Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 380 of 427
Found at i:110513172 original size:19 final size:18
Alignment explanation
Indices: 110513130--110513183 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
110513120 TAACTCGACC
* *
110513130 ATTTTTTAAATAAATATA
1 ATTTTTTATATAAATCTA
*
110513148 ATTTTTTATTTAAATCTA
1 ATTTTTTATATAAATCTA
110513166 ATATTTTTATATAAATCT
1 AT-TTTTTATATAAATCT
110513184 TTTCAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTTTATATAAATCTA
Found at i:110519079 original size:30 final size:30
Alignment explanation
Indices: 110519038--110519095 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
110519028 AAATAAAAAT
* **
110519038 TTTTGAATAATTTAATAATTATTTTGTAAC
1 TTTTAAATAATTTAATAACCATTTTGTAAC
110519068 TTTTAAATAATTTAATAACCATTTTGTA
1 TTTTAAATAATTTAATAACCATTTTGTA
110519096 TTTTTTGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTTAAATAATTTAATAACCATTTTGTAAC
Found at i:110521362 original size:26 final size:26
Alignment explanation
Indices: 110521327--110521379 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
110521317 TTAAAAATGC
110521327 AAAATGTTGAAATTGGAATTAAGTAA
1 AAAATGTTGAAATTGGAATTAAGTAA
110521353 AAAATGTTGAAATTGGAATTAAGTAA
1 AAAATGTTGAAATTGGAATTAAGTAA
110521379 A
1 A
110521380 CATCGTACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (26 bp):
AAAATGTTGAAATTGGAATTAAGTAA
Found at i:110522599 original size:21 final size:22
Alignment explanation
Indices: 110522574--110522629 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
110522564 GATTTTTATT
110522574 TATTTATAATATAATTA-TTAA
1 TATTTATAATATAATTATTTAA
* *
110522595 TATTTAT-ATTTAATTATTTTA
1 TATTTATAATATAATTATTTAA
110522616 TATTTATATATATA
1 TATTTATA-ATATA
110522630 TATATATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 8 0.28
21 17 0.59
23 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTATAATATAATTATTTAA
Found at i:110522627 original size:10 final size:10
Alignment explanation
Indices: 110522574--110522638 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
110522564 GATTTTTATT
110522574 TATTTATAATA
1 TATTTAT-ATA
*
110522585 TAATTAT-TAA
1 TATTTATAT-A
*
110522595 TATTTATATT
1 TATTTATATA
* *
110522605 TAATTATTTTA
1 TATTTA-TATA
110522616 TATTTATATA
1 TATTTATATA
*
110522626 TATATATATA
1 TATTTATATA
110522636 TAT
1 TAT
110522639 GTTTAATTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
9 1 0.02
10 27 0.64
11 14 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTATATA
Found at i:110523310 original size:4 final size:4
Alignment explanation
Indices: 110523301--110523325 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
110523291 AGCAAACGTG
110523301 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
110523326 TAGAAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:110524153 original size:47 final size:47
Alignment explanation
Indices: 110524089--110524199 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
110524079 GACATTGAGT
*
110524089 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
110524136 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
110524183 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
110524200 CTTATCCTGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:110525371 original size:2 final size:2
Alignment explanation
Indices: 110525361--110525399 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
110525351 AATCATATCA
110525361 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110525400 TAATATTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:110534909 original size:53 final size:53
Alignment explanation
Indices: 110534768--110534918 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
110534758 ACAAGTGTGC
* **
110534768 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
110534821 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
110534874 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
110534919 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:110541543 original size:53 final size:53
Alignment explanation
Indices: 110541407--110541552 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
110541397 TGTGCCCGTT
** *
110541407 TAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCATA
*
110541460 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCATA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCATA
* *
110541513 TAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
110541553 ACCGTGTAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCATA
Found at i:110544098 original size:3 final size:3
Alignment explanation
Indices: 110544090--110544131 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
110544080 TTTTAAATCA
* *
110544090 AAT AAT AAT AAT AAT AAT AAT ATT AAC AAT AAT AATT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AA
110544132 AATCTAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:110546237 original size:23 final size:23
Alignment explanation
Indices: 110546195--110546238 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
110546185 TAAATATTAT
*
110546195 TTTATTAATATTTTGCTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
110546218 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
110546239 AAAATAGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:110548943 original size:35 final size:35
Alignment explanation
Indices: 110548824--110548954 Score: 120
Period size: 35 Copynumber: 3.6 Consensus size: 35
110548814 CCTCATTGAA
* * *
110548824 ATACCATACCTACATTTTACAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
** **
110548859 ATGTCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
* *
110548896 ATAATATCATACCTACATTTCACAACTCAATATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
110548934 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
110548955 CTTTGCCATG
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
34 3 0.04
35 44 0.56
38 2 0.03
40 29 0.37
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:110550381 original size:5 final size:5
Alignment explanation
Indices: 110550360--110550412 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
110550350 TGTTAAAATA
* *
110550360 TATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
110550408 TATAT
1 TATAT
110550413 AAATAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.76
6 6 0.15
7 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:110550391 original size:10 final size:9
Alignment explanation
Indices: 110550357--110550413 Score: 59
Period size: 8 Copynumber: 6.6 Consensus size: 9
110550347 ATGTGTTAAA
110550357 ATATATATT
1 ATATATATT
*
110550366 AAAT-TATT
1 ATATATATT
110550374 AT-TATATT
1 ATATATATT
110550382 ATAGTATATT
1 ATA-TATATT
110550392 ATAT-TA-T
1 ATATATATT
110550399 ATATTATATT
1 ATA-TATATT
110550409 ATATA
1 ATATA
110550414 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.35
9 8 0.20
10 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:110550403 original size:12 final size:12
Alignment explanation
Indices: 110550358--110550413 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
110550348 TGTGTTAAAA
*
110550358 TATATATTAAAT
1 TATATATTATAT
110550370 TAT-TATTATATT
1 TATATATTATA-T
110550382 ATAGTATATTATAT
1 -TA-TATATTATAT
110550396 TATATATTATAT
1 TATATATTATAT
110550408 TATATA
1 TATATA
110550414 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:110551752 original size:18 final size:19
Alignment explanation
Indices: 110551731--110551769 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
110551721 ATATAGATAT
110551731 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
110551749 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
110551768 AT
1 AT
110551770 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:110553541 original size:13 final size:14
Alignment explanation
Indices: 110553525--110553560 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
110553515 CAATCTCATA
110553525 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
110553538 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
110553551 TCTC-ATTTCA
1 TCTCAATTTCA
110553561 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:110553550 original size:18 final size:19
Alignment explanation
Indices: 110553512--110553552 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
110553502 TGGTTCATGT
110553512 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
110553531 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
110553549 TTTC
1 TTTC
110553553 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:110553742 original size:39 final size:38
Alignment explanation
Indices: 110553675--110553809 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
110553665 ACCAATATGG
* * *
110553675 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
110553714 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
110553752 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
110553793 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
110553810 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:110554079 original size:18 final size:19
Alignment explanation
Indices: 110554048--110554086 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
110554038 ATTTCATTCA
110554048 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
110554067 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
110554085 AT
1 AT
110554087 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:110555407 original size:5 final size:5
Alignment explanation
Indices: 110555397--110555449 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
110555387 TTACTTATTT
* *
110555397 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
110555445 ATATA
1 ATATA
110555450 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:110555413 original size:12 final size:12
Alignment explanation
Indices: 110555396--110555451 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
110555386 TTTACTTATT
110555396 TATATAATATAA
1 TATATAATATAA
110555408 TATATAATATAATA
1 TATATAATAT-A-A
110555422 TACTATAATATAA
1 TA-TATAATATAA
*
110555435 TA-ATAATTTAA
1 TATATAATATAA
110555446 TATATA
1 TATATA
110555452 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:110560352 original size:14 final size:14
Alignment explanation
Indices: 110560333--110560368 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
110560323 AGATAAAATT
110560333 AGAAAACAATATCA
1 AGAAAACAATATCA
* *
110560347 AGAAAAGATTATCA
1 AGAAAACAATATCA
110560361 AGAAAACA
1 AGAAAACA
110560369 CAAACAAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.64, C:0.11, G:0.11, T:0.14
Consensus pattern (14 bp):
AGAAAACAATATCA
Found at i:110564923 original size:2 final size:2
Alignment explanation
Indices: 110564912--110564946 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
110564902 CCAAAACATA
110564912 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110564947 GCGCCTAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:110568802 original size:26 final size:26
Alignment explanation
Indices: 110568772--110568879 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
110568762 TGAAATTCCC
*
110568772 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
110568798 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
110568824 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
110568850 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
110568876 ATCA
1 ATCA
110568880 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:110577706 original size:46 final size:45
Alignment explanation
Indices: 110577646--110577911 Score: 321
Period size: 46 Copynumber: 6.0 Consensus size: 45
110577636 TTTGACATGA
* * * * * *
110577646 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** **
110577692 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
110577738 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
110577784 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*
110577830 TGCCATGGTATCTTTCAACCATGGTCTT----A-TAC--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
110577868 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
110577912 AGAGCACACT
Statistics
Matches: 193, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
38 34 0.18
40 1 0.01
42 2 0.01
43 2 0.01
45 4 0.02
46 147 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:110577869 original size:38 final size:37
Alignment explanation
Indices: 110577819--110577896 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 37
110577809 CTTACACATT
110577819 TTATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 TTATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
110577856 TTATACTCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 TTATA-TCAGGTTGCCATGGTATCTTTCAACCATGGTC
110577894 TTA
1 TTA
110577897 CACATTTCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 5 0.12
38 35 0.88
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (37 bp):
TTATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
Found at i:110579968 original size:11 final size:11
Alignment explanation
Indices: 110579952--110580003 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
110579942 TATACTAAAT
110579952 AAATAATAATA
1 AAATAATAATA
*
110579963 AAATAAT-ATT
1 AAATAATAATA
* *
110579973 AAATATCTCATA
1 AAATA-ATAATA
*
110579985 AAATATTAATA
1 AAATAATAATA
110579996 AAATAATA
1 AAATAATA
110580004 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:110582921 original size:26 final size:26
Alignment explanation
Indices: 110582891--110582998 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
110582881 TGAAATTCCC
*
110582891 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
110582917 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
110582943 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
110582969 ATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
110582995 ATCA
1 ATCA
110582999 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:110583686 original size:12 final size:12
Alignment explanation
Indices: 110583669--110583693 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110583659 TGAATATATT
110583669 AGAAATAATAAA
1 AGAAATAATAAA
110583681 AGAAATAATAAA
1 AGAAATAATAAA
110583693 A
1 A
110583694 CAACAAGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AGAAATAATAAA
Found at i:110585683 original size:96 final size:96
Alignment explanation
Indices: 110585363--110586125 Score: 519
Period size: 96 Copynumber: 8.3 Consensus size: 96
110585353 ATCTATAATC
* * * * * * * *
110585363 TGCTCCACTGCAACTTCAGGGAGATAAGATTTTTAACTCGTATCTTTAATCTATTCCACTGCAAT
1 TGCTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAAC
* * *
110585428 TTCAGGGAAATAAGATTCG-CATATTCAATCT
66 TTCAGGGAAATAAGATTCGTTATCTTCAGT-T
* * *
110585459 T-CTCCACTGCAACTTCAAGGAGAT-A-A---G--ATTTGTGGCTTTAATCTGCTCCACTGCAAC
1 TGCTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAAC
* * *
110585516 TTCAGGGAGATAAGA---GTAATGGCTTCAATCT
66 TTCAGGGAAATAAGATTCGTTAT--CTTCAGT-T
* ** * * * * *
110585547 T-CTCCACTGTAACTTCAGGGAGATCCGATTTGAAATTTGTATCATTAATCTGTTCTACTGCAAC
1 TGCTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAAC
*
110585611 TTCAGGGAAATAAGATTCGTTATCTTTAGTT
66 TTCAGGGAAATAAGATTCGTTATCTTCAGTT
* * *
110585642 TGCTCCACAGTAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGTTCCACCGCAAC
1 TGCTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAAC
* *
110585707 TTCAGGGAAATAAGATTTGTTATCTTCAGTC
66 TTCAGGGAAATAAGATTCGTTATCTTCAGTT
* * * *
110585738 TGCTCCACTACAACTTTAAGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGTTCTACTGCAAC
1 TGCTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAAC
* * * *
110585803 TTAAAGGAAATAAGATTCGCTATCTTCAGTC
66 TTCAGGGAAATAAGATTCGTTATCTTCAGTT
* * * *
110585834 TGCTCTATTGCAACTTCAGGGAGATTAGACTTGT-A---GT---TTCAATCTGTTCCACTGCAAC
1 TGCTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAAC
* * * *
110585892 TTCATGGAGATAAGATTTC-CTATCTTC-GATC
66 TTCAGGGAAATAAGA-TTCGTTATCTTCAG-TT
* ** * * * * *
110585923 TACTCCACTGCAACTTCAATGAGAT-A-A---G--ATCTGTAACTTCAATTTGTTCTACTGCAAC
1 TGCTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAAC
** * * *
110585981 TTCAGGGAGGTAAGA-TC-TATAACTTCAATC
66 TTCAGGGAAATAAGATTCGT-TATCTTCAGTT
* ** **
110586011 TGCTCCACTGCAGCTTCAGGGAGAT-A-A---G--ATTTGCTATATTCGATCT-TCTCCACTGCA
1 TGCTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTG-TAGCTTTAATCTGT-TCCACTGCA
* * *
110586068 ACTTCAGGGAGATAAGATTTGCTATCTTC-GATCT
64 ACTTCAGGGAAATAAGATTCGTTATCTTCAG-T-T
*
110586102 T-CTCCACTGCAACTTCAAGGAGAT
1 TGCTCCACTGCAACTTCAGGGAGAT
110586126 AAAATCTCTA
Statistics
Matches: 549, Mismatches: 88, Indels: 66
0.78 0.13 0.09
Matches are distributed among these distances:
83 1 0.00
84 1 0.00
85 1 0.00
86 4 0.01
87 3 0.01
88 106 0.19
89 125 0.23
90 33 0.06
91 1 0.00
92 2 0.00
93 2 0.00
94 1 0.00
95 64 0.12
96 201 0.37
98 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (96 bp):
TGCTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGTTCCACTGCAAC
TTCAGGGAAATAAGATTCGTTATCTTCAGTT
Found at i:110585710 original size:51 final size:51
Alignment explanation
Indices: 110585549--110585804 Score: 164
Period size: 51 Copynumber: 5.3 Consensus size: 51
110585539 TTCAATCTTC
* ** * * * *
110585549 TCCACTGTAACTTCAGGGAGATCCGATTTGAAATTTGTATCATTAATCTGT
1 TCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGT
* * * * *
110585600 TCTACTGCAACTTCAGGGAAATAAGA-TTCGTTATCTT-TAG---T--T-TGC
1 TCCACTGCAACTTCAGGGAGATGAGACTT-GTAAT-TTGTAGCTTTAATCTGT
* *
110585645 TCCACAGTAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGT
* * * * * *
110585696 TCCACCGCAACTTCAGGGAAAT-A-A---G--ATTTGTTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTG-TAGCTTTAATCTGT
* * *
110585741 TCCACTACAACTTTAAGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGT
*
110585792 TCTACTGCAACTT
1 TCCACTGCAACTT
110585805 AAAGGAAATA
Statistics
Matches: 153, Mismatches: 34, Indels: 36
0.69 0.15 0.16
Matches are distributed among these distances:
44 7 0.05
45 57 0.37
46 5 0.03
47 1 0.01
48 2 0.01
49 1 0.01
50 5 0.03
51 68 0.44
52 7 0.05
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGT
Found at i:110585935 original size:89 final size:88
Alignment explanation
Indices: 110585679--110586567 Score: 444
Period size: 89 Copynumber: 9.9 Consensus size: 88
110585669 GACTTGTAAT
* * **
110585679 TTGTAGCTTT-AATCTGTTCCACCGCAACTTCAGGGAAATAAGATTTGTTATCTTCAGTCTGCTC
1 TTGTAG-TTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTCCTATCTTCA-TCTGCTC
* * *
110585743 CACTACAACTTTAAGGAGATGAGAC
64 CACTGCAACTTCAAGGAGATAAGAC
* * * * *
110585768 TTGTAATTTGTAGCTTTAATCTGTTCTACTGCAACTTAAAGGAAATAAGA-TTCGCTATCTTCAG
1 TTGT-A---GT---TTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTC-CTATCTTCA-
* * * *
110585832 TCTGCTCTATTGCAACTTCAGGGAGATTAGAC
57 TCTGCTCCACTGCAACTTCAAGGAGATAAGAC
* *
110585864 TTGTAGTTTCAATCTGTTCCACTGCAACTTCATGGAGATAAGATTTCCTATCTTCGATCTACTCC
1 TTGTAGTTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTCCTATCTTC-ATCTGCTCC
*
110585929 ACTGCAACTTCAATGAGATAAGA-
65 ACTGCAACTTCAAGGAGATAAGAC
** * * * * * *
110585952 TCTGTAACTTCAATTTGTTCTACTGCAACTTCAGGGAGGTAAGATCT-ATAACTTCAATCTGCTC
1 T-TGTAGTTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTCCTATCTTC-ATCTGCTC
* * *
110586016 CACTGCAGCTTCAGGGAGATAAGAT
64 CACTGCAACTTCAAGGAGATAAGAC
* * *
110586041 TTGCTA-TATTCGATCT-TCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCGATCTTC
1 TTG-TAGT-TTCAATCTGT-TCCACTGCAACTTCAGGGAGATAAGATTTCCTATCTTC-ATCTGC
*
110586104 TCCACTGCAACTTCAAGGAGATAA-AA
62 TCCACTGCAACTTCAAGGAGATAAGAC
* ** ** * * * *
110586130 TCTCTAACTTCAATCTACTCCACTACAACTTTAGAGAGATAAGATTT-CTAATTTGTAGCTTTAA
1 T-TGTAGTTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTCCT-A----T--C-TTCA
* ** * * * * *
110586194 TATATTTCACTGCCATTTC-AGAGAAATAAGAT
57 TCTGCTCCACTGCAACTTCAAG-GAGATAAGAC
* * * ** * * * * *
110586226 TTACTA-TCTTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAACCTGCC
1 TT-GTAGT-TTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTCCTATCTTC-ATCTGCT
* * **
110586289 CCACTGCAACTTTAAGTAGATAAGGT
63 CCACTGCAACTTCAAGGAGATAAGAC
* * * * * * *
110586315 TTATAGCTTT-AATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCGGTCTGCTC
1 TTGTAG-TTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTCCTATCTTC-ATCTGCTC
* * *
110586379 CACTGCAACTTTAGGGAGATAAGAT
64 CACTGCAACTTCAAGGAGATAAGAC
* * * * * * * * * *
110586404 TTGT-GACTTCAACCTGCTCTACTGCAACTTTAGGGAGATAAGGTTT-ATAGCTTTAATCTACTC
1 TTGTAG-TTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTCCTATC-TTCATCTGCTC
* *
110586467 TACTGCAACTTC-AGAGAGATAAGAT
64 CACTGCAACTTCAAG-GAGATAAGAC
* * * ** * ** **
110586492 TTGCTATTTTCAATCTGCTCTACTGTGACTTTAGGGAGATAAGA--TAATGGCTTCAATCTGCTC
1 TTG-TAGTTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTCCTATCTTC-ATCTGCTC
110586555 CACTGCAACTTCA
64 CACTGCAACTTCA
110586568 GAAAGATAAC
Statistics
Matches: 623, Mismatches: 132, Indels: 90
0.74 0.16 0.11
Matches are distributed among these distances:
87 4 0.01
88 131 0.21
89 304 0.49
90 42 0.07
92 3 0.00
93 2 0.00
94 2 0.00
95 28 0.04
96 107 0.17
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (88 bp):
TTGTAGTTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTCCTATCTTCATCTGCTCCA
CTGCAACTTCAAGGAGATAAGAC
Found at i:110585987 original size:133 final size:134
Alignment explanation
Indices: 110585795--110586568 Score: 510
Period size: 133 Copynumber: 5.8 Consensus size: 134
110585785 AATCTGTTCT
* * * * * *
110585795 ACTGCAACTTAAAGGAAATAAGAT-TCGCTATCTTCAGTCTGCTCTATTGCAACTTCAGGGAGAT
1 ACTGCAACTTCAAGGAGATAAGATCT-GCTAACTTCAATCTTCTCTACTGCAACTTCAGGGAGAT
* * ** * * *
110585859 TAGA-CTTGTAGTTTCAATCTGTTCCACTGCAACTTCATGGAGATAAGATTTCCTATCTTCGATC
65 AAGATC-TATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCCTATATTCGATC
110585923 TACTCC
129 TACTCC
* * *
110585929 ACTGCAACTTCAATGAGATAAGATCTG-TAACTTCAAT-TTGTTCTACTGCAACTTCAGGGAGGT
1 ACTGCAACTTCAAGGAGATAAGATCTGCTAACTTCAATCTT-CTCTACTGCAACTTCAGGGAGAT
* *
110585992 AAGATCTATAACTTCAATCTGCTCCACTGCAGCTTCAGGGAGATAAGATTTGCTATATTCGATCT
65 AAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCCTATATTCGATCT
*
110586057 TCTCC
130 ACTCC
* * * * * *
110586062 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCGATCTTCTCCACTGCAACTTCAAGGAGATA
1 ACTGCAACTTCAAGGAGATAAGATCTGCTAACTTCAATCTTCTCTACTGCAACTTCAGGGAGATA
* * * * * *
110586127 AAATCTCTAACTTCAATCTACTCCACTACAACTTTAGAGAGATAAGATTT-CTAATTTGTAGCTT
66 AGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCCT-A----TA--TT
** * * *
110586191 TAATATATTTC
124 CGATCTACTCC
* * * * * * * * * * *
110586202 ACTGCCATTTC-AGAGAAATAAGATTTACTATCTTTAGTCTGCCCCACTGCAACTTCAGGGAGAT
1 ACTGCAACTTCAAG-GAGATAAGATCTGCTAACTTCAATCTTCTCTACTGCAACTTCAGGGAGAT
* * * * * * * * ** **
110586266 AAGA-CTTGTAACTTCAACCTGCCCCACTGCAACTTTAAGTAGATAAGGTTT-ATAGCTTTAATC
65 AAGATC-TATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCCTATATTCGATC
* *
110586329 TGCTCT
129 TACTCC
* * * ** * * *
110586335 ACTACAACTTC-AGAGAGATAAGATTTGCTATCTTCGGTCTGCTCCACTGCAACTTTAGGGAGAT
1 ACTGCAACTTCAAG-GAGATAAGATCTGCTAACTTCAATCTTCTCTACTGCAACTTCAGGGAGAT
* * * * * * * * ** **
110586399 AAGATTTGTGACTTCAACCTGCTCTACTGCAACTTTAGGGAGATAAGGTTT-ATAGCTTTAATCT
65 AAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCCTATATTCGATCT
*
110586463 ACTCT
130 ACTCC
* ** * ** *
110586468 ACTGCAACTTC-AGAGAGATAAGATTTGCTATTTTCAATCTGCTCTACTGTGACTTTAGGGAGAT
1 ACTGCAACTTCAAG-GAGATAAGATCTGCTAACTTCAATCTTCTCTACTGCAACTTCAGGGAGAT
* **
110586532 AAGAT-AATGGCTTCAATCTGCTCCACTGCAACTTCAG
65 AAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAG
110586569 AAAGATAACA
Statistics
Matches: 526, Mismatches: 99, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
132 27 0.05
133 298 0.57
134 95 0.18
135 3 0.01
138 2 0.00
139 3 0.01
140 98 0.19
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (134 bp):
ACTGCAACTTCAAGGAGATAAGATCTGCTAACTTCAATCTTCTCTACTGCAACTTCAGGGAGATA
AGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCCTATATTCGATCTA
CTCC
Found at i:110586169 original size:44 final size:44
Alignment explanation
Indices: 110585417--110586576 Score: 521
Period size: 44 Copynumber: 25.5 Consensus size: 44
110585407 TTTAATCTAT
* * * * *
110585417 TCCACTGCAATTTCAGGGAAATAAGA-TTCGCATA-TTCAATCTTC
1 TCCACTGCAACTTCAGAGAGATAAGATTTC-TA-ACTTCAATCTGC
* ** *
110585461 TCCACTGCAACTTCA-AGGAGATAAGATTTGTGGCTTTAATCTGC
1 TCCACTGCAACTTCAGA-GAGATAAGATTTCTAACTTCAATCTGC
* * ** ** *
110585505 TCCACTGCAACTTCAGGGAGATAAGAGTAATGGCTTCAATCTTC
1 TCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGC
* * * *
110585549 TCCACTGTAACTTCAGGGAGATCCGATTTGAA-ATTTGTATCATT-AATCTGT
1 TCCACTGCAACTTCA--GAGA---GA--T-AAGATTTCTAAC-TTCAATCTGC
* * * * * * *
110585600 TCTACTGCAACTTCAGGGAAATAAGA-TTCGTTATCTTTAGTTTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTC--TAACTTCAATCTGC
* * * * * * *
110585645 TCCACAGTAACTTCAGGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGAGAGAT-A-A---G--ATTTCTAACTTCAATCTGC
* * * * * *
110585696 TCCACCGCAACTTCAGGGAAATAAGATTTGTTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTT-CTAACTTCAATCTGC
* * * * * *
110585741 TCCACTACAACTTTA-AGGAGATGAGACTTGTAATTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGA-GAGAT-A-A---G--ATTTCTAACTTCAATCTGC
* * * * * *
110585792 TCTACTGCAACTT-AAAGGAAATAAGATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGA-GAGATAAGATT-TCTAACTTCAATCTGC
* * * * * * ** *
110585837 TCTATTGCAACTTCAGGGAGATTAGACTTGTAGTTTCAATCTGT
1 TCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGC
* * *
110585881 TCCACTGCAACTTCATG-GAGATAAGATTTCCTATCTTCGATCTAC
1 TCCACTGCAACTTCA-GAGAGATAAGATTT-CTAACTTCAATCTGC
* * * *
110585926 TCCACTGCAACTTCA-ATGAGATAAGATCTGTAACTTCAATTTGT
1 TCCACTGCAACTTCAGA-GAGATAAGATTTCTAACTTCAATCTGC
* * * * *
110585970 TCTACTGCAACTTCAGGGAGGTAAGATCTATAACTTCAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGC
* * * *
110586014 TCCACTGCAGCTTCAGGGAGATAAGATTTGCTATA-TTCGATCTTC
1 TCCACTGCAACTTCAGAGAGATAAGATTT-CTA-ACTTCAATCTGC
* * * *
110586059 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCGATCTTC
1 TCCACTGCAACTTCAGAGAGATAAGATTT-CTAACTTCAATCTGC
* * *
110586104 TCCACTGCAACTTCA-AGGAGATAAAATCTCTAACTTCAATCTAC
1 TCCACTGCAACTTCAGA-GAGATAAGATTTCTAACTTCAATCTGC
* * * * **
110586148 TCCACTACAACTTTAGAGAGATAAGATTTCTAATTTGTAGCTTTAATATAT
1 TCCACTGCAACTTCAGAGAGATAAGATTTCT-A-----A-CTTCAATCTGC
* * * * * * *
110586199 TTCACTGCCATTTCAGAGAAATAAGATTTACTATCTTTAGTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTT-CTAACTTCAATCTGC
* * * * *
110586244 CCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGC
* * * * * *
110586288 CCCACTGCAACTTTA-AGTAGATAAGGTTTATAGCTTTAATCTGC
1 TCCACTGCAACTTCAGAG-AGATAAGATTTCTAACTTCAATCTGC
* * * **
110586332 TCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCGGTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTT-CTAACTTCAATCTGC
* * * * *
110586377 TCCACTGCAACTTTAGGGAGATAAGATTTGTGACTTCAACCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGC
* * * * * * * *
110586421 TCTACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTAC
1 TCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGC
* **
110586465 TCTACTGCAACTTCAGAGAGATAAGATTTGCTATTTTCAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTT-CTAACTTCAATCTGC
* ** * * ** **
110586510 TCTACTGTGACTTTAGGGAGATAAGA-TAATGGCTTCAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGC
*
110586553 TCCACTGCAACTTCAGAAAGATAA
1 TCCACTGCAACTTCAGAGAGATAA
110586577 CATTCGCCAT
Statistics
Matches: 850, Mismatches: 207, Indels: 119
0.72 0.18 0.10
Matches are distributed among these distances:
43 34 0.04
44 370 0.44
45 297 0.35
46 10 0.01
47 2 0.00
49 7 0.01
50 6 0.01
51 111 0.13
52 11 0.01
53 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
TCCACTGCAACTTCAGAGAGATAAGATTTCTAACTTCAATCTGC
Found at i:110586331 original size:318 final size:317
Alignment explanation
Indices: 110585901--110586493 Score: 751
Period size: 318 Copynumber: 1.9 Consensus size: 317
110585891 CTTCATGGAG
* * * * *
110585901 ATAAGATTTCCTATCTTCGATCTACTCCACTGCAACTTCAATGAGATAAGATCTGTAACTTCAAT
1 ATAAGATTTACTATCTTAGATCTACCCCACTGCAACTTCAAGGAGATAAGATCTGTAACTTCAAC
* ** * * * * * *
110585966 TTGTTCTACTGCAACTTCAGGGAGGTAAGATCTATAACTTCAATCTGCTCCACTGCAGCTTCAGG
66 CTGCCCCACTGCAACTTCAAGGAGATAAGATCTATAACTTCAATCTGCTCCACTACAACTTCAGA
*
110586031 GAGATAAGATTTGCTATATTCGATCTTCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-ATCT
131 GAGATAAGATTTGCTATATTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGA-CT
* * * *
110586095 TCGATCTTCTCCACTGCAACTTCAAGGAGATAAAATCTCTAACTTCAATCTACTCCACTACAACT
194 TCAACCTGCTCCACTGCAACTTCAAGGAGATAAAATCTATAACTTCAATCTACTCCACTACAACT
*
110586160 TTAGAGAGATAAGATTTCTAATTTGTAGCTTTAATATATTTCACTGCCATTTCAGAGAA
259 TCAGAGAGATAAGATTTCTAATTTGTAGCTTTAATATATTTCACTGCCATTTCAGAGAA
* *
110586219 ATAAGATTTACTATCTTTAG-TCTGCCCCACTGCAACTTCAGGGAGATAAGA-CTTGTAACTTCA
1 ATAAGATTTACTATC-TTAGATCTACCCCACTGCAACTTCAAGGAGATAAGATC-TGTAACTTCA
* * * * * * *
110586282 ACCTGCCCCACTGCAACTTTAAGTAGATAAGGTTTATAGCTTTAATCTGCTCTACTACAACTTCA
64 ACCTGCCCCACTGCAACTTCAAGGAGATAAGATCTATAACTTCAATCTGCTCCACTACAACTTCA
* * *
110586347 GAGAGATAAGATTTGCTATCTTCGGTCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTGACT
129 GAGAGATAAGATTTGCTATATTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGACT
* * * ** * * * * *
110586412 TCAACCTGCTCTACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACT
194 TCAACCTGCTCCACTGCAACTTCAAGGAGATAAAATCTATAACTTCAATCTACTCCACTACAACT
110586477 TCAGAGAGATAAGATTT
259 TCAGAGAGATAAGATTT
110586494 GCTATTTTCA
Statistics
Matches: 230, Mismatches: 42, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
317 71 0.31
318 156 0.68
319 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (317 bp):
ATAAGATTTACTATCTTAGATCTACCCCACTGCAACTTCAAGGAGATAAGATCTGTAACTTCAAC
CTGCCCCACTGCAACTTCAAGGAGATAAGATCTATAACTTCAATCTGCTCCACTACAACTTCAGA
GAGATAAGATTTGCTATATTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTC
AACCTGCTCCACTGCAACTTCAAGGAGATAAAATCTATAACTTCAATCTACTCCACTACAACTTC
AGAGAGATAAGATTTCTAATTTGTAGCTTTAATATATTTCACTGCCATTTCAGAGAA
Found at i:110588664 original size:33 final size:33
Alignment explanation
Indices: 110588622--110588688 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
110588612 TAGGACATAG
110588622 TCACCAGCTAATCTTCTCAGCGTCCTTTTATCA
1 TCACCAGCTAATCTTCTCAGCGTCCTTTTATCA
*
110588655 TCACCAGCTAATCTTCTCAGCGTTCTTTTATCA
1 TCACCAGCTAATCTTCTCAGCGTCCTTTTATCA
110588688 T
1 T
110588689 TCTCAGTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.31, G:0.09, T:0.39
Consensus pattern (33 bp):
TCACCAGCTAATCTTCTCAGCGTCCTTTTATCA
Found at i:110590521 original size:14 final size:14
Alignment explanation
Indices: 110590504--110590542 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
110590494 ATCATTATAG
110590504 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
* *
110590518 TTTAGGGTATATGG
1 TTTAGGGTTTATGA
*
110590532 TTAAGGGTTTA
1 TTTAGGGTTTA
110590543 AGGTTTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:110590983 original size:20 final size:20
Alignment explanation
Indices: 110590958--110591032 Score: 70
Period size: 19 Copynumber: 4.0 Consensus size: 20
110590948 TATTAGATTA
110590958 AAAAACAATGATAAATAAAT
1 AAAAACAATGATAAATAAAT
* *
110590978 AAAAACATTGAT-AACAAAT
1 AAAAACAATGATAAATAAAT
* *
110590997 AAAAATAA-AATAAA-AAAT
1 AAAAACAATGATAAATAAAT
110591015 AAAAA-AAT-ATAAAATAAA
1 AAAAACAATGAT-AAATAAA
110591033 AATTAGTGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
17 4 0.09
18 14 0.30
19 17 0.37
20 11 0.24
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.19
Consensus pattern (20 bp):
AAAAACAATGATAAATAAAT
Found at i:110591023 original size:15 final size:15
Alignment explanation
Indices: 110591003--110591034 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
110590993 AAATAAAAAT
110591003 AAAATAAAAAATAAA
1 AAAATAAAAAATAAA
*
110591018 AAAATATAAAATAAA
1 AAAATAAAAAATAAA
110591033 AA
1 AA
110591035 TTAGTGGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAATAAAAAATAAA
Found at i:110591634 original size:23 final size:23
Alignment explanation
Indices: 110591608--110591654 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
110591598 TTGGTTGATA
110591608 TAATTTTCAGGA-AGTTGTTTCTT
1 TAATTTTCA-GATAGTTGTTTCTT
110591631 TAATTTTCAGATAGTTGTTTCTT
1 TAATTTTCAGATAGTTGTTTCTT
110591654 T
1 T
110591655 TCTTTCTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.55
Consensus pattern (23 bp):
TAATTTTCAGATAGTTGTTTCTT
Found at i:110594842 original size:12 final size:12
Alignment explanation
Indices: 110594825--110594852 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
110594815 AATTTAAATG
110594825 TATTAAATTACA
1 TATTAAATTACA
110594837 TATTAAATTACA
1 TATTAAATTACA
110594849 TATT
1 TATT
110594853 GAATCAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (12 bp):
TATTAAATTACA
Found at i:110600955 original size:46 final size:46
Alignment explanation
Indices: 110600898--110601079 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
110600888 AGTGTGCTCT
*
110600898 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
110600944 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
110600990 GTAACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * *
110601036 ATGACA-GAAAACTAGTAAAACCATAGTTGAAAGATACCATGGCA
1 CTGACATGAAATGT-GTAAGACCATGGTTGAAAGATACCATGGCA
110601080 TCATGTCGAA
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 115 0.97
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:110605667 original size:40 final size:40
Alignment explanation
Indices: 110605620--110605757 Score: 195
Period size: 40 Copynumber: 3.5 Consensus size: 40
110605610 CTCGAGAATA
* ** *
110605620 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
110605660 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
110605700 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
*
110605740 TAAGGTGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
110605758 ACCTGAAAAG
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:110608098 original size:19 final size:20
Alignment explanation
Indices: 110608067--110608120 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
110608057 GGTCTTTTTG
* *
110608067 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGCA
*
110608086 TGCAATGTAATGCAAATGCA
1 TGAAATGTAATGCAAATGCA
110608106 TGAAATG-AATGCAAA
1 TGAAATGTAATGCAAA
110608121 AGGAGGCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGCA
Found at i:110608803 original size:30 final size:31
Alignment explanation
Indices: 110608769--110608838 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
110608759 TTGCACAAGA
* * ***
110608769 GTAAATATTCAAAATTTGAAGGGTTAA-AGT
1 GTAAATATTAAAAAGTTGAAGGACCAATAGT
*
110608799 GTAAATATGAAAAAGTTGAAGGACCAATAGT
1 GTAAATATTAAAAAGTTGAAGGACCAATAGT
110608830 GTAAATATT
1 GTAAATATT
110608839 TGAAGGGTGG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (31 bp):
GTAAATATTAAAAAGTTGAAGGACCAATAGT
Found at i:110610933 original size:46 final size:46
Alignment explanation
Indices: 110610891--110611195 Score: 439
Period size: 46 Copynumber: 6.6 Consensus size: 46
110610881 ATGAAATATG
* * **
110610891 TAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
*
110610937 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* **
110610983 TAAGACCATGGTTGAAAAATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
**
110611029 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
*
110611075 TAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* * * *
110611121 CAAGACCATGGTTGAAAGATACCATGGGAACATGACAAGAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* * * *
110611167 TAAGACCATAGTCGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
110611196 TCATATCAAA
Statistics
Matches: 235, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 235 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
Found at i:110622244 original size:10 final size:10
Alignment explanation
Indices: 110622231--110622262 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
110622221 TAAATAATTC
110622231 TATAATTTGT
1 TATAATTTGT
110622241 TATAATTTGT
1 TATAATTTGT
110622251 TATAATTT-T
1 TATAATTTGT
110622260 TAT
1 TAT
110622263 TTTTCATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (10 bp):
TATAATTTGT
Found at i:110628802 original size:75 final size:74
Alignment explanation
Indices: 110628683--110628854 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 74
110628673 CATGGCAAAG
** *
110628683 TGTGAAATGTAGGTATGGTA--TC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-C
1 TGTGAAATGTAGGTATGGTATTTCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TCC
*
110628743 CATACTGAGC
65 CATACCGAGC
110628753 TGTGAAATGTAGGTATGGTATTCTCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATT-TCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
110628818 CATACCGAGT
65 CATACCGAGC
***
110628828 TAAAAAAATGTAGGTATGGTATTTCAA
1 T-GTGAAATGTAGGTATGGTATTTCAA
110628855 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 20 0.23
73 2 0.02
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (74 bp):
TGTGAAATGTAGGTATGGTATTTCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCC
ATACCGAGC
Found at i:110628821 original size:35 final size:35
Alignment explanation
Indices: 110628686--110628852 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
110628676 GGCAAAGTGT
* **
110628686 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
110628721 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
110628756 GAAATGTAGGTATGGTATTCTCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
110628796 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
110628832 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
110628853 AATGAGGAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
35 63 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:110628844 original size:36 final size:35
Alignment explanation
Indices: 110628782--110628852 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
110628772 ATTCTCAAAT
* *
110628782 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
110628817 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
110628853 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:110636297 original size:75 final size:74
Alignment explanation
Indices: 110636176--110636347 Score: 216
Period size: 75 Copynumber: 2.4 Consensus size: 74
110636166 TCCATGGCAA
** *
110636176 AGTGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTA
1 AGTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-
*
110636236 T-CCATACTG
65 TCCCATACCG
110636245 AGCTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT
1 AG-TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT
110636310 TCCCATACCG
65 TCCCATACCG
*
110636320 AGT-TAAAAATGTAGGTATGGTATT-TCAA
1 AGTGT-GAAATGTAGGTATGGTATTATCAA
110636348 TGAGGAAAAC
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
69 2 0.02
70 18 0.20
73 9 0.10
74 20 0.22
75 41 0.46
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (74 bp):
AGTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTT
CCCATACCG
Found at i:110636316 original size:35 final size:35
Alignment explanation
Indices: 110636181--110636345 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
110636171 GGCAAAGTGT
* **
110636181 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
110636216 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
110636251 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
110636291 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
110636326 -AAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
110636346 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
34 19 0.16
35 66 0.57
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:110640069 original size:74 final size:73
Alignment explanation
Indices: 110639950--110640118 Score: 204
Period size: 74 Copynumber: 2.4 Consensus size: 73
110639940 CATGGCAAAG
* ** *
110639950 TGTGAAATGTAGGTATG--GTATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCC
1 TGTGAAATGTAGGTATGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TCC
*
110640011 ATACTGAGC
65 ATACCGAGC
110640020 TGTGAAATGTAGGTATGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCA
1 TGTGAAATGTAGGTATGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCA
*
110640085 TACCGAGT
66 TACCGAGC
***
110640093 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTAT-GTATTATCAA
110640119 TGAGGAAAAC
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
70 17 0.20
72 4 0.05
73 27 0.32
74 37 0.44
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (73 bp):
TGTGAAATGTAGGTATGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCA
TACCGAGC
Found at i:110640085 original size:34 final size:34
Alignment explanation
Indices: 110639953--110640116 Score: 168
Period size: 35 Copynumber: 4.6 Consensus size: 34
110639943 GGCAAAGTGT
* **
110639953 GAAATGTAGGTATGGTATCATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCATACTGAGTTAA
* **
110639988 GAAATGTAGGTATGGTATTATCCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCATACTGAGTTAA
110640023 GAAATGTAGGTAT-GTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTA-T-T----TCCATACTGAGTTAA
* *
110640062 GAAATGTAGGTATGGCATTTCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCATACTGAGTTAA
*
110640096 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
110640117 AATGAGGAAA
Statistics
Matches: 113, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
34 36 0.32
35 46 0.41
36 1 0.01
38 1 0.01
39 27 0.24
40 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (34 bp):
GAAATGTAGGTATGGTATTTCCATACTGAGTTAA
Found at i:110641958 original size:2 final size:2
Alignment explanation
Indices: 110641951--110641982 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
110641941 AAGATAAAAC
110641951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110641983 TTATGTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110642079 original size:2 final size:2
Alignment explanation
Indices: 110642074--110642100 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
110642064 AATCAATTTC
110642074 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
110642101 TTAAATGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:110643987 original size:23 final size:23
Alignment explanation
Indices: 110643972--110644026 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
110643962 TATATTACAT
110643972 ACATAAAAAATCATATTTATCTA
1 ACATAAAAAATCATATTTATCTA
110643995 ACATAAAAAATCATATTTATCTA
1 ACATAAAAAATCATATTTATCTA
*
110644018 ATATAAAAA
1 ACATAAAAA
110644027 TTATTAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (23 bp):
ACATAAAAAATCATATTTATCTA
Found at i:110645176 original size:49 final size:49
Alignment explanation
Indices: 110645112--110645205 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
110645102 ATTTCAAACT
* * *
110645112 TTTTTTATTCTTAATTAATTTTTTTAGTTAGTAAAT-TTATTATTTTTAA
1 TTTTTTATTCTTAATTAATCTTTTTAATTAATAAATCTT-TTATTTTTAA
*
110645161 TTTTTTATT-TGTAATTCATCTTTTTAATTAATAAATCTTTTATTT
1 TTTTTTATTCT-TAATTAATCTTTTTAATTAATAAATCTTTTATTT
110645206 ATAAAATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 1 0.03
49 36 0.92
50 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (49 bp):
TTTTTTATTCTTAATTAATCTTTTTAATTAATAAATCTTTTATTTTTAA
Found at i:110645795 original size:34 final size:31
Alignment explanation
Indices: 110645739--110645805 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 31
110645729 TTTATTAATT
110645739 AAAAATAAAAAAACTTGAAACAATATAAAATA
1 AAAAATAAAAAAACTTGAAACAA-ATAAAATA
* *
110645771 AAAAATACAATAAAGCTTGAAACAAATGAAATA
1 AAAAATA-AA-AAAACTTGAAACAAATAAAATA
110645804 AA
1 AA
110645806 GATACGAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 7 0.23
33 11 0.35
34 13 0.42
ACGTcount: A:0.69, C:0.07, G:0.06, T:0.18
Consensus pattern (31 bp):
AAAAATAAAAAAACTTGAAACAAATAAAATA
Found at i:110646628 original size:23 final size:23
Alignment explanation
Indices: 110646602--110646674 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
110646592 TAATCGTTAA
110646602 AAATAAAAATAAATAAAAATTAT
1 AAATAAAAATAAATAAAAATTAT
* *
110646625 AAATTATAA-AAATAAAAAATTAT
1 AAATAAAAATAAAT-AAAAATTAT
* * **
110646648 --ATAAAATTAAAGAATCATTAT
1 AAATAAAAATAAATAAAAATTAT
110646669 AAATAA
1 AAATAA
110646675 TTTCTTTTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
21 11 0.29
22 7 0.18
23 20 0.53
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (23 bp):
AAATAAAAATAAATAAAAATTAT
Found at i:110646644 original size:16 final size:15
Alignment explanation
Indices: 110646599--110646654 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
110646589 TTATAATCGT
*
110646599 TAAAAATAAAAATAAA
1 TAAAAATAAAAAT-TA
*
110646615 TAAAAATTATAAATTA
1 TAAAAA-TAAAAATTA
110646631 TAAAAATAAAAAATTA
1 TAAAAAT-AAAAATTA
110646647 TATAAAAT
1 TA-AAAAT
110646655 TAAAGAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 1 0.03
16 22 0.65
17 11 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAATAAAAATTA
Found at i:110646671 original size:19 final size:19
Alignment explanation
Indices: 110646627--110646671 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
110646617 AAAATTATAA
*
110646627 ATTATAAAAATAAAAAATT
1 ATTATAAAAATAAAAAATC
* *
110646646 A-TATAAAATTAAAGAATC
1 ATTATAAAAATAAAAAATC
110646664 ATTATAAA
1 ATTATAAA
110646672 TAATTTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATTATAAAAATAAAAAATC
Found at i:110648699 original size:13 final size:13
Alignment explanation
Indices: 110648681--110648759 Score: 52
Period size: 13 Copynumber: 6.1 Consensus size: 13
110648671 AGTTCTTCAT
110648681 TGCTTTTGAAAAA
1 TGCTTTTGAAAAA
* *
110648694 TGCTTTAGAAAAG
1 TGCTTTTGAAAAA
* *
110648707 TGCTGTAGAAAAA
1 TGCTTTTGAAAAA
* * *
110648720 TACTTTTGAGAAG
1 TGCTTTTGAAAAA
* *
110648733 TACTTTTGAGAAGA
1 TGCTTTTGA-AAAA
*
110648747 -GCTTTGGAAAAA
1 TGCTTTTGAAAAA
110648759 T
1 T
110648760 TTAAGTGTTT
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
12 3 0.06
13 45 0.92
14 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (13 bp):
TGCTTTTGAAAAA
Found at i:110652810 original size:25 final size:24
Alignment explanation
Indices: 110652764--110652810 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
110652754 AAGTTCAATT
*
110652764 AATTAATATGAGTTATTGAATTAA
1 AATTAATATGAGTTATTAAATTAA
*
110652788 AATTAATCATGTGTTATTAAATT
1 AATTAAT-ATGAGTTATTAAATT
110652811 CAAGTAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (24 bp):
AATTAATATGAGTTATTAAATTAA
Found at i:110662684 original size:10 final size:11
Alignment explanation
Indices: 110662664--110662688 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
110662654 ATAAGTGTAA
110662664 TTTGTTTTTTT
1 TTTGTTTTTTT
110662675 TTTGTTTTTTT
1 TTTGTTTTTTT
110662686 TTT
1 TTT
110662689 CTAATAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTGTTTTTTT
Found at i:110663472 original size:8 final size:8
Alignment explanation
Indices: 110663459--110663499 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
110663449 GCTTTAGTTT
110663459 ATATTTTA
1 ATATTTTA
110663467 ATA-TTTA
1 ATATTTTA
*
110663474 AT-TATT-
1 ATATTTTA
110663480 ATATTTTA
1 ATATTTTA
110663488 ATATTTTA
1 ATATTTTA
110663496 ATAT
1 ATAT
110663500 AATTTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
6 2 0.07
7 11 0.39
8 15 0.54
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTTTA
Found at i:110663510 original size:19 final size:18
Alignment explanation
Indices: 110663479--110663527 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
110663469 ATTTAATTAT
* *
110663479 TATATTTTAATATTTTAA
1 TATAATTTAATATTCTAA
110663497 TATAATTTATATATTCTAA
1 TATAATTTA-ATATTCTAA
110663516 T-TAAATTTAATA
1 TAT-AATTTAATA
110663528 AATAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TATAATTTAATATTCTAA
Found at i:110663510 original size:27 final size:28
Alignment explanation
Indices: 110663459--110663516 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
110663449 GCTTTAGTTT
*
110663459 ATATTTTAATATTTAATTATTATATTTTA
1 ATATTTTAATA-TTAATTATTATATTCTA
110663488 ATATTTTAATA-TAATT-TATATATTCTA
1 ATATTTTAATATTAATTAT-TATATTCTA
110663515 AT
1 AT
110663517 TAAATTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 1 0.04
27 15 0.56
29 11 0.41
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATTTTAATATTAATTATTATATTCTA
Found at i:110672485 original size:2 final size:2
Alignment explanation
Indices: 110672480--110672520 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
110672470 ATACATGTGA
*
110672480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110672521 TTAATGACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:110672843 original size:2 final size:2
Alignment explanation
Indices: 110672836--110672862 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
110672826 CAAAACTTCA
110672836 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
110672863 AATTTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:110673210 original size:9 final size:9
Alignment explanation
Indices: 110673198--110673283 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 9
110673188 ATTTTGGGGG
110673198 TTTTTTTAA
1 TTTTTTTAA
* *
110673207 TTTTTATGA
1 TTTTTTTAA
*
110673216 TTTTTTTTA
1 TTTTTTTAA
*
110673225 TATTTTTAA
1 TTTTTTTAA
110673234 TATTTTTTAA
1 T-TTTTTTAA
*
110673244 TATTTTGT--
1 T-TTTTTTAA
*
110673252 GTTTTTTAA
1 TTTTTTTAA
*
110673261 GTATTTTTTTA
1 -T-TTTTTTAA
110673272 TTTTTTT-A
1 TTTTTTTAA
110673280 TTTT
1 TTTT
110673284 ACATATGAGA
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
7 5 0.08
8 5 0.08
9 28 0.47
10 15 0.25
11 7 0.12
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:110673220 original size:19 final size:19
Alignment explanation
Indices: 110673198--110673258 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
110673188 ATTTTGGGGG
110673198 TTTTTTTAATTTTTATGAT
1 TTTTTTTAATTTTTATGAT
110673217 TTTTTTTATATTTTTA--AT
1 TTTTTTTA-ATTTTTATGAT
* *
110673235 ATTTTTTAATATTTTGTG-T
1 TTTTTTTAAT-TTTTATGAT
110673254 TTTTT
1 TTTTT
110673259 AAGTATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.06
18 13 0.37
19 13 0.37
20 7 0.20
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTTTTTAATTTTTATGAT
Found at i:110673223 original size:20 final size:20
Alignment explanation
Indices: 110673198--110673241 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
110673188 ATTTTGGGGG
110673198 TTTTTTTA-ATTTTT-ATGAT
1 TTTTTTTATATTTTTAAT-AT
110673217 TTTTTTTATATTTTTAATAT
1 TTTTTTTATATTTTTAATAT
110673237 TTTTT
1 TTTTT
110673242 AATATTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 13 0.57
21 2 0.09
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTTTATATTTTTAATAT
Found at i:110673240 original size:37 final size:36
Alignment explanation
Indices: 110673199--110673283 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 36
110673189 TTTTGGGGGT
*
110673199 TTTTTTAATTTTTATGAT-TTTTTTTA-TATTTTTAATA
1 TTTTTTAATTTTT-TG-TGTTTTTTAAGTATTTTT-ATA
* *
110673236 TTTTTTAATATTTTGTGTTTTTTAAGTATTTTTTTA
1 TTTTTTAATTTTTTGTGTTTTTTAAGTATTTTTATA
*
110673272 TTTTTTTATTTT
1 TTTTTTAATTTT
110673284 ACATATGAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
35 1 0.02
36 21 0.51
37 19 0.46
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (36 bp):
TTTTTTAATTTTTTGTGTTTTTTAAGTATTTTTATA
Found at i:110681127 original size:24 final size:23
Alignment explanation
Indices: 110681070--110681117 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
110681060 TAAGCCTCCC
110681070 AAAA-AAAAACCTAACCAAAAAA
1 AAAAGAAAAACCTAACCAAAAAA
*
110681092 AAAAGAAAAACCTAACCCAAAAA
1 AAAAGAAAAACCTAACCAAAAAA
110681115 AAA
1 AAA
110681118 CTAAGAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.75, C:0.19, G:0.02, T:0.04
Consensus pattern (23 bp):
AAAAGAAAAACCTAACCAAAAAA
Found at i:110681519 original size:17 final size:18
Alignment explanation
Indices: 110681499--110681546 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
110681489 GGCGGTGGCT
110681499 GGCGGTGGCCGGCGAT-G
1 GGCGGTGGCCGGCGATCG
* *
110681516 GGCGGCGGCCGACGATCG
1 GGCGGTGGCCGGCGATCG
* *
110681534 GCCGGTGACCGGC
1 GGCGGTGGCCGGC
110681547 CCCCCTTGGC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.08, C:0.31, G:0.52, T:0.08
Consensus pattern (18 bp):
GGCGGTGGCCGGCGATCG
Found at i:110681946 original size:11 final size:11
Alignment explanation
Indices: 110681922--110681966 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
110681912 TTCTAATACG
*
110681922 TATATATATAT
1 TATATATATTT
*
110681933 TATATGTATTT
1 TATATATATTT
*
110681944 TATATATATTA
1 TATATATATTT
*
110681955 TGTATATATTT
1 TATATATATTT
110681966 T
1 T
110681967 TTTAATGCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:110682176 original size:21 final size:20
Alignment explanation
Indices: 110682126--110682177 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
110682116 TATTGCTAGT
*
110682126 ATTATTATA-ATTTTATTAC
1 ATTAGTATATATTTTATTAC
*
110682145 ATTAGTGTATATTTTATGTAC
1 ATTAGTATATATTTTAT-TAC
110682166 ATATA-TATATAT
1 AT-TAGTATATAT
110682178 ATATTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.26
20 7 0.26
21 11 0.41
22 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (20 bp):
ATTAGTATATATTTTATTAC
Found at i:110682237 original size:151 final size:153
Alignment explanation
Indices: 110682082--110682365 Score: 330
Period size: 151 Copynumber: 1.9 Consensus size: 153
110682072 TTAAAATACC
* * *
110682082 ATATTGTGTATATA-TTATTATTACTAATTAT-TACTATTGCTAG-TATTATTA-TA-ATT-TTA
1 ATATTGTGTATATACGT-TTACTAATAATT-TCTACTATTG-TAGATATTATTATTATATTATTA
* * *
110682141 TTACATTAGTGTATATTTTATGTACATATATATATATATATTTTT-TGTACATATCATTATTTTA
63 TTACA-TACT-TATATTATATGCACATATATATATATATATTTTTATGTACATATCATTATTTTA
110682205 TATTATTGTTGTAATTTTTTTTATGTAT
126 TATTATTGTTGTAATTTTTTTTATGTAT
* * * * **
110682233 ATATTTTTTATGTACGTTTCCTAATAATTTCTTTTATTGTAGATATTATTATTATTATTATTATT
1 ATATTGTGTATATACGTTTACTAATAATTTCTACTATTGTAGATATTATTATTA-TATTATTATT
* * *
110682298 ACATACTTTTATTATATGCACATATATATATATGTATTTTTATGTACATATTATTATTTTATATT
65 ACATACTTATATTATATGCACATATATATATATATATTTTTATGTACATATCATTATTTTATATT
110682363 ATT
130 ATT
110682366 ATTACCAAAT
Statistics
Matches: 110, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
150 4 0.04
151 34 0.31
152 3 0.03
153 30 0.27
154 31 0.28
155 8 0.07
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (153 bp):
ATATTGTGTATATACGTTTACTAATAATTTCTACTATTGTAGATATTATTATTATATTATTATTA
CATACTTATATTATATGCACATATATATATATATATTTTTATGTACATATCATTATTTTATATTA
TTGTTGTAATTTTTTTTATGTAT
Found at i:110692253 original size:67 final size:65
Alignment explanation
Indices: 110692172--110692363 Score: 236
Period size: 67 Copynumber: 3.0 Consensus size: 65
110692162 TTTTATTTCA
* *
110692172 AAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTGTCAATTTTCT
1 AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATT-TCAA-TTTCT
110692237 GT
64 GT
** * *
110692239 ATGTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACGCGCTGAGGTATTTTAA-------
1 AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATTTCAATTTCTGT
*
110692297 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGT-ATTTCAATTTCT
110692362 GT
64 GT
110692364 TGTCAAAAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
58 34 0.32
59 13 0.12
60 6 0.06
66 3 0.03
67 49 0.47
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATTTCAATTTCTGT
Found at i:110692416 original size:75 final size:75
Alignment explanation
Indices: 110692295--110692485 Score: 255
Period size: 75 Copynumber: 2.5 Consensus size: 75
110692285 GAGGTATTTT
* *
110692295 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG-GTAA-TTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGTATAATTTTCAAT
110692358 TTCTGTTGTC
66 TTCTGTTGTC
* * *
110692368 AAAAAAAATCAACTCGTATTGCGAGA-G-GAGTTGAGCCTTAGGTCACACGCCGAGTATAATTTT
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGCCGAGTATAA-TTT
*
110692431 TCAATTTCTGTTTTC
61 TCAATTTCTGTTGTC
110692446 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
110692486 GAACGAATTT
Statistics
Matches: 101, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
73 13 0.13
74 1 0.01
75 32 0.32
76 26 0.26
77 1 0.01
78 28 0.28
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (75 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGTATAATTTTCAAT
TTCTGTTGTC
Found at i:110698501 original size:21 final size:20
Alignment explanation
Indices: 110698461--110698502 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
110698451 TTATTATAAT
*
110698461 TTTTATTACATTAGTGTATA
1 TTTTATTACATTAGTATATA
110698481 TTTTATGTACATATA-TATATA
1 TTTTAT-TACAT-TAGTATATA
110698502 T
1 T
110698503 ATATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 11 0.58
22 2 0.11
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTTATTACATTAGTATATA
Found at i:110708219 original size:18 final size:18
Alignment explanation
Indices: 110708184--110708217 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
110708174 GTACAAGAGC
110708184 CTCAACGCAAGGACAAAG
1 CTCAACGCAAGGACAAAG
*
110708202 CTCAAC-CAAGGGCAAA
1 CTCAACGCAAGGACAAA
110708218 AGACTCGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (18 bp):
CTCAACGCAAGGACAAAG
Found at i:110708601 original size:68 final size:67
Alignment explanation
Indices: 110708513--110708708 Score: 212
Period size: 61 Copynumber: 3.0 Consensus size: 67
110708503 TTTTATTTCA
* *
110708513 AAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGATATTGTCAATTTTC
1 AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG-TATTGTCAATTTTC
110708578 TGT
65 TGT
** * *
110708581 ATGTTCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACGCGCTGAG----GT--ATTTT-T
1 AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTATTGTCAATTTTCT
**
110708639 AAA
66 -GT
*
110708642 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAA-TTT
1 AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-GT-ATTGTCAATTTT
110708705 CTGT
64 CTGT
110708709 TGTCAAAAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
60 1 0.01
61 49 0.48
62 1 0.01
63 2 0.02
66 1 0.01
67 3 0.03
68 46 0.45
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (67 bp):
AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTATTGTCAATTTTCT
GT
Found at i:110708913 original size:78 final size:76
Alignment explanation
Indices: 110708785--110709226 Score: 508
Period size: 78 Copynumber: 5.8 Consensus size: 76
110708775 TAATTTCCGT
* * *
110708785 TTTTCAATTTCTGCCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGA
1 TTTTCAATTTCTG-TTTTCAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGA
110708848 CATGCTGAGGTA
65 CATGCTGAGGTA
* * * *
110708860 ATTTCAATTTCTGTTGTCAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
1 TTTTCAATTTCTGTTTTC--AAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG
110708925 ACATGCTGAGGTA
64 ACATGCTGAGGTA
* * *
110708938 TTTTCAATTTTTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCGGGA
1 TTTTCAATTTCTGT-TTTCAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGA
*
110709001 CACGCTGAGGTA
65 CATGCTGAGGTA
* * * * *
110709013 ATTTCAATTTCTGTTTTC----AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGAC
* *
110709074 ACGTTGAGGTA
66 ATGCTGAGGTA
* *
110709085 TTTTCAATTTCTGTTTTCAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GG
1 TTTTCAATTTCTGTTTTC--AAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG
110709149 TTCACATGCTGAGGTA
64 ---ACATGCTGAGGTA
* * * *
110709165 TTTTCAATTTCTGTCGTT-AAAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTTTCAATTTCTGT-TTTCAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAG
110709227 ATCACACACT
Statistics
Matches: 316, Mismatches: 35, Indels: 28
0.83 0.09 0.07
Matches are distributed among these distances:
72 64 0.20
74 7 0.02
75 75 0.24
77 1 0.00
78 138 0.44
79 4 0.01
80 25 0.08
81 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGAC
ATGCTGAGGTA
Found at i:110710002 original size:17 final size:17
Alignment explanation
Indices: 110709980--110710038 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
110709970 AAGCCCCCCC
110709980 AAAAAAAACCTAACCAA
1 AAAAAAAACCTAACCAA
*** **
110709997 AAAAAAAAAAGAAGAAA
1 AAAAAAAACCTAACCAA
*
110710014 AAAGAAAAACCTAACCCA
1 AAA-AAAAACCTAACCAA
110710032 AAAAAAA
1 AAAAAAA
110710039 CTAAGAAACC
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
17 19 0.63
18 11 0.37
ACGTcount: A:0.76, C:0.15, G:0.05, T:0.03
Consensus pattern (17 bp):
AAAAAAAACCTAACCAA
Found at i:110710525 original size:22 final size:22
Alignment explanation
Indices: 110710495--110710544 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
110710485 TCCTTTTCCC
*
110710495 CCCTCCCTTCTCTCTTCTTTCT
1 CCCTTCCTTCTCTCTTCTTTCT
* * *
110710517 CCCTTCCTTTTTTTTTCTTTCT
1 CCCTTCCTTCTCTCTTCTTTCT
*
110710539 CTCTTC
1 CCCTTC
110710545 AAAATGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (22 bp):
CCCTTCCTTCTCTCTTCTTTCT
Found at i:110710871 original size:11 final size:11
Alignment explanation
Indices: 110710847--110710890 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
110710837 TTCTAATACG
*
110710847 TATATATATAT
1 TATATATATTT
*
110710858 TATATGTATTT
1 TATATATATTT
110710869 TATATATATTAT
1 TATATATATT-T
110710881 GTATATATAT
1 -TATATATAT
110710891 ATTTTTAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 18 0.64
12 1 0.04
13 9 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (11 bp):
TATATATATTT
Found at i:110712583 original size:8 final size:8
Alignment explanation
Indices: 110712570--110712597 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
110712560 TTCTATTTAT
110712570 AAAAAAAG
1 AAAAAAAG
110712578 AAAAAAAG
1 AAAAAAAG
110712586 AAAAAAAG
1 AAAAAAAG
110712594 AAAA
1 AAAA
110712598 GAAAACAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:110712791 original size:14 final size:14
Alignment explanation
Indices: 110712772--110712812 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
110712762 TATCTCAAAT
110712772 TTTAAAATATTATA
1 TTTAAAATATTATA
110712786 TTT-AAATATTTATA
1 TTTAAAATA-TTATA
110712800 TTTAAAAGTATTA
1 TTTAAAA-TATTA
110712813 ATATCTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.21
14 11 0.46
15 6 0.25
16 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
TTTAAAATATTATA
Found at i:110715597 original size:6 final size:6
Alignment explanation
Indices: 110715566--110715596 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
110715556 CCCCAGTGTT
*
110715566 CCAGGA CCAGGA CCAGGA CCAGGA CGAGGA C
1 CCAGGA CCAGGA CCAGGA CCAGGA CCAGGA C
110715597 GGTCAAGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.32, G:0.35, T:0.00
Consensus pattern (6 bp):
CCAGGA
Found at i:110722101 original size:27 final size:26
Alignment explanation
Indices: 110722071--110722197 Score: 114
Period size: 27 Copynumber: 4.7 Consensus size: 26
110722061 AGCAAACTCT
*
110722071 ATCGCCTTTGTGGCGTACTCTAATTGG
1 ATCGCCTTTGTGGCGTACTTTAA-TGG
110722098 ATCGCCTTTGTGGCGTACTTTAACTGG
1 ATCGCCTTTGTGGCGTACTTTAA-TGG
* * *
110722125 CTAGCCTTTAT-G-GTACATTTTGAATGG
1 ATCGCCTTTGTGGCGTAC--TTT-AATGG
* *
110722152 ATTGCCTTTGTGGCATACTTTGAATGG
1 ATCGCCTTTGTGGCGTACTTT-AATGG
* *
110722179 ATCGACTTGGTGGCGTACT
1 ATCGCCTTTGTGGCGTACT
110722198 CTATATGATT
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
25 4 0.05
26 1 0.01
27 71 0.87
28 3 0.04
29 3 0.04
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (26 bp):
ATCGCCTTTGTGGCGTACTTTAATGG
Found at i:110729422 original size:21 final size:21
Alignment explanation
Indices: 110729393--110729435 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
110729383 AATTAATAAA
*
110729393 TTAAAAC-TTAATTTTATTATT
1 TTAAAACTTTAA-TTAATTATT
*
110729414 TTAATACTTTAATTAATTATT
1 TTAAAACTTTAATTAATTATT
110729435 T
1 T
110729436 ACGACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAAACTTTAATTAATTATT
Found at i:110757557 original size:32 final size:32
Alignment explanation
Indices: 110757516--110757578 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
110757506 TAAGGCTCAA
*
110757516 AAGATAAGGGCCATCTCCTCTATAAGTACCCT
1 AAGATAAGGGCCATCTCCTCTATAAATACCCT
* *
110757548 AAGATAAGGGTCATCTCTTCTATAAATACCC
1 AAGATAAGGGCCATCTCCTCTATAAATACCC
110757579 CTTAATGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.27
Consensus pattern (32 bp):
AAGATAAGGGCCATCTCCTCTATAAATACCCT
Found at i:110758966 original size:31 final size:33
Alignment explanation
Indices: 110758889--110758966 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 33
110758879 AACTCATACT
* *
110758889 TGTGGATTCATAGAGGAAACTTCATAAATATAACA
1 TGTGGATTCATAGAAGAAACTTCATAAACAT-A-A
*
110758924 TGTTGATTCATAGAAGAAACTTCATAAACAT-A
1 TGTGGATTCATAGAAGAAACTTCATAAACATAA
110758956 -GTGGATTCATA
1 TGTGGATTCATA
110758967 TATGCAGACT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.26
32 1 0.03
35 28 0.72
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.31
Consensus pattern (33 bp):
TGTGGATTCATAGAAGAAACTTCATAAACATAA
Found at i:110760351 original size:20 final size:20
Alignment explanation
Indices: 110760314--110760351 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
110760304 TTAATTCGTC
*
110760314 TATTCCTTAATTCCTCTAAT
1 TATTCCTTAATTCATCTAAT
110760334 TATTCC-TAACTTCATCTA
1 TATTCCTTAA-TTCATCTA
110760352 CCTTGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTCCTTAATTCATCTAAT
Found at i:110762414 original size:8 final size:8
Alignment explanation
Indices: 110762401--110762431 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
110762391 ATTAGCCCTC
110762401 ACATTTTG
1 ACATTTTG
110762409 ACATTTTG
1 ACATTTTG
*
110762417 ACATTTTA
1 ACATTTTG
110762425 ACATTTT
1 ACATTTT
110762432 AGTCCCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (8 bp):
ACATTTTG
Found at i:110762670 original size:21 final size:21
Alignment explanation
Indices: 110762644--110762692 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
110762634 ACTCATAATT
110762644 TCATCAAGACTCAACTCAAAA
1 TCATCAAGACTCAACTCAAAA
* *
110762665 TCATCAAGGCTCAACTTAAAA
1 TCATCAAGACTCAACTCAAAA
110762686 TCATCAA
1 TCATCAA
110762693 TAAAATTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.27, G:0.06, T:0.22
Consensus pattern (21 bp):
TCATCAAGACTCAACTCAAAA
Found at i:110763923 original size:15 final size:15
Alignment explanation
Indices: 110763903--110763933 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110763893 CCAAAGTTTG
110763903 CACGATCTCCTTAGT
1 CACGATCTCCTTAGT
*
110763918 CACGATCTCTTTAGT
1 CACGATCTCCTTAGT
110763933 C
1 C
110763934 CATTTTTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (15 bp):
CACGATCTCCTTAGT
Found at i:110765392 original size:135 final size:136
Alignment explanation
Indices: 110765149--110765432 Score: 543
Period size: 135 Copynumber: 2.1 Consensus size: 136
110765139 TATTGGGCCT
**
110765149 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
110765214 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
110765279 ATATGC
131 ATATGC
110765285 AAGCCCATTTGGGTAACAGTGGTACTGGG-CAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
110765349 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
110765414 ATATGC
131 ATATGC
110765420 AAGCCCATTTGGG
1 AAGCCCATTTGGG
110765433 GAGACTACTC
Statistics
Matches: 146, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
135 119 0.82
136 27 0.18
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:110767254 original size:26 final size:26
Alignment explanation
Indices: 110767218--110767358 Score: 210
Period size: 26 Copynumber: 5.2 Consensus size: 26
110767208 CATGATATTC
110767218 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
110767244 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
110767270 TTATCATGGAACATTTACCTAACCTAACCTA
1 TTATCATGAAACATTTACCTAA-C---CC-A
110767301 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
110767327 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
110767353 TTATCA
1 TTATCA
110767359 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 10
0.88 0.03 0.08
Matches are distributed among these distances:
26 78 0.74
27 3 0.03
30 3 0.03
31 22 0.21
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:110767314 original size:57 final size:57
Alignment explanation
Indices: 110767234--110767352 Score: 229
Period size: 57 Copynumber: 2.1 Consensus size: 57
110767224 TGAAACATTT
110767234 ACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTA
1 ACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTA
*
110767291 ACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTA
1 ACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTA
110767348 ACCTA
1 ACCTA
110767353 TTATCAATTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.37, C:0.28, G:0.05, T:0.30
Consensus pattern (57 bp):
ACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTA
Found at i:110769564 original size:45 final size:46
Alignment explanation
Indices: 110769500--110769589 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 46
110769490 TTCATATAAA
*
110769500 CAAGCCTATTAATTATCATTTATTAAATG-AAATGATCTTAATTAG
1 CAAGCCTATTAATTATCATTTATTAAATGAAAACGATCTTAATTAG
* *
110769545 CAAGCCTATTAATTTTCATTTATTTAATGAAAACGATCTTAATTA
1 CAAGCCTATTAATTATCATTTATTAAATGAAAACGATCTTAATTA
110769590 AAAATTATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 27 0.66
46 14 0.34
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (46 bp):
CAAGCCTATTAATTATCATTTATTAAATGAAAACGATCTTAATTAG
Found at i:110771275 original size:46 final size:47
Alignment explanation
Indices: 110771212--110771670 Score: 614
Period size: 46 Copynumber: 10.0 Consensus size: 47
110771202 TTCGACATGA
* * * * * * *
110771212 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
* ** ** *
110771258 TGCCATGGTATCATTCAACCATGGTCTTATTCA-TTTCCCCATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTT-CATATCAGGT
* * *
110771305 TGCCATGGTATCTTTCAACCATGGTCTTAAACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
110771351 TGCCATGGTATCTTTCAACCATGGTCTTATACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
* *
110771397 TGCTATGGTATCTTTCAACCACGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
110771443 TGCCATGGTATCTTTCAACCACGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
110771489 TGCCATGGTATCTTTCAACCACGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
***
110771535 TGCCATGGTATCTTTCAACCGCAGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
110771581 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
110771627 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAG
110771671 AGAGCACACT
Statistics
Matches: 381, Mismatches: 26, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
45 3 0.01
46 335 0.88
47 43 0.11
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
Found at i:110773828 original size:11 final size:11
Alignment explanation
Indices: 110773812--110773863 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
110773802 TATACTAAAT
110773812 AAATAATAATA
1 AAATAATAATA
*
110773823 AAATAAT-ATT
1 AAATAATAATA
* *
110773833 AAATATCTCATA
1 AAATA-ATAATA
*
110773845 AAATATTAATA
1 AAATAATAATA
110773856 AAATAATA
1 AAATAATA
110773864 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:110775190 original size:20 final size:20
Alignment explanation
Indices: 110775152--110775199 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
110775142 TAAATTCTAA
* **
110775152 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
110775172 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
110775192 AAA-ATAAA
1 AAAGATAAA
110775200 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:110775610 original size:20 final size:20
Alignment explanation
Indices: 110775580--110775617 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
110775570 TCCTATTTAC
110775580 TTTCCCTCAAAAATTTTTATT
1 TTTCCCTC-AAAATTTTTATT
110775601 TTTCCC-CAAAATTTTTA
1 TTTCCCTCAAAATTTTTA
110775618 CTCCCTCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 1 0.06
21 6 0.35
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTCCCTCAAAATTTTTATT
Found at i:110775792 original size:19 final size:21
Alignment explanation
Indices: 110775759--110775797 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
110775749 AAATTTTATT
110775759 CCCCTAAACTTTTTA-TTTTC
1 CCCCTAAACTTTTTACTTTTC
110775779 CCCCTAAAC-TTTTACTTTT
1 CCCCTAAACTTTTTACTTTT
110775798 TACCCTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.49
Consensus pattern (21 bp):
CCCCTAAACTTTTTACTTTTC
Found at i:110778236 original size:75 final size:73
Alignment explanation
Indices: 110778148--110778319 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
110778138 GGTTTTCCTC
*** * * **
110778148 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
110778212 TCAGTATGG
65 TCAGTATGG
*
110778221 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
110778286 CTCAGTATGG
64 CTCAGTATGG
110778296 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
110778320 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:110778317 original size:35 final size:35
Alignment explanation
Indices: 110778153--110778319 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
110778143 TCCTCATTGA
*** *
110778153 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
110778188 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
110778228 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
110778263 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
110778298 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
110778320 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:110781823 original size:39 final size:39
Alignment explanation
Indices: 110781769--110782072 Score: 518
Period size: 39 Copynumber: 7.8 Consensus size: 39
110781759 TAATGGAGAA
* *
110781769 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
*
110781808 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
*
110781847 TTATATCCGGGCTAAGCCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
*
110781886 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
* *
110781925 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
* * *
110781964 TTATATTCGGGCTTAGCCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
110782003 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
110782042 TTATATCCGGGCTAAGCCCCGAAGGCATTCG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCG
110782073 GGCTAAAGTC
Statistics
Matches: 251, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 251 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.27
Consensus pattern (39 bp):
TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
Found at i:110790969 original size:1 final size:1
Alignment explanation
Indices: 110790963--110790993 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
110790953 TCTTCGCTTG
110790963 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
110790994 GGGGGGGGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:110791659 original size:12 final size:12
Alignment explanation
Indices: 110791642--110791674 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
110791632 CGACATGCCC
110791642 ATATTAATTTTT
1 ATATTAATTTTT
110791654 ATATT-ATTTTT
1 ATATTAATTTTT
110791665 ATA-TAATTTT
1 ATATTAATTTT
110791675 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:110792884 original size:21 final size:21
Alignment explanation
Indices: 110792858--110792900 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
110792848 GAATTATGAT
110792858 ATTTGTTGATTTCTACTGGAA
1 ATTTGTTGATTTCTACTGGAA
110792879 ATTTGTTGATTTCTACTGGAA
1 ATTTGTTGATTTCTACTGGAA
110792900 A
1 A
110792901 AAATAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (21 bp):
ATTTGTTGATTTCTACTGGAA
Found at i:110797458 original size:15 final size:15
Alignment explanation
Indices: 110797438--110797468 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
110797428 ATGATGATGA
110797438 AGTGGTAGTGCCACT
1 AGTGGTAGTGCCACT
110797453 AGTGGTAGTGCCACT
1 AGTGGTAGTGCCACT
110797468 A
1 A
110797469 CGTCCAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (15 bp):
AGTGGTAGTGCCACT
Found at i:110799182 original size:5 final size:5
Alignment explanation
Indices: 110799169--110799202 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
110799159 TCCTCTTATT
*
110799169 ATATC ATATT ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATAT
110799203 ATCTATAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (5 bp):
ATATC
Found at i:110799610 original size:11 final size:11
Alignment explanation
Indices: 110799594--110799619 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
110799584 CAGAATTGTC
110799594 TTTTCTTTATA
1 TTTTCTTTATA
110799605 TTTTCTTTATA
1 TTTTCTTTATA
110799616 TTTT
1 TTTT
110799620 TATTTTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTTATA
Found at i:110801023 original size:40 final size:40
Alignment explanation
Indices: 110800963--110801101 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 40
110800953 AACACACCAG
* **
110800963 TTTGGCACCCAGTGCCTCATCGGATAATTTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * * *
110801003 TTTGACACCCAGTGTCTCATCAGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * * *
110801041 -TTGGCACCCAGTACCTCATCGAATTAATCCGAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCGGA-TAATCCGAAGTAATAA
* * *
110801081 CTTGACACCCACTGTCTCATC
1 TTTGACACCCAGTGCCTCATC
110801102 AACTCGAAGT
Statistics
Matches: 76, Mismatches: 19, Indels: 7
0.75 0.19 0.07
Matches are distributed among these distances:
37 17 0.22
38 12 0.16
39 1 0.01
40 30 0.39
41 16 0.21
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
Done.