCTCTTTTTTTGAAATACGGTGTTTTCTACTCCGTAA
64 ATGAGTTTTTGATTTTTTCCTTGAAATTCCT-TTTTTTTGAAATACGGTGTTTTCTACTCCGTAA
* * **
624420 ACTTTTTCGAGGGGATTTTTCTCGGTTTTCAACTTTT
128 ATTTTTTCGAGGGGATTTTTCTCAGTTTTCATTTTTT
* * * * * *
624457 AAAATTCATCAAATGTTGTCATTTATTTTATATTAAATCAGTTTTCAAAAATTAATTCATTTTCA
1 AAAATTCTTCAAATATTATCATTTATTTCATATTAATTCA-TTTTCAAAAATTAATTCATGTTCA
* ** *
624522 TGAGTTTTTGATTTTTTCCTTAAAATTTCCACTTTTTTGAAATTCGGTGTTTTCTACTCCGTAAA
65 TGAGTTTTTGATTTTTTCCTTGAAA-TTCCTTTTTTTTGAAATACGGTGTTTTCTACTCCGTAAA
* *
624587 TTTTTTCGAGGGGATTTTTCTCGGTTTTTATTTTTT
129 TTTTTTCGAGGGGATTTTTCTCAGTTTTCATTTTTT
* * *
624623 AAAATT-TATCAAATATCATTATTTATTTCATATTAATTAAGTTTTCAAAAATTAATTCATGTTC
1 AAAATTCT-TCAAATATTATCATTTATTTCATATTAATTCA-TTTTCAAAAATTAATTCATGTTC
* * * *
624687 ATGAGTTTTTGATTTTTTTCTTGAAATTCCTTTTTTTCTAAAATACGGTATTTTTTACTCCGTAA
64 ATGAGTTTTTGATTTTTTCCTTGAAATTCCTTTTTTT-TGAAATACGGTGTTTTCTACTCCGTAA
* ** *
624752 ATTTTTTTTGATAGGATTTTTCTCAGTTTTTATTTTTT
128 A-TTTTTTCGAGGGGATTTTTCTCAGTTTTCATTTTTT
* * * *
624790 AAAATTCTTCAAATATTATCATTTATTTTATATTAATTTATTTTTTAAAAATTAATTCATTTTCA
1 AAAATTCTTCAAATATTATCATTTATTTCATATTAATTCA-TTTTCAAAAATTAATTCATGTTCA
* *
624855 TGAGTTTTTTATTTTTTTACTTGAAATT--TTTTTTTTCGAAATACGGTGTTTTCTACTCCGTAA
65 TGAGTTTTTGA-TTTTTTCCTTGAAATTCCTTTTTTTT-GAAATACGGTGTTTTCTACTCCGTAA
* *
624918 ATTTTTTCGAGGGGA-TTTTCTAAGTTTCCATTTTTT
128 ATTTTTTCGAGGGGATTTTTCTCAGTTTTCATTTTTT
* * *
624954 AAAAGTCATC-AA-A-TATCA-TTA--TC-TA-T--TTCA---T-----ATTAATTCATTTTCAT
1 AAAATTCTTCAAATATTATCATTTATTTCATATTAATTCATTTTCAAAAATTAATTCATGTTCAT
* * * ** * * *
625001 GATTCTTTT-ATTTTTTCCTTGAAATTTTCCTTTTTTC-GAAATAT-GGTGT-TTTC-TACTTCG
66 GAGT-TTTTGATTTTTTCCTTGAAA--TT-CCTTTTTTTTGAA-ATACG-GTGTTTTCTACTCCG
* * * *
625061 TAATTTTTTTCGGGAGGATTTTTCTCAGTTTTTAATTTTTT
125 TAAATTTTTTCGAGGGGATTTTTCTCAG-TTTTCATTTTTT
* ** * * * *
625102 -AAATT-TATCAAATATTATTATTTAACTCACATTAAATT-ATTTTTCAAAACTTTATTCATATT
1 AAAATTCT-TCAAATATTATCATTTATTTCATATT-AATTCA-TTTTCAAAAATTAATTCATGTT
* ** * * * * *
625164 TATGAGTCTTTAAATTTTTTCTTTGAAATTTTCC-TATTTTCGAAATACGGAGTTTTCTACTCCA
63 CATGAGT-TTTTGATTTTTTCCTTGAAA--TTCCTTTTTTTTGAAATACGGTGTTTTCTACTCCG
* * * * *
625228 TAAATTTTTAC-AGGAGAATTGTTCTCGGTGTTT-AATTTTT
125 TAAATTTTTTCGAGG-GGATTTTTCTCAGT-TTTCATTTTTT
* * * * * * * * * *
625268 GAAATCCATAAAATATTATTATTTATTTCATAGTAAATCATTTTTTAAAAATTTATTCATTTTCA
1 AAAATTCTTCAAATATTATCATTTATTTCATATTAATTCA-TTTTCAAAAATTAATTCATGTTCA
*
625333 TGAGTTTTTGATTTTTTCTTTGAAAT
65 TGAGTTTTTGATTTTTTCCTTGAAAT
625359 CCCCTCATTC
Statistics
Matches: 735, Mismatches: 116, Indels: 103
0.77 0.12 0.11
Matches are distributed among these distances:
144 13 0.02
145 20 0.03
146 27 0.04
147 20 0.03
148 16 0.02
149 6 0.01
150 5 0.01
151 3 0.00
153 2 0.00
154 4 0.01
155 1 0.00
156 1 0.00
157 3 0.00
158 3 0.00
160 3 0.00
161 6 0.01
162 1 0.00
163 2 0.00
164 27 0.04
165 103 0.14
166 255 0.35
167 198 0.27
168 16 0.02
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (164 bp):
AAAATTCTTCAAATATTATCATTTATTTCATATTAATTCATTTTCAAAAATTAATTCATGTTCAT
GAGTTTTTGATTTTTTCCTTGAAATTCCTTTTTTTTGAAATACGGTGTTTTCTACTCCGTAAATT
TTTTCGAGGGGATTTTTCTCAGTTTTCATTTTTT
Found at i:625063 original size:146 final size:146
Alignment explanation
Indices: 624840--625122 Score: 396
Period size: 146 Copynumber: 1.9 Consensus size: 146
624830 TTTTTTAAAA
624840 ATTAATTCATTTTCATGAGTTTTTTATTTTTTTACTTGAAATTTTTTTTTTCGAAATACGGTGTT
1 ATTAATTCATTTTCATGAGTTTTTTATTTTTTTACTTGAAATTTTTTTTTTCGAAATACGGTGTT
*
624905 TTCTACTCCGTAAATTTTTTCGAGG-GGA-TTTTCTAAG-TTTCCATTTTTTAAAAGTCATCAAA
66 TTCTACTCCGTAAATTTTTTCG-GGAGGATTTTTCTAAGTTTTCAATTTTTT-AAAGTCATCAAA
624967 TATCATTATCTATTTCAT
129 TATCATTATCTATTTCAT
* *
624985 ATTAATTCATTTTCATGA-TTCTTTTA-TTTTTTCCTTGAAATTTTCCTTTTTTCGAAATATGGT
1 ATTAATTCATTTTCATGAGTT-TTTTATTTTTTTACTTGAAATTTT--TTTTTTCGAAATACGGT
* * * * * *
625048 GTTTTCTACTTCGTAATTTTTTTCGGGAGGATTTTTCTCAGTTTTTAATTTTTTAAATTTATCAA
63 GTTTTCTACTCCGTAAATTTTTTCGGGAGGATTTTTCTAAGTTTTCAATTTTTTAAAGTCATCAA
*
625113 ATATTATTAT
128 ATATCATTAT
625123 TTAACTCACA
Statistics
Matches: 122, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
144 19 0.16
145 25 0.20
146 42 0.34
147 26 0.21
148 10 0.08
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (146 bp):
ATTAATTCATTTTCATGAGTTTTTTATTTTTTTACTTGAAATTTTTTTTTTCGAAATACGGTGTT
TTCTACTCCGTAAATTTTTTCGGGAGGATTTTTCTAAGTTTTCAATTTTTTAAAGTCATCAAATA
TCATTATCTATTTCAT
Found at i:625284 original size:478 final size:485
Alignment explanation
Indices: 624302--625349 Score: 1209
Period size: 478 Copynumber: 2.1 Consensus size: 485
624292 AAAATTTATC
* * *
624302 AAATATTATCATTTATTTCT-TATTAATTCATTTCTCAAAAATTAATTCATGTTCATGAGTTTTT
1 AAATATTATCATTTATTT-TATATTAATTCATTTTTTAAAAATTAATTCATTTTCATGAGTTTTT
* *
624366 GA-CTTTTTCCTTGAAATCCTCTTTTTTTGAAATACGGTGTTTTCTACTCCGTAAACTTTTTCGA
65 GATTTTTTTACTTGAAAT-CTCTTTTTTTGAAATACGGTGTTTTCTACTCCGTAAACTTTTTCGA
** * * *
624430 GGGGATTTTTCTCGGTTTTCAACTTTTAAAATTCATCAAATGTTGTCATTTATTTTATATTAAAT
129 GGGGATTTTTCTAAGTTTCCAACTTTTAAAAGTCATCAAA--TTATCATTTA--TTATATT--AT
624495 CAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTCCTTAAAATTTCCACTTTTTT
188 CA---TT----AATTAATTCATTTTCATGAGTTTTTGATTTTTTCCTTAAAATTTCCACTTTTTT
*
624560 GAAATTCGGTGTTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTCGGTTTTTATTTTTTAA
246 GAAATTCGGTGTTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTCAGTTTTTATTTTTTAA
** * *
624625 AATTTATCAAATATCATTATTTATTTCATATTAATTAAGTTTTCAAAAATTAATTCATGTTCATG
311 AATTTATCAAATATCATTATTTAACTCACATTAATTAAGTTTTCAAAAATTAATTCATATTCATG
* * * * * *
624690 AGTTTTTGATTTTTTTCTTGAAATTCCTTTTTTTCTAAAATACGGTATTTTTTACTCCGTAAATT
376 AGTCTTTAAATTTTTTCTTGAAATTCCTTATTTTCTAAAATACGGTATTTTCTACTCCATAAATT
*** * * * * * * * *
624755 TTTTTTGATAGGATTTTTCTCAGTTTTTATTTTTTAAAATTCTTC
441 TTTACAGAGAGAATTGTTCTCAGTGTTTAATTTTTAAAATCCATA
* *
624800 AAATATTATCATTTATTTTATATTAATTTATTTTTTAAAAATTAATTCATTTTCATGAGTTTTTT
1 AAATATTATCATTTATTTTATATTAATTCATTTTTTAAAAATTAATTCATTTTCATGAGTTTTTG
* *
624865 ATTTTTTTACTTGAAAT-TTTTTTTTTCGAAATACGGTGTTTTCTACTCCGTAAATTTTTTCGAG
66 ATTTTTTTACTTGAAATCTCTTTTTTT-GAAATACGGTGTTTTCTACTCCGTAAACTTTTTCGAG
** *
624929 GGGA-TTTTCTAAGTTTCCATTTTTTAAAAGTCATCAAA-TATCA-TTA-TCTATT-TCA-T-AT
130 GGGATTTTTCTAAGTTTCCAACTTTTAAAAGTCATCAAATTATCATTTATTATATTATCATTAAT
* * *
624987 TAATTCATTTTCATGA-TTCTTTTATTTTTTCCTTGAAATTTTC-CTTTTTTCGAAATAT-GGTG
195 TAATTCATTTTCATGAGTT-TTTGATTTTTTCCTTAAAATTTCCACTTTTTT-GAAAT-TCGGTG
* *
625049 TTTTCTACTTCGTAATTTTTTTCG-GGAGGATTTTTCTCAGTTTTTAATTTTTT-AAATTTATCA
257 TTTTCTACTCCGTAAATTTTTTCGAGG-GGATTTTTCTCAGTTTTT-ATTTTTTAAAATTTATCA
* * * * *
625112 AATATTATTATTTAACTCACATTAAATT-ATTTTTCAAAACTTTATTCATATTTATGAGTCTTTA
320 AATATCATTATTTAACTCACATT-AATTAAGTTTTCAAAAATTAATTCATATTCATGAGTCTTTA
*
625176 AATTTTTTCTTTGAAATTTTCC-TATTTTC-GAAATACGG-AGTTTTCTACTCCATAAATTTTTA
384 AATTTTTTC-TTGAAA--TTCCTTATTTTCTAAAATACGGTA-TTTTCTACTCCATAAATTTTTA
* *
625238 CAG-GAGAATTGTTCTCGGTGTTTAATTTTTGAAATCCATA
445 CAGAGAGAATTGTTCTCAGTGTTTAATTTTTAAAATCCATA
* * * * *
625278 AAATATTATTATTTATTTCATAGTAAATCATTTTTTAAAAATTTATTCATTTTCATGAGTTTTTG
1 AAATATTATCATTTATTTTATATTAATTCATTTTTTAAAAATTAATTCATTTTCATGAGTTTTTG
625343 ATTTTTT
66 ATTTTTT
625350 CTTTGAAATC
Statistics
Matches: 478, Mismatches: 59, Indels: 46
0.82 0.10 0.08
Matches are distributed among these distances:
477 11 0.02
478 246 0.51
479 46 0.10
480 6 0.01
481 4 0.01
483 1 0.00
487 3 0.01
490 5 0.01
493 3 0.01
494 4 0.01
497 37 0.08
498 99 0.21
499 13 0.03
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (485 bp):
AAATATTATCATTTATTTTATATTAATTCATTTTTTAAAAATTAATTCATTTTCATGAGTTTTTG
ATTTTTTTACTTGAAATCTCTTTTTTTGAAATACGGTGTTTTCTACTCCGTAAACTTTTTCGAGG
GGATTTTTCTAAGTTTCCAACTTTTAAAAGTCATCAAATTATCATTTATTATATTATCATTAATT
AATTCATTTTCATGAGTTTTTGATTTTTTCCTTAAAATTTCCACTTTTTTGAAATTCGGTGTTTT
CTACTCCGTAAATTTTTTCGAGGGGATTTTTCTCAGTTTTTATTTTTTAAAATTTATCAAATATC
ATTATTTAACTCACATTAATTAAGTTTTCAAAAATTAATTCATATTCATGAGTCTTTAAATTTTT
TCTTGAAATTCCTTATTTTCTAAAATACGGTATTTTCTACTCCATAAATTTTTACAGAGAGAATT
GTTCTCAGTGTTTAATTTTTAAAATCCATA
Found at i:625388 original size:166 final size:167
Alignment explanation
Indices: 625049--625403 Score: 376
Period size: 167 Copynumber: 2.1 Consensus size: 167
625039 AAATATGGTG
* * * * * * * * * ** *
625049 TTTTCTACTTCGTAATTTTTTTCGGGAGGATTTTTCTCAGTTTTTAATTTTTTAAATTTATCAAA
1 TTTTCTACTCCATAAATTTTTACAGGAGAATTGTTCTCAGTGTTTAATTTTTGAAATCCATAAAA
* * *
625114 TATTATTATTTAACTCACATTAAATTATTTTTCAAAACTTTATTCATATTTATGAGTCTTTAAAT
66 TATTATTATTTAACTCACAGTAAATCATTTTTCAAAAATTTATTCATATTTATGAGTCTTTAAAT
** * ** *
625179 TTTTTCTTTGAAATTTTCCTATTTTCGAAATACGGAG
131 TTTTTCTTTGAAATTCCCCTATTCTCGAAATACCAAA
*
625216 TTTTCTACTCCATAAATTTTTACAGGAGAATTGTTCTCGGTGTTTAATTTTTGAAATCCATAAAA
1 TTTTCTACTCCATAAATTTTTACAGGAGAATTGTTCTCAGTGTTTAATTTTTGAAATCCATAAAA
** * * **
625281 TATTATTATTTATTTCATAGTAAATCATTTTTTAAAAATTTATTCAT-TTTCATGAGT-TTTTGA
66 TATTATTATTTAACTCACAGTAAATCATTTTTCAAAAATTTATTCATATTT-ATGAGTCTTTAAA
*
625344 TTTTTTCTTTGAAA-TCCCCTCATTCTCGGACA-ACCAAA
130 TTTTTTCTTTGAAATTCCCCT-ATTCTC-GAAATACCAAA
*
625382 TTTTCTATTCCATAAATATTTT
1 TTTTCTACTCCATAAAT-TTTT
625404 CGGGGGGATT
Statistics
Matches: 154, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
165 4 0.03
166 45 0.29
167 105 0.68
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (167 bp):
TTTTCTACTCCATAAATTTTTACAGGAGAATTGTTCTCAGTGTTTAATTTTTGAAATCCATAAAA
TATTATTATTTAACTCACAGTAAATCATTTTTCAAAAATTTATTCATATTTATGAGTCTTTAAAT
TTTTTCTTTGAAATTCCCCTATTCTCGAAATACCAAA
Found at i:625524 original size:26 final size:27
Alignment explanation
Indices: 625465--625524 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
625455 TTGAACTCTC
625465 ATTA-ATTCAGTTTTGAAATTTTTTTT
1 ATTATATTCAGTTTTGAAATTTTTTTT
* *
625491 ATTTTATTCA-TTTTG-ATTTTTTTTT
1 ATTATATTCAGTTTTGAAATTTTTTTT
*
625516 GTATATATT
1 AT-TATATT
625525 GAACTCTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 10 0.36
26 13 0.46
27 5 0.18
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (27 bp):
ATTATATTCAGTTTTGAAATTTTTTTT
Found at i:625617 original size:11 final size:11
Alignment explanation
Indices: 625603--625663 Score: 70
Period size: 12 Copynumber: 5.3 Consensus size: 11
625593 AAAAACTCAG
625603 AAAAAAAAGAA
1 AAAAAAAAGAA
625614 AAAAAAAAGAA
1 AAAAAAAAGAA
625625 AGAAAAAAGAGAA
1 A-AAAAAA-AGAA
625638 AAAAAAAA-ACA
1 AAAAAAAAGA-A
*
625649 AGAAAAATAGAA
1 A-AAAAAAAGAA
625661 AAA
1 AAA
625664 CTAGTTAGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
10 1 0.02
11 17 0.39
12 20 0.45
13 6 0.14
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:625621 original size:24 final size:24
Alignment explanation
Indices: 625592--625663 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
625582 TTGAGAGCTG
**
625592 AAAAAACTCAGAAAAAAAAGAAAA
1 AAAAAACAAAGAAAAAAAAGAAAA
* *
625616 AAAAAAGAAAGAAAAAAGAGAAAA
1 AAAAAACAAAGAAAAAAAAGAAAA
*
625640 AAAAAA-ACAAG-AAAAATAGAAAA
1 AAAAAACA-AAGAAAAAAAAGAAAA
625663 A
1 A
625664 CTAGTTAGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 13 0.31
24 29 0.69
ACGTcount: A:0.82, C:0.04, G:0.11, T:0.03
Consensus pattern (24 bp):
AAAAAACAAAGAAAAAAAAGAAAA
Found at i:625630 original size:23 final size:23
Alignment explanation
Indices: 625604--625663 Score: 86
Period size: 24 Copynumber: 2.6 Consensus size: 23
625594 AAAACTCAGA
625604 AAAAAAAGAAAAAAAAAAGA-AAG
1 AAAAAAAGAAAAAAAAAA-ACAAG
625627 AAAAAAGAGAAAAAAAAAAACAAG
1 AAAAAA-AGAAAAAAAAAAACAAG
*
625651 AAAAATAGAAAAA
1 AAAAAAAGAAAAA
625664 CTAGTTAGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 14 0.41
24 20 0.59
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.02
Consensus pattern (23 bp):
AAAAAAAGAAAAAAAAAAACAAG
Found at i:626508 original size:13 final size:13
Alignment explanation
Indices: 626490--626522 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
626480 GAAATTTTTA
626490 AAAATAAAAAAAT
1 AAAATAAAAAAAT
*
626503 AAAATAAAATAAT
1 AAAATAAAAAAAT
626516 -AAATAAA
1 AAAATAAA
626523 TTCCTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:629629 original size:38 final size:37
Alignment explanation
Indices: 629587--629771 Score: 146
Period size: 37 Copynumber: 5.0 Consensus size: 37
629577 GCACAGTTTA
* *
629587 AAACAAAAATCACTATTCTTAATCGATGGCACGGTTCG
1 AAACAAAAATCACTATTCTTAACCGATGGCATGGTT-G
* *
629625 AAACAAAAATCACTATTGTTAGCC-AGTGGCATGGCTTG
1 AAACAAAAATCACTATTCTTAACCGA-TGGCATGG-TTG
* * *
629663 AAAC-AAAACCACTATTATTAACCGGTGGCATGGTTTG
1 AAACAAAAATCACTATTCTTAACCGATGGCATGG-TTG
* * * *
629700 AAACAAAAATCACTAGTCTTATA--GGTGGTATGGTTC
1 AAACAAAAATCACTATTCTTA-ACCGATGGCATGGTTG
* * * *
629736 TAACAAAAATCACAATT-TTCAACTGATGACATGGTT
1 AAACAAAAATCACTATTCTT-AACCGATGGCATGGTT
629772 TAAAATCGAT
Statistics
Matches: 119, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
35 3 0.03
36 17 0.14
37 50 0.42
38 46 0.39
39 3 0.03
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (37 bp):
AAACAAAAATCACTATTCTTAACCGATGGCATGGTTG
Found at i:629691 original size:37 final size:37
Alignment explanation
Indices: 629587--629748 Score: 150
Period size: 38 Copynumber: 4.4 Consensus size: 37
629577 GCACAGTTTA
* * * *
629587 AAACAAAAATCACTATTCTTAATCGATGGCACGGTTCG
1 AAACAAAAATCACTATTATTAACCGGTGGCATGGTT-G
* * *
629625 AAACAAAAATCACTATTGTTAGCCAGTGGCATGGCTTG
1 AAACAAAAATCACTATTATTAACCGGTGGCATGG-TTG
*
629663 AAAC-AAAACCACTATTATTAACCGGTGGCATGGTTTG
1 AAACAAAAATCACTATTATTAACCGGTGGCATGG-TTG
* * * *
629700 AAACAAAAATCACTAGTCTTATA--GGTGGTATGGTTC
1 AAACAAAAATCACTATTATTA-ACCGGTGGCATGGTTG
*
629736 TAACAAAAATCAC
1 AAACAAAAATCAC
629749 AATTTTCAAC
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
36 14 0.13
37 41 0.39
38 46 0.44
39 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (37 bp):
AAACAAAAATCACTATTATTAACCGGTGGCATGGTTG
Found at i:634829 original size:3 final size:3
Alignment explanation
Indices: 634816--634845 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
634806 AATCTTTCGT
*
634816 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
634846 ATAAAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:636248 original size:25 final size:25
Alignment explanation
Indices: 636220--636277 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
636210 ACATCCTTAT
636220 ATGACTTTGATATAGCACATATACA
1 ATGACTTTGATATAGCACATATACA
636245 ATGACTTTGATATAGCACATATACA
1 ATGACTTTGATATAGCACATATACA
636270 ATGACTTT
1 ATGACTTT
636278 TTTCTTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (25 bp):
ATGACTTTGATATAGCACATATACA
Found at i:636976 original size:13 final size:13
Alignment explanation
Indices: 636958--636987 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
636948 CAGATAAAAT
*
636958 GAGGCTTCTCCAA
1 GAGGCTGCTCCAA
636971 GAGGCTGCTCCAA
1 GAGGCTGCTCCAA
636984 GAGG
1 GAGG
636988 GTATGAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.27, G:0.33, T:0.17
Consensus pattern (13 bp):
GAGGCTGCTCCAA
Found at i:638620 original size:18 final size:18
Alignment explanation
Indices: 638599--638679 Score: 75
Period size: 18 Copynumber: 4.8 Consensus size: 18
638589 TAAAAGTTAA
638599 TATATTAATATTTTTTAT
1 TATATTAATATTTTTTAT
638617 TATA-TAA-A--TTTTA-
1 TATATTAATATTTTTTAT
* *
638630 AATATTCATATTTTTATAT
1 TATATTAATATTTTT-TAT
* *
638649 TAAATTTATATTTTTTAT
1 TATATTAATATTTTTTAT
638667 TATATT-ATATTTT
1 TATATTAATATTTT
638680 AACTATTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
13 3 0.06
14 7 0.14
15 1 0.02
16 1 0.02
17 13 0.25
18 14 0.27
19 12 0.24
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (18 bp):
TATATTAATATTTTTTAT
Found at i:638623 original size:32 final size:32
Alignment explanation
Indices: 638569--638650 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
638559 ATAATTATTT
* * *
638569 TTAAAATTTATATATTTGTATAAAAGTTAATATA
1 TTAATATTTTTATA-TTATATAAAAGTTAA-ATA
**
638603 TTAATATTTTT-TATTATATAAATTTTAAATA
1 TTAATATTTTTATATTATATAAAAGTTAAATA
*
638634 TTCATATTTTTATATTA
1 TTAATATTTTTATATTA
638651 AATTTATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 13 0.32
32 17 0.41
33 2 0.05
34 9 0.22
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (32 bp):
TTAATATTTTTATATTATATAAAAGTTAAATA
Found at i:638635 original size:25 final size:26
Alignment explanation
Indices: 638605--638687 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
638595 TTAATATATT
638605 AATATTTTTTATTATA-TAAATTTTA
1 AATATTTTTTATTATATTAAATTTTA
638630 AATATTCATATTT-TTATATTAAA-TTT-
1 AATATT--T-TTTATTATATTAAATTTTA
*
638656 -ATATTTTTTATTATATTATATTTTA
1 AATATTTTTTATTATATTAAATTTTA
*
638681 ACTATTT
1 AATATTT
638688 AATTAAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
22 3 0.06
23 10 0.21
24 3 0.06
25 11 0.23
26 5 0.10
27 9 0.19
28 7 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
AATATTTTTTATTATATTAAATTTTA
Found at i:638653 original size:21 final size:19
Alignment explanation
Indices: 638627--638679 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 19
638617 TATATAAATT
638627 TTAAATATTCATATTTTTATA
1 TTAAATATT-ATATTTTT-TA
638648 TTAAAT-TTATATTTTTTA
1 TTAAATATTATATTTTTTA
638666 TT--ATATTATATTTT
1 TTAAATATTATATTTT
638680 AACTATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.06
17 9 0.29
18 4 0.13
19 8 0.26
20 2 0.06
21 6 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTAAATATTATATTTTTTA
Found at i:642185 original size:20 final size:21
Alignment explanation
Indices: 642157--642195 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
642147 TGAAACTATT
642157 TTCAATTAAA-ATAATATATA
1 TTCAATTAAACATAATATATA
*
642177 TTCAGTTAAACATAATATA
1 TTCAATTAAACATAATATA
642196 AATTTTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (21 bp):
TTCAATTAAACATAATATATA
Found at i:642520 original size:17 final size:17
Alignment explanation
Indices: 642498--642530 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
642488 TTGTACGTTG
642498 TTAAATT-TATATTTTTT
1 TTAAATTCTA-ATTTTTT
642515 TTAAATTCTAATTTTT
1 TTAAATTCTAATTTTT
642531 AGATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TTAAATTCTAATTTTTT
Found at i:643216 original size:38 final size:38
Alignment explanation
Indices: 643097--643233 Score: 114
Period size: 38 Copynumber: 3.6 Consensus size: 38
643087 TGTACCACAT
* * ** ***
643097 GTAAGAATAGTGATTTATGTTTCGAACTATGCCACCAA
1 GTAAGAATAGTGATTTTTGTTTTGAACTATGTTACTGG
* * * * * *
643135 TTAAGAATAGTGATCTTTATTTCGAACTATGTTGCTTG
1 GTAAGAATAGTGATTTTTGTTTTGAACTATGTTACTGG
* * *
643173 TTAAGAATAGTGATTTTTGTTTTTAACTCTGTTACTGG
1 GTAAGAATAGTGATTTTTGTTTTGAACTATGTTACTGG
643211 GTAAGAATAGT-AGTTTTTGTTTT
1 GTAAGAATAGTGA-TTTTTGTTTT
643234 AAATTGTGCC
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
37 1 0.01
38 79 0.99
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (38 bp):
GTAAGAATAGTGATTTTTGTTTTGAACTATGTTACTGG
Found at i:643561 original size:106 final size:107
Alignment explanation
Indices: 643404--643610 Score: 335
Period size: 106 Copynumber: 1.9 Consensus size: 107
643394 TATATCATAT
* * *
643404 TTGAAATTGTTATTTTGTCAAAAATATTTTTTTTAGCATATTTAACCCAGCTGAAGGAATGCCAA
1 TTGAAATTGTTATTTTGTCAAAAATAATTTTTTTAGCATATTTAACACAGCTGAAGGAATACCAA
643469 TTGCTTACTGAGTAGTTATACTCATTATTTTTTATAACACAG
66 TTGCTTACTGAGTAGTTATACTCATTATTTTTTATAACACAG
** * *
643511 TTGAAATTGTTATTTTG-CCCAAATAATTTTTTTAGCATGTTTAACACAGCTGAAGGAATATCAA
1 TTGAAATTGTTATTTTGTCAAAAATAATTTTTTTAGCATATTTAACACAGCTGAAGGAATACCAA
*
643575 TTGCTTATTGAGTAGTTATACTCATTATTTTTTATA
66 TTGCTTACTGAGTAGTTATACTCATTATTTTTTATA
643611 TATTTTATAG
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
106 75 0.82
107 17 0.18
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (107 bp):
TTGAAATTGTTATTTTGTCAAAAATAATTTTTTTAGCATATTTAACACAGCTGAAGGAATACCAA
TTGCTTACTGAGTAGTTATACTCATTATTTTTTATAACACAG
Found at i:644811 original size:20 final size:20
Alignment explanation
Indices: 644755--644831 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
644745 ATATATTTTG
* *
644755 CATTGTATCGATACGTGGCT
1 CATTGTATCGATACATTGCT
*
644775 CATTGGATCGATACATTGCT
1 CATTGTATCGATACATTGCT
*
644795 CATTGTATCGATACATT-TT
1 CATTGTATCGATACATTGCT
*
644814 ACAATGTATCGATACATT
1 -CATTGTATCGATACATT
644832 TAGGCATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
19 1 0.02
20 49 0.98
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACATTGCT
Found at i:647214 original size:51 final size:51
Alignment explanation
Indices: 647129--647243 Score: 126
Period size: 51 Copynumber: 2.3 Consensus size: 51
647119 ATTTTTCACC
* *
647129 TCGGGGATACTCCAATCTCGGTTCCATTTCCAAAACATCAAATTTTC-TTAA
1 TCGGGGATACTCCAATCTCGATTCCATTTCCAAAACA-CAAATTTTCGATAA
** * **
647180 TCGGGGATACTCCAAT-TCCGATTTTATTTTCAAAACACTGATTTTCGATAA
1 TCGGGGATACTCCAATCT-CGATTCCATTTCCAAAACACAAATTTTCGATAA
*
647231 TCAGGGATACTCC
1 TCGGGGATACTCC
647244 GACCCCGTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 8 0.15
51 46 0.85
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
TCGGGGATACTCCAATCTCGATTCCATTTCCAAAACACAAATTTTCGATAA
Found at i:647352 original size:28 final size:28
Alignment explanation
Indices: 647319--647387 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
647309 TAATCGGGGG
647319 TACTCCAACCCCGTTATTTCATCAGGG-A
1 TACTCCAACCCCGTTATTT-ATCAGGGAA
* * *
647347 TACTCCAATCCCGTTATTTTTGAGGGAA
1 TACTCCAACCCCGTTATTTATCAGGGAA
647375 TACTCCAACCCCG
1 TACTCCAACCCCG
647388 ATTTTATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 5 0.14
28 31 0.86
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (28 bp):
TACTCCAACCCCGTTATTTATCAGGGAA
Found at i:647440 original size:51 final size:51
Alignment explanation
Indices: 647374--647484 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 51
647364 TTTTGAGGGA
* * *
647374 ATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGG
1 ATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGG
* * *
647425 ATACTCCAACTCCGATTTTATTTCCAAAGCACCAATTTCTCACAATTGGGG
1 ATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGG
*
647476 ATTCTCCAA
1 ATACTCCAA
647485 TCCTGTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (51 bp):
ATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGG
Found at i:647503 original size:79 final size:76
Alignment explanation
Indices: 647420--647641 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 76
647410 TTTTCACAAT
* *
647420 CGGGGATACTCCAACTCCGATTTTATTTCCAAAGCACCAATTTCTCACAATTGGGGATTCTCCAA
1 CGGGGATACTCCAAC-CCGATTTTATTTCCAAA-CACCAATTT-TCATAATTGGGGATACTCCAA
* *
647485 TCCTGTTATTTTCG
63 CCCTATTATTTTCG
* * * * **
647499 CGGGGATACTCCAACCCTGATTTTATTTTCAAAATATCGATTTTCTATAATCAGGGATACTCCAA
1 CGGGGATACTCCAACCC-GATTTTA-TTTCCAAACACCAATTTTC-ATAATTGGGGATACTCCAA
647564 CCCTATTATTTTCG
63 CCCTATTATTTTCG
* **
647578 AGGGGATACTCCAACCTCGATTTTATTTCTGGAACACCAATTTTTCATAATTGGGGATACTCCA
1 CGGGGATACTCCAACC-CGATTTTATTTC-CAAACACCAA-TTTTCATAATTGGGGATACTCCA
647642 GCTCCGTTTT
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
78 8 0.07
79 98 0.82
80 13 0.11
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (76 bp):
CGGGGATACTCCAACCCGATTTTATTTCCAAACACCAATTTTCATAATTGGGGATACTCCAACCC
TATTATTTTCG
Found at i:651130 original size:21 final size:21
Alignment explanation
Indices: 651089--651131 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
651079 CTCTCCTTTA
* *
651089 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
651110 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
651131 T
1 T
651132 TATATCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.26, C:0.30, G:0.05, T:0.40
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:652956 original size:13 final size:13
Alignment explanation
Indices: 652938--652976 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
652928 ATAATCACCC
652938 TGTATCGATACAA
1 TGTATCGATACAA
652951 TGTATCGATACAA
1 TGTATCGATACAA
652964 TGTATCGATACAA
1 TGTATCGATACAA
652977 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:656360 original size:21 final size:21
Alignment explanation
Indices: 656331--656375 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
656321 AAGTTTTCAT
*
656331 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
656351 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
656373 TTT
1 TTT
656376 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:658612 original size:13 final size:13
Alignment explanation
Indices: 658594--658619 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
658584 CAATTTTTTG
658594 TGTATCGATACAT
1 TGTATCGATACAT
658607 TGTATCGATACAT
1 TGTATCGATACAT
658620 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:660893 original size:13 final size:13
Alignment explanation
Indices: 660875--660931 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
660865 TTCAACAATT
660875 TGTATCGATACAA
1 TGTATCGATACAA
660888 TGTATCGATACATAA
1 TGTATCGATAC--AA
660903 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
660920 TGTATCGATACA
1 TGTATCGATACA
660932 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:660912 original size:19 final size:18
Alignment explanation
Indices: 660888--660950 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
660878 ATCGATACAA
660888 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
660907 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
660920 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
*
660939 TGTATTGATACA
1 TGTATCGATACA
660951 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:660915 original size:32 final size:32
Alignment explanation
Indices: 660874--660958 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
660864 TTTCAACAAT
660874 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
660906 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
660938 TTGTATTGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
660959 CTACGAAGCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:661021 original size:13 final size:13
Alignment explanation
Indices: 661003--661030 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
660993 ATTACTCTAA
661003 TGTATCGATACAT
1 TGTATCGATACAT
661016 TGTATCGATACAT
1 TGTATCGATACAT
661029 TG
1 TG
661031 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:661025 original size:34 final size:33
Alignment explanation
Indices: 660982--661049 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 33
660972 GCCAAGGAAA
660982 TGTATCGATACATT-ACTCTAATGTATCGATACAT
1 TGTATCGATACATTGA-TCT-ATGTATCGATACAT
*
661016 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCTATGTATCGATACAT
661049 T
1 T
661050 TAGGAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 14 0.44
34 17 0.53
35 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCTATGTATCGATACAT
Found at i:663335 original size:28 final size:27
Alignment explanation
Indices: 663279--663350 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
663269 AGAATAAAGC
**
663279 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTAT-CCCTCGGAAATAA
663307 CGGGGTTGGAGTATCCCT-GATGAAATAA
1 CGGGGTTGGAGTATCCCTCG--GAAATAA
*
663335 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
663351 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 4 0.10
28 34 0.87
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGGAAATAA
Found at i:663409 original size:53 final size:50
Alignment explanation
Indices: 663341--663461 Score: 136
Period size: 51 Copynumber: 2.3 Consensus size: 50
663331 ATAACGAGGT
* * * *
663341 TGGAGTATCCTCGATTGT-GAAAACATTGGTGTTTTTGGAAATAAAATCGGAGC
1 TGGAGTATCC-CGATTATAG-AAA-ATTAGTG-TTTTGAAAATAAAATCGGAGA
663394 TGGAGTATCTCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGA
1 TGGAGTATC-CCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGA
*
663445 TGGAATATCCCCGATTA
1 TGGAGTAT-CCCGATTA
663462 CGGAGAATTG
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
51 33 0.55
52 7 0.12
53 18 0.30
54 2 0.03
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (50 bp):
TGGAGTATCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGA
Found at i:665850 original size:13 final size:13
Alignment explanation
Indices: 665832--665857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
665822 ACAAAGATCC
665832 ATGTATCGATACA
1 ATGTATCGATACA
665845 ATGTATCGATACA
1 ATGTATCGATACA
665858 CAAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:665936 original size:19 final size:19
Alignment explanation
Indices: 665908--665972 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
665898 AGCGATACAT
*
665908 TGTATTGATACAAAACTTA
1 TGTATCGATACAAAACTTA
665927 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
* *
665940 TGTATCGAGACAATACTTA
1 TGTATCGATACAAAACTTA
665959 TGTATCGATACAAA
1 TGTATCGATACAAA
665973 TCGCTGAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:665938 original size:32 final size:32
Alignment explanation
Indices: 665900--665970 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
665890 AACTTCCTAG
* *
665900 CGATACATTGTATTGATACAAAACTTATGTAT
1 CGATACATTGTATCGAGACAAAACTTATGTAT
*
665932 CGATACATTGTATCGAGACAATACTTATGTAT
1 CGATACATTGTATCGAGACAAAACTTATGTAT
665964 CGATACA
1 CGATACA
665971 AATCGCTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGAGACAAAACTTATGTAT
Found at i:666034 original size:21 final size:21
Alignment explanation
Indices: 666008--666084 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
665998 GTTGGGACCT
* *
666008 TGTATCGATACATTTGTA-TAA
1 TGTATCGATACA-TTCTACAAA
*
666029 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
666050 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
666071 TGTATCGATACATT
1 TGTATCGATACATT
666085 TGGATAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:672184 original size:14 final size:14
Alignment explanation
Indices: 672176--672209 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
672166 CAAAAGTAAA
672176 AAAAAAAAACAAAC
1 AAAAAAAAACAAAC
*
672190 AAAAAAAAACACAC
1 AAAAAAAAACAAAC
672204 AAAAAA
1 AAAAAA
672210 GGTGCAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAAAC
Found at i:673594 original size:31 final size:29
Alignment explanation
Indices: 673495--673632 Score: 141
Period size: 31 Copynumber: 4.5 Consensus size: 29
673485 ATACCTTCTT
**
673495 AAAGTCCACAACTCAGTGGCATTTTGTCCC
1 AAAGTCCACAACTCAGTGGCATTTT-TTTC
**
673525 AAAGTCCATTACTCAGTGGCATTTTTTTCTCC
1 AAAGTCCACAACTCAGTGGCA-TTTTTT-T-C
673557 AAAGTCCACAACTCAGTGGCAATTTCTTTTC
1 AAAGTCCACAACTCAGTGGC-ATTT-TTTTC
**
673588 AAAGTCCATGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACAACTCAGTGGCAT-TTTT-TTC
*
673619 AAAGCCCACAACTC
1 AAAGTCCACAACTC
673633 TGTAGCACCT
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
30 24 0.27
31 39 0.43
32 23 0.26
33 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (29 bp):
AAAGTCCACAACTCAGTGGCATTTTTTTC
Found at i:673615 original size:62 final size:62
Alignment explanation
Indices: 673495--673632 Score: 190
Period size: 62 Copynumber: 2.2 Consensus size: 62
673485 ATACCTTCTT
* *
673495 AAAGTCCACAACTCAGTGGCATTTTGTCCCAAAGTCCATTACTCAGTGGCATTTTTTTCTCC
1 AAAGTCCACAACTCAGTGGCATTTTGTCCCAAAGTCCATGACTCAGTGGCATTCTTTTCTCC
** *
673557 AAAGTCCACAACTCAGTGGCAATTTCT-TTTCAAAGTCCATGACTCAGTGGCA-TCTTTTCTTC
1 AAAGTCCACAACTCAGTGGC-ATTT-TGTCCCAAAGTCCATGACTCAGTGGCATTCTTTTCTCC
*
673619 AAAGCCCACAACTC
1 AAAGTCCACAACTC
673633 TGTAGCACCT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
62 41 0.60
63 26 0.38
64 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (62 bp):
AAAGTCCACAACTCAGTGGCATTTTGTCCCAAAGTCCATGACTCAGTGGCATTCTTTTCTCC
Found at i:673656 original size:34 final size:35
Alignment explanation
Indices: 673579--673750 Score: 160
Period size: 35 Copynumber: 5.1 Consensus size: 35
673569 TCAGTGGCAA
* ** *
673579 TTTCTTTTCAAAGTCCATGACTCAGTGGCA-TC-T
1 TTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTT
* *
673612 TTTC--TTCAAAGCCCACAACTCTGTAGCAC-CTT
1 TTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTT
* *
673644 TTTCTTTTCAAAGCCCACAATTCCGTGGCACTCCT
1 TTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTT
*
673679 TTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTTCTTTTCAAAGCCCACAACTCCGTGGCACTC-TT
* * * *
673715 TTTCCTTTT--AAGTCCACAATTTCGTGGCACCCTT
1 TTT-CTTTTCAAAGCCCACAACTCCGTGGCACTCTT
673749 TT
1 TT
673751 AAGTCCACAA
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
31 20 0.17
32 5 0.04
33 4 0.03
34 26 0.22
35 52 0.45
36 4 0.03
37 5 0.04
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (35 bp):
TTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTT
Found at i:673735 original size:70 final size:67
Alignment explanation
Indices: 673619--673750 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 67
673609 TCTTTTCTTC
*
673619 AAAGCCCACAACTCTGTAGCACCTTTTTCTTTTCAAAGCCCACAATTCCGTGGCACTCCTTTTCT
1 AAAGCCCACAACTCCGTAGCACCTTTTTCTTTT-AAAGCCCACAATTCCGTGGCAC-CCTTTTCT
673684 TTTT
64 TTTT
* * *
673688 AAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTTT-AAGTCCACAATTTCGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTAGCAC-C-TTTTT-CTTTTAAAGCCCACAATTCCGTGGCACCCTTTT
673751 AAGTCCACAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
69 26 0.46
70 20 0.36
71 5 0.09
72 5 0.09
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (67 bp):
AAAGCCCACAACTCCGTAGCACCTTTTTCTTTTAAAGCCCACAATTCCGTGGCACCCTTTTCTTT
TT
Found at i:673952 original size:39 final size:39
Alignment explanation
Indices: 673906--674056 Score: 149
Period size: 39 Copynumber: 3.6 Consensus size: 39
673896 GACCAATGTC
673906 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATT
1 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATT
* * * * *
673945 GCTGGCCTTGACTCAGCATATTGGCACCTTGTCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCA---------TAAGCCCAATATT
*
673993 ACTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATT
1 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATT
* *
674032 GCTGGCCTTGACTCAGCATATTGGC
1 GCTGGCCTTGAATCAGCACATTGGC
674057 GCCTTTGTCA
Statistics
Matches: 89, Mismatches: 14, Indels: 18
0.74 0.12 0.15
Matches are distributed among these distances:
39 56 0.63
48 33 0.37
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (39 bp):
GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATT
Found at i:674131 original size:39 final size:39
Alignment explanation
Indices: 674071--674148 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
674061 TTGTCATCTT
*
674071 TAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA
* * *
674110 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA
674149 CCTTATCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (39 bp):
TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA
Found at i:674131 original size:91 final size:90
Alignment explanation
Indices: 673845--674492 Score: 679
Period size: 87 Copynumber: 7.0 Consensus size: 90
673835 CGTCTTCTTC
* * *
673845 TAAGTCCAATATTGCTGGCCTTGAGTTAGCATATTGGCACC-TTG--TCTTTAAGACCAATGTCG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTATCTTTAAGACCAATGTCG
673907 CTGGCCTTGAATCAGCACATTGGCA
66 CTGGCCTTGAATCAGCACATTGGCA
* * * *
673932 TAAGCCCAATATTGCTGGCCTTGACTCAGCATATTGGCACC-TTG--TCTTTAAGACCAATGTCA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTATCTTTAAGACCAATGTCG
673994 CTGGCCTTGAATCAGCACATTGGCA
66 CTGGCCTTGAATCAGCACATTGGCA
* * * *
674019 TAAGCCCAATATTGCTGGCCTTGACTCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGT-ATCTTTAAGACCAATGTC
*
674084 GCTAGCCTTGAATCAGCACATTGGCA
65 GCTGGCCTTGAATCAGCACATTGGCA
* *
674110 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TATCTTTAAGATCAATGTCG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTATCTTTAAGACCAATGTCG
*
674172 CTGGCCGTGAATCAGCACATTGGCA
66 CTGGCCTTGAATCAGCACATTGGCA
* * *
674197 CTTTTAAATCCAATATCGCCGGCCTTGAATCAGCATATTGGCACCTTTGT-T-TTTAGGACCAAT
1 ----TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTATCTTTAAGACCAAT
*
674260 GTTGCTGGCCTTGAATCAGCACATTGGCACCTTCA
62 GTCGCTGGCCTTGAATCAGCACATTGG------CA
* * * *
674295 TCTTTAAGTCCAATATCGCTGGCCTTGAGTCAGCATATTGGCACCTTCGTCATCTTTAAAACTAA
1 ----TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGT-ATCTTTAAGACCAA
*
674360 TGTCGCTGGCCTTGAATCAACACATTGGCACCTTTA
61 TGTCGCTGGCCTTGAATCAGCACATTGG---C---A
* ** * *
674396 TCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCTTCTTCGTCATCTTTAAAACCCA
1 ----TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGT-ATCTTTAAGA-CCA
* * *
674461 ATGTCGTTGGCCTTGAATCAGCATATTAGCA
60 ATGTCGCTGGCCTTGAATCAGCACATTGGCA
674492 T
1 T
674493 TCTTCTCATC
Statistics
Matches: 495, Mismatches: 42, Indels: 43
0.85 0.07 0.07
Matches are distributed among these distances:
87 164 0.33
88 4 0.01
89 1 0.00
91 117 0.24
92 36 0.07
93 2 0.00
94 1 0.00
96 1 0.00
98 48 0.10
99 1 0.00
100 1 0.00
101 92 0.19
102 27 0.05
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (90 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCA
Found at i:674145 original size:178 final size:177
Alignment explanation
Indices: 673845--674492 Score: 710
Period size: 178 Copynumber: 3.5 Consensus size: 177
673835 CGTCTTCTTC
* *
673845 TAAGTCCAATATTGCTGGCCTTGAGTTAGCATATTGGCACC-TTG-TCTTTAAGACCAATGTCGC
1 TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTCTTTAAGACCAATGTCGC
* *
673908 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATTGCTGGCCTTGACTCAGCATATTGGCACC
66 TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
*
673973 TTGTCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCA-
131 TTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
* * *
674019 TAAGCCCAATATTGCTGGCCTTGACTCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTC
1 TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTGT--TCTTTAAGACCAATGTC
*
674084 GCTAGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
64 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * *
674149 CCTTATCTTTAAGATCAATGTCGCTGGCCGTGAATCAGCACATTGGCACTTT
129 CCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---T
* * * * *
674201 TAAATCCAATATCGCCGGCCTTGAATCAGCATATTGGCACCTTTGTT-TTTAGGACCAATGTTGC
1 TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTCTTTAAGACCAATGTCGC
* *
674265 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAGTCAGCA
66 TGGCCTTGAATCAGCACATTGG------CA----TAAGCCCAATATCGCTGGCCTTGAATCAGCA
* * *
674330 TATTGGCACCTTCGTCATCTTTAAAACTAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTT
121 TATTGGCACCTT-G---TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG---C---
674395 ATCTT
176 A---T
* * ** * *
674400 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCTTCTTCGTCATCTTTAAAACCCAATGT
1 TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTGT--TCTTTAAGA-CCAATGT
* * *
674465 CGTTGGCCTTGAATCAGCATATTAGCAT
63 CGCTGGCCTTGAATCAGCACATTGGCAT
674493 TCTTCTCATC
Statistics
Matches: 400, Mismatches: 42, Indels: 45
0.82 0.09 0.09
Matches are distributed among these distances:
174 37 0.09
175 3 0.01
178 123 0.31
179 36 0.09
180 1 0.00
182 40 0.10
185 2 0.00
189 41 0.10
193 37 0.09
196 1 0.00
197 2 0.00
199 43 0.11
201 1 0.00
202 5 0.01
203 28 0.07
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (177 bp):
TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTCTTTAAGACCAATGTCGC
TGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
TTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
Found at i:674270 original size:49 final size:49
Alignment explanation
Indices: 674110--674487 Score: 340
Period size: 49 Copynumber: 7.7 Consensus size: 49
674100 CACATTGGCA
* * *
674110 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTT
* * *
674158 TAAGATCAATGTCGCTGGCCGTGAATCAGCACATTGGCA----C--TTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTT
* * **
674201 TAA-ATCCAATATCGCCGGCCTTGAATCAGCATATTGGCACCTTTGTTTT
1 TAAGA-CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTT
* * * *
674250 TAGGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTT
* * * *
674299 TAAGTCCAATATCGCTGGCCTTGAGTCAGCATATTGGCACCTTCGTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATTTT
* * * * * *
674351 TAAAACTAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTT
* * * * * *
674400 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCTTCTTCGTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGC-AC--CTTCATTTT
* *
674452 TAAAACCCAATGTCGTTGGCCTTGAATCAGCATATT
1 TAAGA-CCAATGTCGCTGGCCTTGAATCAGCATATT
674488 AGCATTCTTC
Statistics
Matches: 265, Mismatches: 49, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
42 1 0.00
43 34 0.13
48 34 0.13
49 114 0.43
50 3 0.01
51 1 0.00
52 51 0.19
53 27 0.10
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTT
Found at i:674399 original size:101 final size:99
Alignment explanation
Indices: 674110--674483 Score: 480
Period size: 101 Copynumber: 3.8 Consensus size: 99
674100 CACATTGGCA
* * *
674110 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TATCTTTAAGATCAATGTCG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTATCTTTAAAACCAATGTCG
*
674172 CTGGCCGTGAATCAGCACATTGGCA-C---T-TT
66 CTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * * ** *
674201 TAAATCCAATATCGCCGGCCTTGAATCAGCATATTGGCACCTTTGT-T-TTTAGGACCAATGTTG
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTATCTTTAAAACCAATGTCG
674264 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
66 CTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
* *
674299 TAAGTCCAATATCGCTGGCCTTGAGTCAGCATATTGGCACCTTCGTCATCTTTAAAACTAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGT-ATCTTTAAAACCAATGTC
*
674364 GCTGGCCTTGAATCAACACATTGGCACCTTTATCTT
65 GCTGGCCTTGAATCAGCACATTGGCACC-TTATCTT
* **
674400 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCTTCTTCGTCATCTTTAAAACCCAATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGT-ATCTTTAAAA-CCAATGT
*
674465 CGTTGGCCTTGAATCAGCA
64 CGCTGGCCTTGAATCAGCA
674484 TATTAGCATT
Statistics
Matches: 246, Mismatches: 23, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
91 38 0.15
92 38 0.15
93 2 0.01
94 1 0.00
97 1 0.00
98 44 0.18
100 1 0.00
101 96 0.39
102 25 0.10
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (99 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTATCTTTAAAACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACCTTATCTT
Found at i:674517 original size:53 final size:51
Alignment explanation
Indices: 674199--674541 Score: 329
Period size: 49 Copynumber: 6.7 Consensus size: 51
674189 CATTGGCACT
* * * * *
674199 TTTAAATCCAATATCGCCGGCCTTGAATCAGCATATTGGCACCTT-T-GTT
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCATC
* * * *
674248 TTTAGGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACC-T-TCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCATC
* *
674297 TTTAAGTCCAATATCGCTGGCCTTGAGTCAGCATATTGGCACCTTCGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCATC
** * * *
674349 TTTAAAACTAATGTCGCTGGCCTTGAATCAACACATTGGCACCTT-T-ATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCATC
* * **
674398 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCTTCTTCGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCATC
** * * *
674450 TTTAAAACCCAATGTCGTTGGCCTTGAATCAGCATATTAGCATTCTTCTCATC
1 TTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTTCTCATC
* * * * *
674503 TTCAAGTCTAAATGTCGCTGACCATGAATCAGCACATTG
1 TTTAAGTC-CAATGTCGCTGGCCTTGAATCAGCATATTG
674542 ACATCCTTTT
Statistics
Matches: 237, Mismatches: 47, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
48 2 0.01
49 113 0.48
50 2 0.01
51 1 0.00
52 52 0.22
53 62 0.26
54 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (51 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCATC
Found at i:684335 original size:33 final size:32
Alignment explanation
Indices: 684289--684356 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
684279 CGTTAGAAGC
*
684289 CAATGTATCGATACAT-TTGGTCATGTATCAATA
1 CAATGTATAGATACATCTT-GT-ATGTATCAATA
*
684322 CAATGTATAGATACATCTTGTATGTATCGATA
1 CAATGTATAGATACATCTTGTATGTATCAATA
684354 CAA
1 CAA
684357 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 17 0.53
34 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (32 bp):
CAATGTATAGATACATCTTGTATGTATCAATA
Found at i:684454 original size:13 final size:13
Alignment explanation
Indices: 684436--684460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
684426 TACAGTGGTC
684436 ATGTATCGATACA
1 ATGTATCGATACA
684449 ATGTATCGATAC
1 ATGTATCGATAC
684461 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:684478 original size:33 final size:32
Alignment explanation
Indices: 684419--684481 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
684409 TTCTTTGCAA
*
684419 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
684451 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
684482 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:685219 original size:23 final size:23
Alignment explanation
Indices: 685188--685234 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
685178 ACGATATATG
685188 AATAAAATATAAAAAATAAC-TAA
1 AATAAAATAT-AAAAATAACATAA
*
685211 AATATAATATAAAAATAACATAA
1 AATAAAATATAAAAATAACATAA
685234 A
1 A
685235 CATGATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (23 bp):
AATAAAATATAAAAATAACATAA
Found at i:685242 original size:22 final size:23
Alignment explanation
Indices: 685193--685242 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
685183 ATATGAATAA
*
685193 AATATAAAAAATAACTAAAATAT
1 AATATAAAAAATAACTAAAACAT
685216 AATAT-AAAAATAAC-ATAAACAT
1 AATATAAAAAATAACTA-AAACAT
*
685238 GATAT
1 AATAT
685243 GAATATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (23 bp):
AATATAAAAAATAACTAAAACAT
Found at i:686176 original size:22 final size:22
Alignment explanation
Indices: 686150--686195 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
686140 TTAGGTCATT
686150 TTCAAGTTCAATTT-GTTTCGAG
1 TTCAAGTT-AATTTGGTTTCGAG
*
686172 TTCAAGTTATTTTGGTTTCGAG
1 TTCAAGTTAATTTGGTTTCGAG
686194 TT
1 TT
686196 ATCCTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.50
Consensus pattern (22 bp):
TTCAAGTTAATTTGGTTTCGAG
Found at i:686680 original size:21 final size:23
Alignment explanation
Indices: 686656--686717 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 23
686646 ACTAGAAGAG
686656 AAGAGAAGAAAG-AAGAAA-AAA
1 AAGAGAAGAAAGAAAGAAAGAAA
*
686677 AAGAGAAAAAAGAAAGAAAGAAA
1 AAGAGAAGAAAGAAAGAAAGAAA
686700 AAGA-AAGAAA-AAA-AAAGA
1 AAGAGAAGAAAGAAAGAAAGA
686718 GAGAAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 5 0.14
21 14 0.38
22 11 0.30
23 7 0.19
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (23 bp):
AAGAGAAGAAAGAAAGAAAGAAA
Found at i:686683 original size:14 final size:14
Alignment explanation
Indices: 686666--686726 Score: 62
Period size: 13 Copynumber: 4.8 Consensus size: 14
686656 AAGAGAAGAA
686666 AGAAGAAAAAAAAG
1 AGAAGAAAAAAAAG
*
686680 AGAA-AAAAGAAAG
1 AGAAGAAAAAAAAG
*
686693 A-AAGAAAAAGAA-
1 AGAAGAAAAAAAAG
686705 AG-A-AAAAAAAAG
1 AGAAGAAAAAAAAG
686717 AG-AGAAAAAA
1 AGAAGAAAAAA
686727 TTGCCCACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 7 0.18
12 7 0.18
13 21 0.54
14 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AGAAGAAAAAAAAG
Found at i:686710 original size:10 final size:10
Alignment explanation
Indices: 686656--686717 Score: 61
Period size: 11 Copynumber: 5.8 Consensus size: 10
686646 ACTAGAAGAG
686656 AAGAGAAGAAA
1 AAGA-AAGAAA
*
686667 GAAGAAAAAAA
1 -AAGAAAGAAA
*
686678 AGAGAAAAAAGA
1 A-AGAAAGAA-A
686690 AAGAAAGAAA
1 AAGAAAGAAA
686700 AAGAAAGAAA
1 AAGAAAGAAA
*
686710 AAAAAAGA
1 AAGAAAGA
686718 GAGAAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.42
11 20 0.44
12 6 0.13
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:689043 original size:20 final size:20
Alignment explanation
Indices: 689015--689085 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
689005 TTTTACCCAG
689015 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
689035 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
689055 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
689075 ATGTATCGATA
1 ATGTATCGATA
689086 TATTATATAT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:693762 original size:19 final size:19
Alignment explanation
Indices: 693738--693795 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
693728 TTTGAATCGA
693738 TTCATTGTATCGATACATG
1 TTCATTGTATCGATACATG
*
693757 TTCATTGTATCGATACATA
1 TTCATTGTATCGATACATG
**
693776 CACAATTGTATCGATACATG
1 TTC-ATTGTATCGATACATG
693796 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (19 bp):
TTCATTGTATCGATACATG
Found at i:693863 original size:13 final size:13
Alignment explanation
Indices: 693845--693869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
693835 CATGGCACAT
693845 TGTATCGATACAA
1 TGTATCGATACAA
693858 TGTATCGATACA
1 TGTATCGATACA
693870 TGAATAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:693863 original size:33 final size:33
Alignment explanation
Indices: 693826--693893 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
693816 ACCACTGTTG
* *
693826 GTATCGAAACATGGCA-CATTGTATCGATACAAT
1 GTATCGAAACAT-GAATAATTGTATCGATACAAT
*
693859 GTATCGATACATGAATAATTGTATCGATACAAT
1 GTATCGAAACATGAATAATTGTATCGATACAAT
693892 GT
1 GT
693894 CCCAAACAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 2 0.06
33 29 0.94
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (33 bp):
GTATCGAAACATGAATAATTGTATCGATACAAT
Found at i:695505 original size:15 final size:15
Alignment explanation
Indices: 695485--695519 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
695475 AACCATCAAA
695485 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
695500 GATGATGATGATAAT
1 GATGATGAAGATAAT
695515 GATGA
1 GATGA
695520 AGTTGACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:707265 original size:23 final size:25
Alignment explanation
Indices: 707205--707279 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 25
707195 ACTACATGCT
*
707205 TTGCTTTGCTGTTGCT-GTGTTAGAG
1 TTGCTTT-CAGTTGCTGGTGTTAGAG
*
707230 TTGCTGTCAGTTGCTGGTGTT-G-G
1 TTGCTTTCAGTTGCTGGTGTTAGAG
* * *
707253 TTGCTTTCGGTTGCTGCTGCTAGAG
1 TTGCTTTCAGTTGCTGGTGTTAGAG
707278 TT
1 TT
707280 TGTCGTTTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
23 18 0.44
24 9 0.22
25 14 0.34
ACGTcount: A:0.07, C:0.15, G:0.33, T:0.45
Consensus pattern (25 bp):
TTGCTTTCAGTTGCTGGTGTTAGAG
Found at i:707662 original size:44 final size:43
Alignment explanation
Indices: 707549--707663 Score: 105
Period size: 44 Copynumber: 2.7 Consensus size: 43
707539 TTCCTTCCTA
**
707549 TTTCGATTCTGTTTTTGTCTTC-TTTTTC-TTTTTCTCTTGCTGT
1 TTTCGATTCT-TTTTCCT-TTCTTTTTTCTTTTTTCTCTTGCTGT
* *
707592 TTTCGATTGC--TTTCCTTCTCTCTTTTCTTTTATTTTCTTGCTG-
1 TTTCGATT-CTTTTTCCTT-TCTTTTTTCTTTT-TTCTCTTGCTGT
707635 TTTCGATTCTATTTTCCTTTCTTTTTTCT
1 TTTCGATTCT-TTTTCCTTTCTTTTTTCT
707664 AGCTACCATT
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
40 1 0.02
41 6 0.10
42 6 0.10
43 19 0.32
44 20 0.34
45 7 0.12
ACGTcount: A:0.04, C:0.21, G:0.09, T:0.66
Consensus pattern (43 bp):
TTTCGATTCTTTTTCCTTTCTTTTTTCTTTTTTCTCTTGCTGT
Found at i:708103 original size:9 final size:9
Alignment explanation
Indices: 708091--708155 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
708081 GCATGAAAGC
708091 ATGCATGAA
1 ATGCATGAA
708100 ATGCATGAA
1 ATGCATGAA
708109 ATGCATGAA
1 ATGCATGAA
* *
708118 ATGTTTATG-C
1 ATG--CATGAA
*
708128 ATGCGTGAA
1 ATGCATGAA
708137 A--CATGAA
1 ATGCATGAA
708144 ATGCATGAA
1 ATGCATGAA
708153 ATG
1 ATG
708156 TGTTTCTTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
7 6 0.13
8 2 0.04
9 31 0.69
10 3 0.07
11 3 0.07
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (9 bp):
ATGCATGAA
Found at i:708426 original size:19 final size:20
Alignment explanation
Indices: 708366--708426 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 20
708356 CTAATTCGAT
708366 TTTTAT-AA-TTTTAATTTTA
1 TTTTATCAATTTTTAA-TTTA
* * **
708385 TTTTATTATTTTTTAATACA
1 TTTTATCAATTTTTAATTTA
708405 TTTT-TCAATTTTTAATTTA
1 TTTTATCAATTTTTAATTTA
708424 TTT
1 TTT
708427 ATTTTTTTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 20 0.61
20 7 0.21
21 6 0.18
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATCAATTTTTAATTTA
Found at i:709016 original size:42 final size:42
Alignment explanation
Indices: 708960--710772 Score: 930
Period size: 42 Copynumber: 43.0 Consensus size: 42
708950 AAAAAGTGGA
* *
708960 AAAGTCTCC-AGGTCAAAGCCGACGGGCAAACTGAGGGTAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
** * * *
709001 AAAGTCTCCAAGGTCAAATTCGACAGGCAAACTTTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * * *
709044 -CAGTCTCCAGGGTTAAAGGCGATAGGCAGACTGAGGGTAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * * * *
709085 AAAGTCT-CTAGAGTCAAAACTGATAGGTAGACTTTA-GATGAGG
1 AAAGTCTCCAAG-GTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * *
709128 -CAGTCTCCAAGGTCAAAGCCGACAGGCAGACCGAGGGTAGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * *
709169 AAAATCTCTAGGGTCAAAGCTGACAAGCAGACTTGAGGGTAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGTAGG
* * * * *
709212 AAAGTCTCC-AGAGTCAAAGCCGACAAGCAGATTTTA-GATGGG
1 AAAGTCTCCAAG-GTCAAAGCCGACAGGCAGA-CTGAGGGTAGG
** * *
709254 TTAGTCTCC-AGGATCAAAGCCAACATGCAGACTGAGGGTAGG
1 AAAGTCTCCAAGG-TCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * * * *
709296 AAAGT-TCCCAAGGTCAAAACCAATAGGCAAACTTTA-GATAAG
1 AAAGTCT-CCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGTAGG
** *
709338 ACAA-TCT-TTAGAGTCAAAGCCGACAAGCAGACTGAGGGTAGG
1 A-AAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTGAGGGTAGG
* *
709380 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACATTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * *
709423 -CAGTCTCCAAGGTCACAGTCGACAGGCAGACTGAGGGGTAAG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGA-GGGTAGG
* *
709465 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGATAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * *
709507 AAAGTCTCCAAGGTCAAAGCCGACAAGTAGACTAAAGGGTAAG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-GAGGGTAGG
* * ** * * * *
709550 AAAGTCTCTAGGGTCAAAGCTAACAGGTAGATTTTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGA-CTGAGGGT-AGG
* * * *
709593 -CAGTCTCCACGGTCAAAGTCGACAGGTAGACTGAGGGT-GTG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAG-G
* * * *
709634 AAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* ** * *
709677 -CAGTCT-TTAGAGTCAAAGTCGACAGGCAAACTGAGGGTAGG
1 AAAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * *
709718 AAAGTCTCCAAGGTCAAAGTCAACAGGCAGACTTTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * * * * ** **
709761 -CAGTCTCTAGGGTCAAAGCCAACAGGCATACTAAAAAGTAAA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-GAGGGTAGG
* * * * * *
709803 AAAGTCTTCAAGGTCAAAGCCGATAGGTAGATTTTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGA-CTGAGGGT-AGG
* * * * *
709846 -CA-TCTCCAAGGTCACAGCCGACAGGCAAACTAAAGGGTAAG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-GAGGGTAGG
* * * * * * *
709887 AAAGTCTCTAGGGTCAAAGTCGACAAGCAAACTTTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * * * * * *
709930 CAA-TCTCTAGGGTCACAGCTGACAGGCAGACTAAACGGTAAG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-GAGGGTAGG
* * * *
709972 ACAA-TCTCCAAGGTCAAAGCTGACAAGTAGACTGAGGATAGG
1 A-AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * * * *
710014 AAAGTCTCTAGGGTCAAAGCTGATAGGCAAACTTTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * * *
710057 -TAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * *
710099 -CAGTCTCTAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * * *
710140 AAAGTCTCTAAGGTTAAAGCCAACAAGTAGACTTTA-GGTGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * *
710183 -CAGTCTCTAGGGTCAAAGCCGACAGGCAGATTGAGGGTAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * *
710224 AAAGTCTCTAGGGTCAAAGCCGACAGGCAAATTGAGGGTAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * *
710266 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * * ** * *
710309 -CAGTTTCCAAGGTCAAAGCTGATAGATAGACTGAAAGGTAAG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG-AGGGTAGG
* * * * *
710351 AAAGTTTCCAAGGGCAAAGTCGACAGGCAGAATTTA-GGTA--
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAG-ACTGAGGGTAGG
* * * *
710391 AAGTAGTCT-CTAGAGTCACAGCCGATAGGCAGACTGAAGGGTAAG
1 AA--AGTCTCCAAG-GTCAAAGCCGACAGGCAGACTG-AGGGTAGG
* *
710436 AAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTA-GGTAAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * * *
710479 -CAGTCTCTAAGTTCAAAGCTGGCAGGCAGACTGAAGGGTAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG-AGGGTAGG
*
710521 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGGTAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG-AGGGTAGG
* * * **
710564 AAAGTCTCCAAGGTCAAAGCCGATATGCAGACTAAGGGTAAA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * *
710606 AAAGTCTCCAAGGTCAAAGCTGATAAGCAGACTTTA-GATGAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * * * * *
710649 -TAGTCTCCAAGGTCAATGTCGACAAGCAAATTGAGGATAGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * *
710690 AAAGTCTCTAAGGTCAAAGCCGATAGGCAGACTTTAGACG-AGG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TGAG-GGTAGG
* * * *
710733 -TAGTCTCCAAGGTCAAAGTCGACAGACAAACTGAAGGGTA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTG-AGGGTA
710773 AGACCAGGGT
Statistics
Matches: 1349, Mismatches: 328, Indels: 189
0.72 0.18 0.10
Matches are distributed among these distances:
40 4 0.00
41 93 0.07
42 871 0.65
43 369 0.27
44 10 0.01
45 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (42 bp):
AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
Found at i:709311 original size:127 final size:126
Alignment explanation
Indices: 709069--709313 Score: 298
Period size: 127 Copynumber: 1.9 Consensus size: 126
709059 AAGGCGATAG
* * * * *
709069 GCAGACTGAGGGTAGGAAAGTCTCTAGAGTCAAAACTGATAGGTAGACTTTAGATGAGGCAGTCT
1 GCAGACTGAGGGTAGGAAAGTCTCCAGAGTCAAAACCGACAAGCAGACTTTAGATGAGGCAGTCT
* * *
709134 CCAAGGTCAAAGCCGACAGGCAGACCGAGGGTAGAAAAATCTCTAGGGTCAAAGCTGACAA
66 CCAAGGTCAAAGCCAACAGGCAGACCGAGGGTAGAAAAATCTCCAAGGTCAAAGCTGACAA
* * *
709195 GCAGACTTGAGGGTAGGAAAGTCTCCAGAGTCAAAGCCGACAAGCAGATTTTAGATG-GGTTAGT
1 GCAGAC-TGAGGGTAGGAAAGTCTCCAGAGTCAAAACCGACAAGCAGACTTTAGATGAGG-CAGT
* * * *
709259 CTCC-AGGATCAAAGCCAACATGCAGACTGAGGGTAGGAAAGT-TCCCAAGGTCAAA
64 CTCCAAGG-TCAAAGCCAACAGGCAGACCGAGGGTAGAAAAATCT-CCAAGGTCAAA
709314 ACCAATAGGC
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
126 12 0.12
127 88 0.88
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (126 bp):
GCAGACTGAGGGTAGGAAAGTCTCCAGAGTCAAAACCGACAAGCAGACTTTAGATGAGGCAGTCT
CCAAGGTCAAAGCCAACAGGCAGACCGAGGGTAGAAAAATCTCCAAGGTCAAAGCTGACAA
Found at i:709356 original size:211 final size:211
Alignment explanation
Indices: 708958--710750 Score: 627
Period size: 211 Copynumber: 8.5 Consensus size: 211
708948 ACAAAAAGTG
* ** * **
708958 GAAAAGTCTCC-AGGTCAAAGCCGACGGGCAAAC-TGAGGGTAGGAAAGTCTCCAAGGTCAAATT
1 GAAAAATCTCCAAGGTCAAAGCCGACAAGCAGACTTGAGGGTAGGAAAGTCTCCAAGGTCAAAGC
* * * * * *
709021 CGACAGGCAAACTTTAGATGAGGCAGTCTCCAGGGTTAAAGGCGATAGGCAGACTGAGGGTAGGA
66 CGACAAGCAAACTTTAGATGAGGCAGTCTCCAGGATCAAAGCCAACAGGCAGACTGAGGGTAGGA
* * ** * * * * *
709086 AAGTCTCTAGAGTCAAAACTGATAGGTAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGAC
131 AAGTCCCAAGAGTCAAAACCAATAGGCAAACTTTAGATAAGACAATCTCCAAGGTCAAAGCCGAC
*
709151 AGGCAGACCGAGGGTA
196 AAGCAGACCGAGGGTA
* * *
709167 GAAAAATCTCTAGGGTCAAAGCTGACAAGCAGACTTGAGGGTAGGAAAGTCTCC-AGAGTCAAAG
1 GAAAAATCTCCAAGGTCAAAGCCGACAAGCAGACTTGAGGGTAGGAAAGTCTCCAAG-GTCAAAG
* * * *
709231 CCGACAAGCAGATTTTAGATG-GGTTAGTCTCCAGGATCAAAGCCAACATGCAGACTGAGGGTAG
65 CCGACAAGCAAACTTTAGATGAGG-CAGTCTCCAGGATCAAAGCCAACAGGCAGACTGAGGGTAG
**
709295 GAAAGTTCCCAAG-GTCAAAACCAATAGGCAAACTTTAGATAAGACAATCT-TTAGAGTCAAAGC
129 GAAAG-TCCCAAGAGTCAAAACCAATAGGCAAACTTTAGATAAGACAATCTCCAAG-GTCAAAGC
*
709358 CGACAAGCAGACTGAGGGTA
192 CGACAAGCAGACCGAGGGTA
* * * * * *
709378 GGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACATT-A-GATGAGG-CAGTCTCCAAGGTCACA
1 GAAAAATCTCCAAGGTCAAAGCCGACAAGCAGAC-TTGAGGGT-AGGAAAGTCTCCAAGGTCAAA
* * * * * * ** * * *
709440 GTCGACAGGCAGAC-TGAGGGGTAAGAAAGTCTCCAAGG-TCAAAGCCGACAGGCAGACTAAGGA
64 GCCGACAAGCAAACTTTA--GATGAGGCAGTCTCC-AGGATCAAAGCCAACAGGCAGACTGAGGG
* * * * * * ** * * *
709503 TAGGAAAGTCTCCAAG-GTCAAAGCCGACAAGTAGACTAAAGGGTAAGA-AAGTCTCTAGGGTCA
126 TAGGAAAGTC-CCAAGAGTCAAAACCAATAGGCAAACTTTA-GATAAGACAA-TCTCCAAGGTCA
** * * *** *
709566 AAGCTAACAGGTAGATTTTA-GAT-
188 AAGCCGACAAGCAGA-CCGAGGGTA
** * * * * * *
709589 GAGGCAGTCTCCACGGTCAAAGTCGACAGGTAGAC-TGAGGGT-GTGAAAGTCTCCAGGGTCAAA
1 GA-AAAATCTCCAAGGTCAAAGCCGACAAGCAGACTTGAGGGTAG-GAAAGTCTCCAAGGTCAAA
* * * ** * * *
709652 GCTGACAGGCAGACTTTAGATGAGGCAGTCTTTA-GAGTCAAAGTCGACAGGCAAACTGAGGGTA
64 GCCGACAAGCAAACTTTAGATGAGGCAGTCTCCAGGA-TCAAAGCCAACAGGCAGACTGAGGGTA
** * * * * * * *
709716 GGAAAGTCTCCAAG-GTCAAAGTCAACAGGCAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAGC
128 GGAAAGTC-CCAAGAGTCAAAACCAATAGGCAAACTTTAGATAAGACAATCTCCAAGGTCAAAGC
* * * ** **
709780 CAACAGGCATACTAAAAAGTA
192 CGACAAGCAGAC-CGAGGGTA
* * * * * * * * *
709801 -AAAAAGTCTTCAAGGTCAAAGCCGATAGGTAGATTTTA-GATGAGG-CA-TCTCCAAGGTCACA
1 GAAAAA-TCTCCAAGGTCAAAGCCGACAAGCAGACTTGAGGGT-AGGAAAGTCTCCAAGGTCAAA
* ** * * ** * * * * * * * *
709862 GCCGACAGGCAAACTAAAGGGTAAGAAAGTCTCTAGGGTCAAAGTCGACAAGCAAACTTTA-GAT
64 GCCGACAAGCAAACTTTA-GATGAGGCAGTCTCCAGGATCAAAGCCAACAGGCAGAC-TGAGGGT
* * * * * * ** * * ** *
709926 GAGGCAA-TCTCTAGGGTCACAGCTGACAGGCAGACTAAACGGTAAGACAATCTCCAAGGTCAAA
127 -AGGAAAGTCCCAAGAGTCAAAACCAATAGGCAAACTTTA-GATAAGACAATCTCCAAGGTCAAA
* * * *
709990 GCTGACAAGTAGACTGAGGATA
190 GCCGACAAGCAGACCGAGGGTA
* * * * * * * * * * *
710012 GGAAAGTCTCTAGGGTCAAAGCTGATAGGCAAACTTTA-GATGAGG-TAGTCTCCAAGGTCAAAG
1 GAAAAATCTCCAAGGTCAAAGCCGACAAGCAGACTTGAGGGT-AGGAAAGTCTCCAAGGTCAAAG
* * * * * * * *
710075 CCGATAGGTAGACTTTAGATGAGGCAGTCTCTAAGG-TCAAAGCCGACAGGCAAACTAAGGGTAG
65 CCGACAAGCAAACTTTAGATGAGGCAGTCTC-CAGGATCAAAGCCAACAGGCAGACTGAGGGTAG
* * * * * * * * * * * * *
710139 GAAAGTCTCTAAG-GTTAAAGCCAACAAGTAGACTTTAGGTGAGGCAGTCTCTAGGGTCAAAGCC
129 GAAAGTC-CCAAGAGTCAAAACCAATAGGCAAACTTTAGATAAGACAATCTCCAAGGTCAAAGCC
* **
710203 GACAGGCAGATTGAGGGTA
193 GACAAGCAGACCGAGGGTA
* * * * * * * *
710222 GGAAAGTCTCTAGGGTCAAAGCCGACAGGCA-AATTGAGGGTAGGAAAGTCTCTAGGGTCAAAGC
1 GAAAAATCTCCAAGGTCAAAGCCGACAAGCAGACTTGAGGGTAGGAAAGTCTCCAAGGTCAAAGC
* * * ** * ** * *
710286 CGACAGGCAGACTTTAGATGAGGCAGTTTCCAAGG-TCAAAGCTGATAGATAGACTGAAAGGTAA
66 CGACAAGCAAACTTTAGATGAGGCAGTCTCC-AGGATCAAAGCCAACAGGCAGACTG-AGGGTAG
* * ** * * * * * * *
710350 GAAAGTTTCCAAG-GGCAAAGTCGACAGGCAGAA-TTTAGGTAA-AGTAGTCT-CTAGAGTCACA
129 GAAAG-TCCCAAGAGTCAAAACCAATAGGCA-AACTTTAGATAAGA-CAATCTCCAAG-GTCAAA
* * *
710411 GCCGATAGGCAGACTGAAGGGTA
190 GCCGACAAGCAGACCG-AGGGTA
* * * * *
710434 -AGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTA-GGTAAGG-CAGTCTCTAAGTTCAAA
1 GA-AAAATCTCCAAGGTCAAAGCCGACAAGCAGACTTGAGGGT-AGGAAAGTCTCCAAGGTCAAA
* * * * ** * * * *
710496 GCTGGCAGGCAGACTGAAG-GGTAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGG
64 GCCGACAAGCAAACTTTAGATG-AGG-CAGTCTCCAGGATCAAAGCCAACAGGCAGACTG-AGGG
* * * * * * *
710560 TAGGAAAGTCTCCAAG-GTCAAAGCCGATATGCAGAC-TAAGGGTAA-AAAAGTCTCCAAGGTCA
126 TAGGAAAGTC-CCAAGAGTCAAAACCAATAGGCAAACTTTA-GATAAGACAA-TCTCCAAGGTCA
* * ** *
710622 AAGCTGATAAGCAGACTTTA-GAT-
188 AAGCCGACAAGCAGAC-CGAGGGTA
** * * * * * *
710645 GAGGTAGTCTCCAAGGTCAATGTCGACAAGCA-AATTGAGGATAGGAAAGTCTCTAAGGTCAAAG
1 GA-AAAATCTCCAAGGTCAAAGCCGACAAGCAGACTTGAGGGTAGGAAAGTCTCCAAGGTCAAAG
* * * * *
710709 CCGATAGGCAGACTTTAGACGAGGTAGTCTCCAAGG-TCAAAG
65 CCGACAAGCAAACTTTAGATGAGGCAGTCTCC-AGGATCAAAG
710751 TCGACAGACA
Statistics
Matches: 1211, Mismatches: 301, Indels: 142
0.73 0.18 0.09
Matches are distributed among these distances:
209 19 0.02
210 248 0.20
211 539 0.45
212 307 0.25
213 94 0.08
214 4 0.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (211 bp):
GAAAAATCTCCAAGGTCAAAGCCGACAAGCAGACTTGAGGGTAGGAAAGTCTCCAAGGTCAAAGC
CGACAAGCAAACTTTAGATGAGGCAGTCTCCAGGATCAAAGCCAACAGGCAGACTGAGGGTAGGA
AAGTCCCAAGAGTCAAAACCAATAGGCAAACTTTAGATAAGACAATCTCCAAGGTCAAAGCCGAC
AAGCAGACCGAGGGTA
Found at i:709626 original size:338 final size:335
Alignment explanation
Indices: 709129--710248 Score: 1109
Period size: 338 Copynumber: 3.3 Consensus size: 335
709119 TAGATGAGGC
** * * * * * *
709129 AGTCTCCAAGGTCAAAGCCGACAGGCAGACCGAGGGT-AGAAAAATCTCTAGGGTCAAAGCTGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGATGAG-GAAGTCTCCAAGGTCAAAGCCGAC
** * * * * *
709193 AAGCAGACTTGAGGGTAGGAAAGTCTCCAGAGTCAAAGCCGACAAGCAGATTTTAGATG-GGTTA
65 AAGCAGACTAAAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGACAAGCAGATTTTAGATGAGG-CA
* * * ** *
709257 GTCTCCAGGATCAAAGCCAACATGCAGACTGAGGGTAGGAAAGT-TCCCAAGGTCAAAACCAATA
129 GTCTCCAGG-TCAAAG-CGACAGGCAGACTGAGGGTAGGAAAGTCT-CCAAGGTCAAAGCTGACA
* * *
709321 GGCAAACTTTAGATAAGACAATCTTTAGAGTCAAAGCCGACAAGCAGACTGAGGGTAGGAAAGTC
191 GGCAGACTTTAGATAAGACAATCTTTAGAGTCAAAGCCGACAGGCAAACTGAGGGTAGGAAAGTC
* * * *
709386 TCCAAGGTCAAAGCCGACAGGCAGACATTAGATGAGGCAGTCTCCAAGGTCACAGTCGACAGGCA
256 TCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCA
* *
709451 GACTGAGGGGTAAGAA
321 AACT-AAGGGTAAGAA
*
709467 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGAT-AGGAAAGTCTCCAAGGTCAAAGCCGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGATGAGG-AAGTCTCCAAGGTCAAAGCCGAC
* * * *
709531 AAGTAGACTAAAGGGTAAGAAAGTCTCTAGGGTCAAAGCTAACAGGTAGATTTTAGATGAGGCAG
65 AAGCAGACTAAAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGACAAGCAGATTTTAGATGAGGCAG
* *
709596 TCTCCACGGTCAAAGTCGACAGGTAGACTGAGGGT-GTGAAAGTCTCCAGGGTCAAAGCTGACAG
130 TCTCCA-GGTCAAAG-CGACAGGCAGACTGAGGGTAG-GAAAGTCTCCAAGGTCAAAGCTGACAG
* * * *
709660 GCAGACTTTAGATGAGGCAGTCTTTAGAGTCAAAGTCGACAGGCAAACTGAGGGTAGGAAAGTCT
192 GCAGACTTTAGATAAGACAATCTTTAGAGTCAAAGCCGACAGGCAAACTGAGGGTAGGAAAGTCT
* * * * *
709725 CCAAGGTCAAAGTCAACAGGCAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAGCCAACAGGCAT
257 CCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAA
** *
709790 ACTAAAAAGTAAAAA
322 ACT-AAGGGTAAGAA
* * * * * *
709805 AGTCTTCAAGGTCAAAGCCGATAGGTAGATTTTA-GATGAGGCA-TCTCCAAGGTCACAGCCGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGA-CTTAGGATGAGGAAGTCTCCAAGGTCAAAGCCGAC
* * * *
709868 AGGCAAACTAAAGGGTAAGAAAGTCTCTAGGGTCAAAG-TCGACAAGCAAACTTTAGATGAGGCA
65 AAGCAGACTAAAGGGTAAGAAAGTCTCTAGGGTCAAAGCT-GACAAGCAGATTTTAGATGAGGCA
* * * * * *
709932 ATCTCTAGGGTCACAGCTGACAGGCAGACTAAACGGTAAGACAA-TCTCCAAGGTCAAAGCTGAC
129 GTCTCCA-GGTCAAAGC-GACAGGCAGACT-GAGGGTAGGA-AAGTCTCCAAGGTCAAAGCTGAC
* * * * * * * * * *
709996 AAGTAGAC-TGAGGATAGGA-AAGTCTCTAGGGTCAAAGCTGATAGGCAAACTTTA-GATGAGG-
190 AGGCAGACTTTA-GATAAGACAA-TCTTTAGAGTCAAAGCCGACAGGCAAAC-TGAGGGT-AGGA
* * *
710057 TAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTTAGATGAGGCAGTCTCTAAGGTCAAAGCCGAC
251 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGTCTCTAAGGTCAAAGCCGAC
*
710122 AGGCAAACTAAGGGTAGGAA
316 AGGCAAACTAAGGGTAAGAA
* * * * * * * *
710142 AGTCTCTAAGGTTAAAGCCAACAAGTAGACTTTAGG-TGAGGCAGTCTCTAGGGTCAAAGCCGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TTAGGATGAGGAAGTCTCCAAGGTCAAAGCCGAC
* ** * *
710206 AGGCAGA-TTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACA
65 AAGCAGACTAAAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGACA
710249 GGCAAATTGA
Statistics
Matches: 648, Mismatches: 114, Indels: 41
0.81 0.14 0.05
Matches are distributed among these distances:
336 2 0.00
337 171 0.26
338 458 0.71
339 17 0.03
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (335 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGATGAGGAAGTCTCCAAGGTCAAAGCCGACA
AGCAGACTAAAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGACAAGCAGATTTTAGATGAGGCAGT
CTCCAGGTCAAAGCGACAGGCAGACTGAGGGTAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAG
ACTTTAGATAAGACAATCTTTAGAGTCAAAGCCGACAGGCAAACTGAGGGTAGGAAAGTCTCCAA
GGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAAACTA
AGGGTAAGAA
Found at i:710378 original size:422 final size:420
Alignment explanation
Indices: 708960--710750 Score: 1301
Period size: 422 Copynumber: 4.2 Consensus size: 420
708950 AAAAAGTGGA
* * * **
708960 AAAGTCTCC-AGGTCAAAGCCGACGGGCAAACTGAGGGTAGGAAAGTCTCCAAGGTCAAATTCGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAAATTGAGGATAGGAAAGTCTCCAAGGTCAAAGCCGA
* * * * * *
709024 CAGGCAAACTTTAGATGAGGCAGTCTCCAGGGTTAAAGGC-GATAGGCAGACTGAGGGTAGGAAA
66 CAGGCAGACTTTAGATGAGGAAGTCTCCAAGGTCAAA-GCTGATAGACAGACT-AAGGTAGGAAA
* * * * * ** * * * *
709088 GTCTCTAGAGTCAAAACTGATAGGTAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACAG
129 GTCTCAAG-GGCAAAGCTGACAGGCAGACTAAAGGTAAGACAATCTCCAAGGTCAAAGCCGACAG
* * * * *
709153 GCAGACCGAGGGTAGAAAAATCTCTAGGGTCAAAGCTGACAAGCAGACTTGAGG-GTAGGAAAGT
193 GCAGACTGAGGATAGGAAAGTCTCCAGGGTCAAAGCTGACAAGCAGACTTGAGGTG-AGG-AAGT
* * ** * *
709217 CTCC-AGAGTCAAAGCCGACAAGCAGATTTTAGATG-GGTTAGTCTC-CAGGATCAAAGCCAACA
256 CTCCAAG-GTCAAAGCCGACAGGCAGACTTTAGATGAGGACAGTCTCTAAGG-TCAAAGCCGACA
* * * * * * *
709279 TGCAGACTGAGGGTAGGAAAGT-TCCCAAGGTCAAAACCAATAGGCAAACTTTAGATAAGACAAT
319 GGCAAACTAAGGGTAGGAAAGTCT-CCAAGGTCAAAGCCAACAGGCAGACTTTAGATAAGACAGT
* *
709343 CTTTAGAGTCAAAGCCGACAAGCAGAC-TGAGGGTAGG
383 CTCTAGGGTCAAAGCCGACAAGCAGACTTGAGGGTAGG
* * *
709380 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACATT-A-GATGAGG-CAGTCTCCAAGGTCACAGT
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCA-A-ATTGAGGAT-AGGAAAGTCTCCAAGGTCAAAGC
* * * * * * *
709442 CGACAGGCAGAC-TGAGGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGATAG
63 CGACAGGCAGACTTTA--GATGAGGAAGTCTCCAAGGTCAAAGCTGATAGACAGACTAAGG-TAG
* * * * * *
709506 GAAAGTCTCCAAGGTCAAAGCCGACAAGTAGACTAAAGGGTAAGA-AAGTCTCTAGGGTCAAAGC
125 GAAAGTCT-CAAGGGCAAAGCTGACAGGCAGACTAAA-GGTAAGACAA-TCTCCAAGGTCAAAGC
** * * * * * * *
709570 TAACAGGTAGATTTTA-GATGAGG-CAGTCTCCACGGTCAAAG-TCGACAGGTAGAC-TGAGGGT
187 CGACAGGCAGA-CTGAGGAT-AGGAAAGTCTCCAGGGTCAAAGCT-GACAAGCAGACTTGA-GGT
* * * * *
709631 GTGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTTTAGATGAGG-CAGTCT-TTAGAGTCAAA
248 GAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGACAGTCTCTAAG-GTCAAA
* * * *
709694 GTCGACAGGCAAACTGAGGGTAGGAAAGTCTCCAAGGTCAAAGTCAACAGGCAGACTTTAGATGA
312 GCCGACAGGCAAACTAAGGGTAGGAAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATAA
* * * * ** ** **
709759 GGCAGTCTCTAGGGTCAAAGCCAACAGGCATACTAAAAAGTAAA
377 GACAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTGAGGGTAGG
* * * * * * *
709803 AAAGTCTTCAAGGTCAAAGCCGATAGGTAGATTTTA-GATGAGG-CA-TCTCCAAGGTCACAGCC
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCA-AATTGAGGAT-AGGAAAGTCTCCAAGGTCAAAGCC
* ** * * * * * * * * *
709865 GACAGGCAAACTAAAGGGTAAGAAAGTCTCTAGGGTCAAAG-TCGACA-AGCAAACTTTAGATGA
64 GACAGGCAGACTTTA-GATGAGGAAGTCTCCAAGGTCAAAGCT-GATAGA-CAGAC-TAAGGT-A
* * *
709928 GGCAA-TCTCTAGGGTCACAGCTGACAGGCAGACTAAACGGTAAGACAATCTCCAAGGTCAAAGC
124 GGAAAGTCTCAAGGG-CAAAGCTGACAGGCAGACTAAA-GGTAAGACAATCTCCAAGGTCAAAGC
* * * * * * * * *
709992 TGACAAGTAGACTGAGGATAGGAAAGTCTCTAGGGTCAAAGCTGATAGGCAAACTTTAGATGAGG
187 CGACAGGCAGACTGAGGATAGGAAAGTCTCCAGGGTCAAAGCTGACAAGCAGACTTGAGGTGAGG
* * *
710057 TAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTTAGATGAGG-CAGTCTCTAAGGTCAAAGCCGA
252 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGACAGTCTCTAAGGTCAAAGCCGA
* * * * * * *
710121 CAGGCAAACTAAGGGTAGGAAAGTCTCTAAGGTTAAAGCCAACAAGTAGACTTTAGGTGAGGCAG
317 CAGGCAAACTAAGGGTAGGAAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATAAGACAG
*
710186 TCTCTAGGGTCAAAGCCGACAGGCAGA-TTGAGGGTAGG
382 TCTCTAGGGTCAAAGCCGACAAGCAGACTTGAGGGTAGG
* * * * *
710224 AAAGTCTCTAGGGTCAAAGCCGACAGGCAAATTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAAATTGAGGATAGGAAAGTCTCCAAGGTCAAAGCCGA
* * * *
710289 CAGGCAGACTTTAGATGAGGCAGTTTCCAAGGTCAAAGCTGATAGATAGACTGAAAGGTAAGAAA
66 CAGGCAGACTTTAGATGAGGAAGTCTCCAAGGTCAAAGCTGATAGACAGACT--AAGGTAGGAAA
* * ** * * * *
710354 GTTTCCAAGGGCAAAG-TCGACAGGCAGAATTTAGGTAA-AGTAGTCT-CTAGAGTCACAGCCGA
129 GTCT-CAAGGGCAAAGCT-GACAGGCAGACTAAAGGTAAGA-CAATCTCCAAG-GTCAAAGCCGA
* * * * * * * *
710416 TAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGGTAAGGCA
190 CAGGCAGACTG-AGGATAGGAAAGTCTCCAGGGTCAAAGCTGACAAGCAGACTTGAGGTGAGGAA
* * * * ** * * * *
710481 GTCTCTAAGTTCAAAGCTGGCAGGCAGACTGAAG-GGTAGGAAAGTCTCCAGGGTCAAAGCCGAC
254 GTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATG-AGGACAGTCTCTAAGGTCAAAGCCGAC
* * * * * * * *
710545 AGGCAGACTGAAGGGTAGGAAAGTCTCCAAGGTCAAAGCCGATATGCAGAC-TAAGGGTAAAAAA
318 AGGCAAACT-AAGGGTAGGAAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTA-GATAAGACA
* * * * * *
710609 GTCTCCAAGGTCAAAGCTGATAAGCAGACTTTA-GATGAGG
381 GTCTCTAGGGTCAAAGCCGACAAGCAGACTTGAGGGT-AGG
* * * * *
710649 -TAGTCTCCAAGGTCAATGTCGACAAGCAAATTGAGGATAGGAAAGTCTCTAAGGTCAAAGCCGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAAATTGAGGATAGGAAAGTCTCCAAGGTCAAAGCCGA
* * *
710713 TAGGCAGACTTTAGACGAGGTAGTCTCCAAGGTCAAAG
66 CAGGCAGACTTTAGATGAGGAAGTCTCCAAGGTCAAAG
710751 TCGACAGACA
Statistics
Matches: 1086, Mismatches: 231, Indels: 104
0.76 0.16 0.07
Matches are distributed among these distances:
420 23 0.02
421 149 0.14
422 591 0.54
423 158 0.15
424 159 0.15
425 6 0.01
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (420 bp):
AAAGTCTCCAAGGTCAAAGCCGACAGGCAAATTGAGGATAGGAAAGTCTCCAAGGTCAAAGCCGA
CAGGCAGACTTTAGATGAGGAAGTCTCCAAGGTCAAAGCTGATAGACAGACTAAGGTAGGAAAGT
CTCAAGGGCAAAGCTGACAGGCAGACTAAAGGTAAGACAATCTCCAAGGTCAAAGCCGACAGGCA
GACTGAGGATAGGAAAGTCTCCAGGGTCAAAGCTGACAAGCAGACTTGAGGTGAGGAAGTCTCCA
AGGTCAAAGCCGACAGGCAGACTTTAGATGAGGACAGTCTCTAAGGTCAAAGCCGACAGGCAAAC
TAAGGGTAGGAAAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATAAGACAGTCTCTAGGG
TCAAAGCCGACAAGCAGACTTGAGGGTAGG
Found at i:710457 original size:170 final size:170
Alignment explanation
Indices: 710184--710664 Score: 562
Period size: 170 Copynumber: 2.8 Consensus size: 170
710174 TAGGTGAGGC
* * * *
710184 AGTCTCTAGGGTCAAAGCCGACAGGCAGATTG-AGGGTAGGAAAGTCTCTAGGGTCAAAGCCGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGAATGAAGGGTA-GAAAGTCTCTAGAGTCAAAGCCGAT
* * * * * *
710248 AGGCAAATTG-AGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAG
65 AGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGATGAGGCAG
* * *
710312 TTTCCAAGGTCAAAGCTGATAGATAGACTGAAAGGTAAGAA
130 TCTCCAAGGTCAAAGCTGACAGACAGACTGAAAGGTAAGAA
* * ** *
710353 AGTTTCCAAGGG-CAAAGTCGACAGGCAGAATTTA-GGTA-AAGTAGTCTCTAGAGTCACAGCCG
1 AGTCTCC-AGGGTCAAAGCCGACAGGCAGAATGAAGGGTAGAA--AGTCTCTAGAGTCAAAGCCG
* *
710415 ATAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGGTAAGGC
63 ATAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGATGAGGC
* * * * * *
710480 AGTCTCTAAGTTCAAAGCTGGCAGGCAGACTGAAGGGTAGGAA
128 AGTCTCCAAGGTCAAAGCTGACAGACAGACTGAAAGGTAAGAA
* *
710523 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGGTAGGAAAGTCTCCA-AGGTCAAAGCCGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGAATGAAGGGTA-GAAAGTCTCTAGA-GTCAAAGCCGA
* * * * *
710587 TATGCAGACT-AAGGGTAAAAAAGTCTCCAAGGTCAAAGCTGATAAGCAGACTTTAGATGAGGTA
64 TAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGATGAGGCA
710651 GTCTCCAAGGTCAA
129 GTCTCCAAGGTCAA
710665 TGTCGACAAG
Statistics
Matches: 261, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
167 2 0.01
169 57 0.22
170 170 0.65
171 30 0.11
173 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (170 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGAATGAAGGGTAGAAAGTCTCTAGAGTCAAAGCCGATA
GGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGATGAGGCAGT
CTCCAAGGTCAAAGCTGACAGACAGACTGAAAGGTAAGAA
Found at i:711054 original size:44 final size:44
Alignment explanation
Indices: 710962--711172 Score: 130
Period size: 44 Copynumber: 4.8 Consensus size: 44
710952 GTTAGAAGGG
**
710962 TTTGACCATAGTGGTAACCATACATCAAAAAGAAAGGAAAGAGA
1 TTTGACCAGGGTGGTAACCATACATCAAAAAGAAAGGAAAGAGA
** * **
711006 TTTGATGAGGGTGGTAACCATACATCACACTGAAATGAGAAA-AG-
1 TTTGACCAGGGTGGTAACCATACATCAAAAAGAAA-G-GAAAGAGA
* * *
711050 TTTGACCAGGGTAGTAACCAATACAATCAAACA-AAA-CAAAG-GTA
1 TTTGACCAGGGTGGTAACC-ATAC-ATCAAAAAGAAAGGAAAGAG-A
* * ** * *
711094 GTTTGACTAGGGTGGTAACTATATGTCAAATCA-AAATGAAA-AGAA
1 -TTTGACCAGGGTGGTAACCATACATCAAA-AAGAAAGGAAAGAG-A
* * *
711139 TCTGACCAGGGTGGTACCCATACATCAAACAGAA
1 TTTGACCAGGGTGGTAACCATACATCAAAAAGAA
711173 TAGAGGCAGA
Statistics
Matches: 129, Mismatches: 26, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
42 4 0.03
43 7 0.05
44 77 0.60
45 31 0.24
46 10 0.08
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.21
Consensus pattern (44 bp):
TTTGACCAGGGTGGTAACCATACATCAAAAAGAAAGGAAAGAGA
Found at i:711447 original size:88 final size:88
Alignment explanation
Indices: 711354--711551 Score: 220
Period size: 89 Copynumber: 2.2 Consensus size: 88
711344 AGATAAATTT
* * *
711354 TGATGCATCAGTACTATCTAGTGGTTAGATAAAGAGG-ATATGA-TAAGAATCTGTGGGATGCAC
1 TGATGCATCA-TACCATCTAGTGGTTAGATAAAG-GGAATACGATTAAGAATCTGTAGGATGCAC
711417 CTTGCCCCAAGGAAATCAAACTTTG
64 CTTGCCCCAAGGAAATCAAACTTTG
* * * * ** * *
711442 TGATGCATTTATACCATCTAATGGTTGGGTAAAGGGAATACGATTGGGAATGTGTAGGCTGCACC
1 TGATGCA-TCATACCATCTAGTGGTTAGATAAAGGGAATACGATTAAGAATCTGTAGGATGCACC
* **
711507 TTGCCCCCAGGAAATCAAGTTTTG
65 TTGCCCCAAGGAAATCAAACTTTG
711531 TGATGCATCAATACCATCTAG
1 TGATGCATC-ATACCATCTAG
711552 GAGCTGAGTG
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
87 2 0.02
88 32 0.36
89 56 0.62
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (88 bp):
TGATGCATCATACCATCTAGTGGTTAGATAAAGGGAATACGATTAAGAATCTGTAGGATGCACCT
TGCCCCAAGGAAATCAAACTTTG
Found at i:711566 original size:89 final size:90
Alignment explanation
Indices: 711412--711586 Score: 219
Period size: 89 Copynumber: 2.0 Consensus size: 90
711402 ATCTGTGGGA
** * * *
711412 TGCACCTTGCCCCAAGGAAATCAAACTTTGTGATGCATTTATACCATCTAATGGTTGGGTAAAGG
1 TGCACCTTGCCCCAAGGAAATCAAACTTTGTGATGCATCAATACCATCTAAGGGCTGAGTAAAGG
*
711477 GAATACGATT-GGGAATGTGTAGGC
66 GAATACGATTAGGAAATGTGTAGGC
* ** *
711501 TGCACCTTGCCCCCAGGAAATCAAGTTTTGTGATGCATCAATACCATCT-AGGAGCTGAGTGAAG
1 TGCACCTTGCCCCAAGGAAATCAAACTTTGTGATGCATCAATACCATCTAAGG-GCTGAGTAAAG
* *
711565 GGGATATGATTAGGAAATGTGT
65 GGAATACGATTAGGAAATGTGT
711587 TTTCCTTGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
88 2 0.03
89 61 0.85
90 9 0.12
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (90 bp):
TGCACCTTGCCCCAAGGAAATCAAACTTTGTGATGCATCAATACCATCTAAGGGCTGAGTAAAGG
GAATACGATTAGGAAATGTGTAGGC
Found at i:718839 original size:43 final size:43
Alignment explanation
Indices: 718791--718891 Score: 102
Period size: 43 Copynumber: 2.3 Consensus size: 43
718781 TTCCTTCCTA
718791 TTTCGATTCTATTTTTGTCT-TC-TTTCTCATT-TTCTCTTGCTG
1 TTTCGATTCTATTTTT-TCTCTCTTTTCT-ATTATTCTCTTGCTG
** * *
718833 TTTTCGATTGCT-TTCATTCTCTCTTTTCTTTTATTTTCTTGCTG
1 -TTTCGATT-CTATTTTTTCTCTCTTTTCTATTATTCTCTTGCTG
718877 TTTCGATTCTATTTT
1 TTTCGATTCTATTTT
718892 CCTTTCTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
42 5 0.11
43 25 0.53
44 17 0.36
ACGTcount: A:0.08, C:0.20, G:0.09, T:0.63
Consensus pattern (43 bp):
TTTCGATTCTATTTTTTCTCTCTTTTCTATTATTCTCTTGCTG
Found at i:719649 original size:18 final size:19
Alignment explanation
Indices: 719620--719673 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
719610 TTTTACTTTT
719620 ATTTTATTATTTTTTATA-C
1 ATTTT-TTATTTTTTATATC
*
719639 ATTTTTTA-TTTTTAAATC
1 ATTTTTTATTTTTTATATC
*
719657 ATTTATTTATTTATTAT
1 ATTT-TTTATTTTTTAT
719674 TATTCATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 7 0.24
18 8 0.28
19 9 0.31
20 5 0.17
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTTTATTTTTTATATC
Found at i:724227 original size:63 final size:64
Alignment explanation
Indices: 724136--724259 Score: 187
Period size: 63 Copynumber: 2.0 Consensus size: 64
724126 TTCTGTTTTC
* *
724136 TTTTCGTTTCTTTCTTTGTTTTCAATTGCCTTTTGTTTCGATTCCCCT-CCCTTCTCTCTTCAT
1 TTTTCGTTTCTTTCTTTGTTTTCAATTGCCTTTTGTTTCAATTCCCCTCCCCCTCTCTCTTCAT
* * * *
724199 TTTTGGTTTGTTTCTTTGTTTTCGATTGCCTTTTGTTTTAATTCCCCTCCCCCTCTCTCTT
1 TTTTCGTTTCTTTCTTTGTTTTCAATTGCCTTTTGTTTCAATTCCCCTCCCCCTCTCTCTT
724260 TCGATTGCTC
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 43 0.80
64 11 0.20
ACGTcount: A:0.06, C:0.27, G:0.10, T:0.57
Consensus pattern (64 bp):
TTTTCGTTTCTTTCTTTGTTTTCAATTGCCTTTTGTTTCAATTCCCCTCCCCCTCTCTCTTCAT
Found at i:724540 original size:33 final size:33
Alignment explanation
Indices: 724499--724575 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
724489 GATTGCAGCA
* *
724499 GTTT-GATTGCATTCATT-TGCCTTTGAATTGCT
1 GTTTCGATTGCATTCATTCT-CCCTTGAACTGCT
724531 GTTTCGATTGCATTCATTCTCCCTTGAACTGCT
1 GTTTCGATTGCATTCATTCTCCCTTGAACTGCT
*
724564 GTTTCAATTGCA
1 GTTTCGATTGCA
724576 GCAGTAGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 4 0.10
33 35 0.88
34 1 0.03
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (33 bp):
GTTTCGATTGCATTCATTCTCCCTTGAACTGCT
Found at i:724987 original size:14 final size:14
Alignment explanation
Indices: 724968--725157 Score: 98
Period size: 14 Copynumber: 13.9 Consensus size: 14
724958 GAAAGAAAAC
*
724968 ATGCATGAAATGTA
1 ATGCATGAAATGAA
**
724982 ATGCATGAAACAAA
1 ATGCATGAAATGAA
724996 ATGCATGAAATG-A
1 ATGCATGAAATGAA
* ***
725009 ATTCATGGCGTGAA
1 ATGCATGAAATGAA
725023 A--CATGAAA-GAAAA
1 ATGCATGAAATG--AA
*
725036 CATGCATGAAATGTA
1 -ATGCATGAAATGAA
725051 ATGCATGAAATGAA
1 ATGCATGAAATGAA
*
725065 CAT-CACGTGAAATG-C
1 -ATGCA--TGAAATGAA
*
725080 ATGCATGAAATGTA
1 ATGCATGAAATGAA
725094 ATG--T---ATGAA
1 ATGCATGAAATGAA
725103 ATGCATGAAATGAAA
1 ATGCATGAAATG-AA
* * *
725118 ATTACGTGAAATG-C
1 A-TGCATGAAATGAA
*
725132 ATGCATGAAATGTA
1 ATGCATGAAATGAA
725146 ATGCATGAAATG
1 ATGCATGAAATG
725158 CATGAAAGTA
Statistics
Matches: 133, Mismatches: 23, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
9 7 0.05
11 2 0.02
12 5 0.04
13 27 0.20
14 60 0.45
15 8 0.06
16 23 0.17
17 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (14 bp):
ATGCATGAAATGAA
Found at i:725005 original size:69 final size:69
Alignment explanation
Indices: 724927--725060 Score: 268
Period size: 69 Copynumber: 1.9 Consensus size: 69
724917 CGTGAAATGC
724927 ATGCATGAAATGAATTCATGGCGTGAAACATGAAAGAAAACATGCATGAAATGTAATGCATGAAA
1 ATGCATGAAATGAATTCATGGCGTGAAACATGAAAGAAAACATGCATGAAATGTAATGCATGAAA
724992 CAAA
66 CAAA
724996 ATGCATGAAATGAATTCATGGCGTGAAACATGAAAGAAAACATGCATGAAATGTAATGCATGAAA
1 ATGCATGAAATGAATTCATGGCGTGAAACATGAAAGAAAACATGCATGAAATGTAATGCATGAAA
725061 TGAACATCAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (69 bp):
ATGCATGAAATGAATTCATGGCGTGAAACATGAAAGAAAACATGCATGAAATGTAATGCATGAAA
CAAA
Found at i:725083 original size:29 final size:28
Alignment explanation
Indices: 725042--725157 Score: 84
Period size: 29 Copynumber: 4.2 Consensus size: 28
725032 AAAACATGCA
*
725042 TGAAATGTAATGCATGAAATGAACATCACG
1 TGAAATGAAATGCATGAAATGAA-AT-ACG
* *
725072 TGAAATG-CATGCATGAAATGTAAT--G
1 TGAAATGAAATGCATGAAATGAAATACG
725097 T---ATGAAATGCATGAAATGAAAATTACG
1 TGAAATGAAATGCATGAAATG-AAA-TACG
* * * *
725124 TGAAATG-CATGCATGAAATGTAATGCA
1 TGAAATGAAATGCATGAAATGAAATACG
725151 TGAAATG
1 TGAAATG
725158 CATGAAAGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
22 3 0.04
23 12 0.17
24 2 0.03
25 3 0.04
27 11 0.16
28 4 0.06
29 25 0.36
30 10 0.14
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (28 bp):
TGAAATGAAATGCATGAAATGAAATACG
Found at i:725089 original size:43 final size:43
Alignment explanation
Indices: 725036--725157 Score: 145
Period size: 52 Copynumber: 2.6 Consensus size: 43
725026 TGAAAGAAAA
*
725036 CATGCATGAAATGTAATGCATGAAATGAACATCACGTGAAATG
1 CATGCATGAAATGTAATGCATGAAATGAAAATCACGTGAAATG
*
725079 CATGCATGAAATGTAATGTATGAAATGCATGAAATGAAAATTACGTGAAATG
1 CATGCATG--A---AATG--T--AATGCATGAAATGAAAATCACGTGAAATG
725131 CATGCATGAAATGTAATGCATGAAATG
1 CATGCATGAAATGTAATGCATGAAATG
725158 CATGAAAGTA
Statistics
Matches: 68, Mismatches: 2, Indels: 18
0.77 0.02 0.20
Matches are distributed among these distances:
43 21 0.31
45 2 0.03
47 4 0.06
48 4 0.06
50 2 0.03
52 35 0.51
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (43 bp):
CATGCATGAAATGTAATGCATGAAATGAAAATCACGTGAAATG
Found at i:725116 original size:52 final size:52
Alignment explanation
Indices: 725050--725164 Score: 203
Period size: 52 Copynumber: 2.2 Consensus size: 52
725040 CATGAAATGT
* *
725050 AATGCATGAAATGAACATCACGTGAAATGCATGCATGAAATGTAATGTATGA
1 AATGCATGAAATGAAAATCACGTGAAATGCATGCATGAAATGTAATGCATGA
*
725102 AATGCATGAAATGAAAATTACGTGAAATGCATGCATGAAATGTAATGCATGA
1 AATGCATGAAATGAAAATCACGTGAAATGCATGCATGAAATGTAATGCATGA
725154 AATGCATGAAA
1 AATGCATGAAA
725165 GTAAAAGCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.24
Consensus pattern (52 bp):
AATGCATGAAATGAAAATCACGTGAAATGCATGCATGAAATGTAATGCATGA
Found at i:725174 original size:23 final size:23
Alignment explanation
Indices: 725080--725180 Score: 69
Period size: 23 Copynumber: 4.1 Consensus size: 23
725070 CGTGAAATGC
* *
725080 ATGCATGAAATGTAATGTATGAA
1 ATGCATGAAATGTAAAGCATGAA
* * *
725103 ATGCATGAAATGAAAATTACGTGAAA
1 ATGCATGAAATGTAAA--GCATG-AA
*
725129 TGCATGCATGAAATGTAATGCATGAA
1 ---ATGCATGAAATGTAAAGCATGAA
*
725155 ATGCATGAAA-GTAAAAGCATGCA
1 ATGCATGAAATGT-AAAGCATGAA
725178 ATG
1 ATG
725181 ATACGTATGG
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
22 2 0.03
23 35 0.58
25 2 0.03
26 4 0.07
27 3 0.05
29 14 0.23
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.25
Consensus pattern (23 bp):
ATGCATGAAATGTAAAGCATGAA
Found at i:726403 original size:16 final size:16
Alignment explanation
Indices: 726384--726440 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
726374 ATTCTGATGG
*
726384 TTTCGAGTTTGAGTTA
1 TTTCGAGTTTGAGTAA
*
726400 TTTCGAGTTTGAATAA
1 TTTCGAGTTTGAGTAA
* *
726416 TTTCAAGTTTGTGTCAA
1 TTTCGAGTTTGAGT-AA
726433 -TTCGAGTT
1 TTTCGAGTT
726441 CGGGTCATTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 32 0.94
17 2 0.06
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTCGAGTTTGAGTAA
Found at i:726942 original size:24 final size:24
Alignment explanation
Indices: 726891--726935 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
726881 ATTTTCAAAG
726891 AAAATTCAAAATTATAATATTTTT
1 AAAATTCAAAATTATAATATTTTT
726915 AAAA-TCAAAATTA-AATATTTT
1 AAAATTCAAAATTATAATATTTT
726936 AATAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 9 0.43
24 4 0.19
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
AAAATTCAAAATTATAATATTTTT
Found at i:727013 original size:17 final size:17
Alignment explanation
Indices: 726990--727045 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
726980 ATTTAGGTTA
726990 AAAGAAAACAAAGGGAAG
1 AAAGAAAA-AAAGGGAAG
727008 -AAGAAAAAGAA-GGAAG
1 AAAGAAAAA-AAGGGAAG
*
727024 AAAGCAAAAGAAAGGGAGG
1 AAAG-AAAA-AAAGGGAAG
727043 AAA
1 AAA
727046 CGTTATAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
16 6 0.19
17 12 0.38
18 6 0.19
19 8 0.25
ACGTcount: A:0.66, C:0.04, G:0.30, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAGGGAAG
Found at i:735717 original size:36 final size:35
Alignment explanation
Indices: 735615--735734 Score: 132
Period size: 35 Copynumber: 3.4 Consensus size: 35
735605 GGAAAAAGAG
* *
735615 GATGGAAAGAGTTTGACCACATACAGTCAAACGAT
1 GATGAAAAGAGTTTGACCAGATACAGTCAAACGAT
* * * * *
735650 GATGGAAAGAGTTTAACCGGGTACAATCAAACGAT
1 GATGAAAAGAGTTTGACCAGATACAGTCAAACGAT
* * * *
735685 AATGAAAAGGAGTTTGACTAGATACAGCCAAACAAT
1 GATGAAAA-GAGTTTGACCAGATACAGTCAAACGAT
735721 GATGAAAAGAGTTT
1 GATGAAAAGAGTTT
735735 ATTTAGTAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
35 42 0.61
36 27 0.39
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.21
Consensus pattern (35 bp):
GATGAAAAGAGTTTGACCAGATACAGTCAAACGAT
Found at i:736333 original size:88 final size:92
Alignment explanation
Indices: 736135--736340 Score: 262
Period size: 88 Copynumber: 2.3 Consensus size: 92
736125 TTTGTGGTCA
* ** * *
736135 TGCGATGAATCAATATAATTTAGTGGCTAAAAAGAAGGGATATGATTGGGAATGAGTGGTCATGA
1 TGCGATGCATCAATACCATCTAGTGGCTAAAAAGAAAGGATATGATTGGGAATGAGTGGTCATGA
* *
736200 CATCCTCGCTCCAAGGAAATCAGGCTT
66 CATCCTCGCCCCAAGGAAATCAAGCTT
**
736227 TATGATGCATCAATACCATCTAGTGGCT-AAAAGAAAAGGATATGATTGGGAATGTA-TGG-C-T
1 TGCGATGCATCAATACCATCTAGTGGCTAAAAAG-AAAGGATATGATTGGGAATG-AGTGGTCAT
*
736288 G-CA-CCTTGCCCCAAGGAAATCAAGCTT
64 GACATCCTCGCCCCAAGGAAATCAAGCTT
736315 TGCGATGCATCAATACCATCTAGTGG
1 TGCGATGCATCAATACCATCTAGTGG
736341 TTGGGAAAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
88 45 0.45
89 2 0.02
90 2 0.02
91 6 0.06
92 44 0.44
93 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (92 bp):
TGCGATGCATCAATACCATCTAGTGGCTAAAAAGAAAGGATATGATTGGGAATGAGTGGTCATGA
CATCCTCGCCCCAAGGAAATCAAGCTT
Found at i:736361 original size:88 final size:93
Alignment explanation
Indices: 736137--736340 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 93
736127 TGTGGTCATG
* ** * *
736137 CGATGAATCAATATAATTTAGTGGCTAAAA-AGAAGGGATATGATTGGGAATG-AGTGGTCATGA
1 CGATGCATCAATACCATCTAGTGGCTAAAAGA-AAAGGATATGATTGGGAATGTAGTGGTCATGA
* *
736200 CATCCTCGCTCCAAGGAAATCAGGCTTTA
65 CATCCTCGCCCCAAGGAAATCAAGCTTTA
*
736229 TGATGCATCAATACCATCTAGTGGCTAAAAGAAAAGGATATGATTGGGAATGTA-TGG-C-TG-C
1 CGATGCATCAATACCATCTAGTGGCTAAAAGAAAAGGATATGATTGGGAATGTAGTGGTCATGAC
* *
736290 A-CCTTGCCCCAAGGAAATCAAGCTTTG
66 ATCCTCGCCCCAAGGAAATCAAGCTTTA
736317 CGATGCATCAATACCATCTAGTGG
1 CGATGCATCAATACCATCTAGTGG
736341 TTGGGAAAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
88 45 0.45
89 2 0.02
90 2 0.02
91 1 0.01
92 47 0.47
93 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (93 bp):
CGATGCATCAATACCATCTAGTGGCTAAAAGAAAAGGATATGATTGGGAATGTAGTGGTCATGAC
ATCCTCGCCCCAAGGAAATCAAGCTTTA
Found at i:736917 original size:16 final size:15
Alignment explanation
Indices: 736896--736925 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
736886 ATTGACCTAA
736896 CAAGATCAAGGTTCAT
1 CAAGATCAA-GTTCAT
736912 CAAGATCAAGTTCA
1 CAAGATCAAGTTCA
736926 AGAGGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (15 bp):
CAAGATCAAGTTCAT
Found at i:743215 original size:44 final size:46
Alignment explanation
Indices: 743166--743268 Score: 122
Period size: 44 Copynumber: 2.3 Consensus size: 46
743156 AGAACATAAT
* * * *
743166 TTCATGAAAGCATGAATTTATTAATCATA-AAAATATTTA-AGAAA
1 TTCATGAAAGCATAAATTCATCAATCATATAAAATATTCATAGAAA
* *
743210 TTCATGATAGCATAAATTCATCAATCATATAAAGTATTCATAGAAA
1 TTCATGAAAGCATAAATTCATCAATCATATAAAATATTCATAGAAA
743256 TTCAT-ACAAGCAT
1 TTCATGA-AAGCAT
743269 TTGAAGCACA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
44 25 0.51
45 9 0.18
46 15 0.31
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (46 bp):
TTCATGAAAGCATAAATTCATCAATCATATAAAATATTCATAGAAA
Found at i:743907 original size:13 final size:13
Alignment explanation
Indices: 743887--743924 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
743877 ATACTGGAGA
743887 AATGTATCGATAC
1 AATGTATCGATAC
*
743900 ATTGTATCGATAC
1 AATGTATCGATAC
*
743913 AATGTATTGATA
1 AATGTATCGATA
743925 TAGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:745140 original size:21 final size:21
Alignment explanation
Indices: 745116--745173 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
745106 TTTATTAGTT
*
745116 AACTCA-TCATTTTCATTTTGC
1 AACTCATTCATTTTC-TTTTCC
*
745137 AACTTATTTC-TTTTCTTTTCC
1 AACTCA-TTCATTTTCTTTTCC
745158 AACTCATTCATTTTCT
1 AACTCATTCATTTTCT
745174 CCTCTCACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.10
21 21 0.68
22 5 0.16
23 2 0.06
ACGTcount: A:0.21, C:0.24, G:0.02, T:0.53
Consensus pattern (21 bp):
AACTCATTCATTTTCTTTTCC
Done.