Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 4 of 770
Found at i:905699 original size:2 final size:2
Alignment explanation
Indices: 905694--905719 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
905684 TATATATATA
905694 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
905720 AGACTTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:908442 original size:1 final size:1
Alignment explanation
Indices: 908436--908462 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
908426 GGGGAAGAAG
908436 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
908463 CAGCATCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:912209 original size:2 final size:2
Alignment explanation
Indices: 912202--912265 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
912192 CATCAACACC
912202 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
912244 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
912266 ACTCCATTCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:916647 original size:35 final size:35
Alignment explanation
Indices: 916620--916785 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
916610 CATGGCAAAG
*
916620 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
916655 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
916690 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
916730 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
916765 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
916786 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:916739 original size:75 final size:75
Alignment explanation
Indices: 916620--916790 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
916610 CATGGCAAAG
** *
916620 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
916679 CCATACTGAGC
65 CCATACCGAGC
916690 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
916755 CATACCGAGT
66 CATACCGAGC
**
916765 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
916791 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:924141 original size:35 final size:35
Alignment explanation
Indices: 924114--924279 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
924104 CATGGCAAAG
*
924114 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
924149 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
924184 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
924224 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
924259 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
924280 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:924233 original size:75 final size:75
Alignment explanation
Indices: 924114--924284 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
924104 CATGGCAAAG
** *
924114 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
924173 CCATACTGAGC
65 CCATACCGAGC
924184 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
924249 CATACCGAGT
66 CATACCGAGC
**
924259 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
924285 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:925539 original size:19 final size:19
Alignment explanation
Indices: 925492--925549 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
925482 AAAATGATAA
925492 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
**
925512 AATTGAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATGTTTC
925531 AATCAAGTTAAAACTGTTT
1 AATCAAGTTAAAA-TGTTT
925550 TAAAACAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 13 0.42
21 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:944703 original size:16 final size:16
Alignment explanation
Indices: 944678--944717 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
944668 CTCAGATCTT
*
944678 AAAAACAAAACATTAA
1 AAAAATAAAACATTAA
944694 AAAAATAAAACATTAA
1 AAAAATAAAACATTAA
944710 AAAAATAA
1 AAAAATAA
944718 CAAAACACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAATAAAACATTAA
Found at i:944730 original size:18 final size:17
Alignment explanation
Indices: 944681--944740 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
944671 AGATCTTAAA
*
944681 AACAAAACATTAAAAA-
1 AACAAAACATAAAAAAT
*
944697 AATAAAACATTAAAAAAAT
1 AACAAAACA-T-AAAAAAT
944716 AACAAAACACTAAAAAAT
1 AACAAAACA-TAAAAAAT
944734 AACAAAA
1 AACAAAA
944741 GAAAACATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 8 0.22
17 1 0.03
18 19 0.51
19 9 0.24
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.13
Consensus pattern (17 bp):
AACAAAACATAAAAAAT
Found at i:950830 original size:17 final size:18
Alignment explanation
Indices: 950808--950852 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
950798 TTATGAATTA
950808 AAAAATAATTATA-AAAG
1 AAAAATAATTATACAAAG
*
950825 AAAAATAGTTATACTAAAG
1 AAAAATAATTATAC-AAAG
*
950844 ATAAATAAT
1 AAAAATAAT
950853 ATGAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 12 0.52
19 11 0.48
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (18 bp):
AAAAATAATTATACAAAG
Found at i:953291 original size:27 final size:27
Alignment explanation
Indices: 953261--953317 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
953251 GAAATTTAGG
953261 CAAATATTGACTAAAAATTAAAATATT
1 CAAATATTGACTAAAAATTAAAATATT
953288 CAAATATTGACTAAAAATTAAAATATT
1 CAAATATTGACTAAAAATTAAAATATT
953315 CAA
1 CAA
953318 TATGAAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (27 bp):
CAAATATTGACTAAAAATTAAAATATT
Found at i:954494 original size:2 final size:2
Alignment explanation
Indices: 954487--954511 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
954477 GTTAGTTTGT
954487 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 T
954512 GTAAACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:954650 original size:46 final size:46
Alignment explanation
Indices: 954581--954683 Score: 179
Period size: 46 Copynumber: 2.2 Consensus size: 46
954571 TATGTGTATG
* *
954581 TGAATTTAAGTTGGTGTTTAAGTGCTTCTGAACTAGGCAAAATGGAT
1 TGAATTT-GGTTGGTGTTCAAGTGCTTCTGAACTAGGCAAAATGGAT
954628 TGAATTTGGTTGGTGTTCAAGTGCTTCTGAACTAGGCAAAATGGAT
1 TGAATTTGGTTGGTGTTCAAGTGCTTCTGAACTAGGCAAAATGGAT
954674 TGAATTTGGT
1 TGAATTTGGT
954684 AGGTTTATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
46 47 0.87
47 7 0.13
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.37
Consensus pattern (46 bp):
TGAATTTGGTTGGTGTTCAAGTGCTTCTGAACTAGGCAAAATGGAT
Found at i:964129 original size:32 final size:32
Alignment explanation
Indices: 964093--964155 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
964083 CACATCTAAG
964093 ATGAACTTGGAGAAATAGTTG-TCCAAGTTCAA
1 ATGAACTTGGAGAAATAGTTGCT-CAAGTTCAA
*
964125 ATGAACTTGGATAAATAGTTGCTCAAGTTCA
1 ATGAACTTGGAGAAATAGTTGCTCAAGTTCA
964156 TCTTAAACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (32 bp):
ATGAACTTGGAGAAATAGTTGCTCAAGTTCAA
Found at i:964607 original size:2 final size:2
Alignment explanation
Indices: 964600--964629 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
964590 GTGTACATAC
964600 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
964630 TTATCATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:964761 original size:6 final size:6
Alignment explanation
Indices: 964752--964797 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
964742 AAATGATTTT
*
964752 TATATG TATATG TATATG TATACG TATATG TATATG TATATG TATA
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATA
964798 GTTTTAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (6 bp):
TATATG
Found at i:966565 original size:31 final size:31
Alignment explanation
Indices: 966530--966599 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
966520 CTTGTCACTT
* * *
966530 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
966561 GTAGCCGGAGCTACCATTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
966592 GTAGCCGA
1 GTAGCCGA
966600 TGATCAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:966621 original size:46 final size:46
Alignment explanation
Indices: 966554--966645 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
966544 CACTATTCAC
* *
966554 TGATCAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
966600 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
966646 AGCTACCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:966638 original size:31 final size:31
Alignment explanation
Indices: 966600--966658 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
966590 AAGTAGCCGA
966600 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
966631 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
966659 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:966739 original size:50 final size:50
Alignment explanation
Indices: 966638--966964 Score: 537
Period size: 50 Copynumber: 6.5 Consensus size: 50
966628 CATTGATCAG
* * * * * *
966638 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATTAGAAAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
966689 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
966739 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
966789 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
966839 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
966889 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
966939 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
966965 GTTGCCATGG
Statistics
Matches: 260, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
50 238 0.92
51 22 0.08
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:971807 original size:31 final size:31
Alignment explanation
Indices: 971772--971841 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
971762 CTTGTCACTT
* * *
971772 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
971803 GTAGCCGGAGCTACCATTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
971834 GTAGCCGA
1 GTAGCCGA
971842 TGATCAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:971863 original size:46 final size:46
Alignment explanation
Indices: 971796--971887 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
971786 CACTATTCAC
* *
971796 TGATCAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
971842 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
971888 AGCTACCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:971880 original size:31 final size:31
Alignment explanation
Indices: 971842--971900 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
971832 AAGTAGCCGA
971842 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
971873 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
971901 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:971975 original size:50 final size:50
Alignment explanation
Indices: 971880--972046 Score: 253
Period size: 50 Copynumber: 3.3 Consensus size: 50
971870 CATTGATCAG
* * * *
971880 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
971931 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
971981 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
972031 GTAGCCGAAGCGATCA
1 GTAGCCGAAGCTATCA
972047 AATAAGTGTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 85 0.79
51 23 0.21
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:972049 original size:23 final size:23
Alignment explanation
Indices: 972019--972069 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
972009 ACTTATCCTT
972019 GATCAAATAAGTGTAGCCGAAGC
1 GATCAAATAAGTGTAGCCGAAGC
972042 GATCAAATAAGTGTAGCCGAAGC
1 GATCAAATAAGTGTAGCCGAAGC
*
972065 TATCA
1 GATCA
972070 CTTATCACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (23 bp):
GATCAAATAAGTGTAGCCGAAGC
Found at i:972063 original size:123 final size:123
Alignment explanation
Indices: 971919--972169 Score: 457
Period size: 123 Copynumber: 2.0 Consensus size: 123
971909 ATTTGTCCTT
*
971919 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTA
1 GATCAAATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTA
971984 GCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGTGTAGCCGAAGC
66 GCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGTGTAGCCGAAGC
972042 GATCAAATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTA
1 GATCAAATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTA
* * *
972107 GCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGC
66 GCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGTGTAGCCGAAGC
*
972165 TATCA
1 GATCA
972170 CTTATCACTT
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (123 bp):
GATCAAATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTA
GCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGTGTAGCCGAAGC
Found at i:972091 original size:73 final size:73
Alignment explanation
Indices: 971969--972119 Score: 257
Period size: 73 Copynumber: 2.1 Consensus size: 73
971959 ATTTGTCCTT
*
971969 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGTGTA
1 GATCAAATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGTGTA
972034 GCCGAAGC
66 GCCGAAGC
* * *
972042 GATCAAATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTA
1 GATCAAATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGTGTA
972107 GCCGAAGC
66 GCCGAAGC
*
972115 TATCA
1 GATCA
972120 CTTATCACTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (73 bp):
GATCAAATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGTGTA
GCCGAAGC
Found at i:972097 original size:173 final size:174
Alignment explanation
Indices: 971880--972219 Score: 601
Period size: 173 Copynumber: 2.0 Consensus size: 174
971870 CATTGATCAG
* *
971880 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
1 GTAGCCGAAGCTACCACTTATCACTTGCCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
971945 CACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCA
66 CACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCA
*
972010 CTTATCCTTGATCAAATAAGTGTAGCCGAAGCGATCAAATAAGT
131 CTTATCATTGATCAAATAAGTGTAGCCGAAGCGATCAAATAAGT
* *
972054 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
1 GTAGCCGAAGCTACCACTTATCACTTGCCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
972118 CACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCA
66 CACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCA
* * *
972183 CTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCA
131 CTTATCATTGATCAAATAAGTGTAGCCGAAGCGATCA
972220 CTTATCACTT
Statistics
Matches: 158, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
173 135 0.85
174 23 0.15
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (174 bp):
GTAGCCGAAGCTACCACTTATCACTTGCCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
CACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCA
CTTATCATTGATCAAATAAGTGTAGCCGAAGCGATCAAATAAGT
Found at i:972117 original size:50 final size:50
Alignment explanation
Indices: 972042--972229 Score: 349
Period size: 50 Copynumber: 3.8 Consensus size: 50
972032 TAGCCGAAGC
*
972042 GATCAAATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTT
1 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTT
972092 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTT
1 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTT
* *
972142 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATT
1 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTT
972192 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
972230 GTTGCCATGG
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 135 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (50 bp):
GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTT
Found at i:984380 original size:46 final size:46
Alignment explanation
Indices: 984313--984405 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
984303 CAAAAGTAAC
984313 AAACAACATTGGCAATTGGATTGCATCTTGCTTAAATCCTTTTCTT
1 AAACAACATTGGCAATTGGATTGCATCTTGCTTAAATCCTTTTCTT
*
984359 AAACAACATTGTCAATTGGATTGCATCTTGCTTAAATCCTTTTCTT
1 AAACAACATTGGCAATTGGATTGCATCTTGCTTAAATCCTTTTCTT
984405 A
1 A
984406 GGTTAGAACC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (46 bp):
AAACAACATTGGCAATTGGATTGCATCTTGCTTAAATCCTTTTCTT
Found at i:1001200 original size:17 final size:19
Alignment explanation
Indices: 1001167--1001201 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1001157 GAATAGAATA
1001167 GAAAATAGTGTAAATTGAT
1 GAAAATAGTGTAAATTGAT
1001186 GAAAATA-TG-AAATTGA
1 GAAAATAGTGTAAATTGA
1001202 CTTTGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (19 bp):
GAAAATAGTGTAAATTGAT
Found at i:1001988 original size:35 final size:35
Alignment explanation
Indices: 1001942--1002021 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
1001932 GGCTCATGCC
*
1001942 CACGTCTAAGGCGA-CTTTAAAAAGGTTGGAATAGA
1 CACGTCTAAGGCAACCTTT-AAAAGGTTGGAATAGA
*
1001977 CCCGTCTAAGGCAACCTTTAAAAGGTTGGAATAGA
1 CACGTCTAAGGCAACCTTTAAAAGGTTGGAATAGA
1002012 CACGTCTAAG
1 CACGTCTAAG
1002022 ACAAAATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 37 0.90
36 4 0.10
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (35 bp):
CACGTCTAAGGCAACCTTTAAAAGGTTGGAATAGA
Found at i:1004288 original size:13 final size:13
Alignment explanation
Indices: 1004268--1004328 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
1004258 CTTAAATTTT
1004268 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
1004281 TTAAAAGCACTTT
1 TCAAAAGCACTTC
* *
1004294 TCCACAGCACTTC
1 TCAAAAGCACTTC
1004307 TCAAAAGCACTTC
1 TCAAAAGCACTTC
1004320 TCAAAAGCA
1 TCAAAAGCA
1004329 TTGCCAAACT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:1004916 original size:37 final size:37
Alignment explanation
Indices: 1004875--1004970 Score: 95
Period size: 41 Copynumber: 2.5 Consensus size: 37
1004865 TAATAAAAAA
* *
1004875 AGTGTAAGATAATATTTTTGGTACTAAAAAAATAGAT
1 AGTGTAAGATAATATTTTGGGCACTAAAAAAATAGAT
* *
1004912 AGTGTAA-ATTTAATGAAATTTTGGGCATTAAACAAATAGAT
1 AGTGTAAGA--TAAT---ATTTTGGGCACTAAAAAAATAGAT
*
1004953 AGTGTAAGATTATATTTT
1 AGTGTAAGATAATATTTT
1004971 ATCTAATTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
36 1 0.02
37 12 0.25
38 4 0.08
40 3 0.06
41 27 0.56
42 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.38
Consensus pattern (37 bp):
AGTGTAAGATAATATTTTGGGCACTAAAAAAATAGAT
Found at i:1005524 original size:126 final size:126
Alignment explanation
Indices: 1005299--1005550 Score: 382
Period size: 126 Copynumber: 2.0 Consensus size: 126
1005289 TATAAAAAAA
* * * *
1005299 GTCGGCATGGTGTTGAACAAAACTGACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCGAC
1 GTCGGCATAGTGTTGAACAAAACTGACTCTTATGTAAGCGCTGCCTTAGGCATACATATCCCAAC
*
1005364 TCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGT
66 TCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAAGAAAGT
* *
1005425 GTCGGCATAGTGTTGGACAAAGCTGACTCTTATGTAAGCGCTGCCTTAGGCAT-CAATATCCCAA
1 GTCGGCATAGTGTTGAACAAAACTGACTCTTATGTAAGCGCTGCCTTAGGCATAC-ATATCCCAA
* **
1005489 C-CTTTATACAAAGAGTTGGCTAAAGCTTATGTTGGCAAGTCTATCCCAACACTTAAGAAAGT
65 CTC-TTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAAGAAAGT
1005551 ATCAGCCCAA
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
125 2 0.02
126 112 0.98
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (126 bp):
GTCGGCATAGTGTTGAACAAAACTGACTCTTATGTAAGCGCTGCCTTAGGCATACATATCCCAAC
TCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAAGAAAGT
Found at i:1008273 original size:2 final size:2
Alignment explanation
Indices: 1008266--1008305 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1008256 GTTTGATTCC
1008266 AT AT AT AT 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 AT
1008306 TTGAATACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1011097 original size:13 final size:13
Alignment explanation
Indices: 1011079--1011107 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1011069 AGGAGCAATC
1011079 GTTGATCCATAGG
1 GTTGATCCATAGG
1011092 GTTGATCCATAGG
1 GTTGATCCATAGG
1011105 GTT
1 GTT
1011108 AAAGTCAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (13 bp):
GTTGATCCATAGG
Found at i:1016611 original size:17 final size:17
Alignment explanation
Indices: 1016589--1016639 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
1016579 TTTTAATCAT
1016589 TTATAATATATTTTC-A
1 TTATAATATATTTTCTA
1016605 CTTATAAT-TAATTTTCTA
1 -TTATAATAT-ATTTTCTA
* *
1016623 TAATAATATATTGTCTA
1 TTATAATATATTTTCTA
1016640 AAATTTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 1 0.03
17 26 0.90
18 2 0.07
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (17 bp):
TTATAATATATTTTCTA
Found at i:1017664 original size:22 final size:21
Alignment explanation
Indices: 1017598--1017664 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
1017588 ATTTTGTAGG
*
1017598 TATAGAATAAAAGTAACATAGA
1 TATAGGATAAAAGT-ACATAGA
1017620 TAT-GAGATAAAA-TA-AGTAGA
1 TATAG-GATAAAAGTACA-TAGA
1017640 TATAGGATAAAAGTATCATAGA
1 TATAGGATAAAAGTA-CATAGA
1017662 TAT
1 TAT
1017665 TTTTATAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
19 1 0.03
20 15 0.39
21 5 0.13
22 16 0.42
23 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.16, T:0.27
Consensus pattern (21 bp):
TATAGGATAAAAGTACATAGA
Found at i:1025821 original size:13 final size:13
Alignment explanation
Indices: 1025803--1025827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1025793 CTCTTCTCTT
1025803 TTCTTTTTTTTTC
1 TTCTTTTTTTTTC
1025816 TTCTTTTTTTTT
1 TTCTTTTTTTTT
1025828 TAGAAAAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTCTTTTTTTTTC
Found at i:1027604 original size:22 final size:22
Alignment explanation
Indices: 1027576--1027620 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1027566 TTGTATGTCA
1027576 CCTTTTGGACTCACACTGAGCT
1 CCTTTTGGACTCACACTGAGCT
1027598 CCTTTTGGACTCACACTGAGCT
1 CCTTTTGGACTCACACTGAGCT
1027620 C
1 C
1027621 ATGTAGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.31
Consensus pattern (22 bp):
CCTTTTGGACTCACACTGAGCT
Found at i:1030534 original size:13 final size:13
Alignment explanation
Indices: 1030516--1030541 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1030506 TAGTGGACGG
1030516 TTAGTGCATTCTC
1 TTAGTGCATTCTC
1030529 TTAGTGCATTCTC
1 TTAGTGCATTCTC
1030542 CCATTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
TTAGTGCATTCTC
Found at i:1034746 original size:15 final size:15
Alignment explanation
Indices: 1034723--1034752 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1034713 AAGTTTGTCA
*
1034723 TTCATCATCTACAAC
1 TTCACCATCTACAAC
1034738 TTCACCATCTACAAC
1 TTCACCATCTACAAC
1034753 AAGTGTTTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (15 bp):
TTCACCATCTACAAC
Found at i:1035567 original size:1 final size:1
Alignment explanation
Indices: 1035561--1035588 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
1035551 TGAAAATCAT
1035561 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1035589 CTCTTTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1041540 original size:2 final size:2
Alignment explanation
Indices: 1041527--1041557 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1041517 GTGTAAACAA
*
1041527 AT AT AT AA 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 AT AT A
1041558 CATTCAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1043334 original size:19 final size:19
Alignment explanation
Indices: 1043310--1043346 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1043300 ATAGTTTCTA
*
1043310 GAAAATGATTTACTTTTTT
1 GAAAATAATTTACTTTTTT
1043329 GAAAATAATTTACTTTTT
1 GAAAATAATTTACTTTTT
1043347 AGTGTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (19 bp):
GAAAATAATTTACTTTTTT
Found at i:1043449 original size:18 final size:18
Alignment explanation
Indices: 1043423--1043465 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
1043413 AAAAAGTTTT
*
1043423 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
1043441 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
1043459 TTTATAT
1 TTTATAT
1043466 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:1052385 original size:39 final size:38
Alignment explanation
Indices: 1052342--1052459 Score: 182
Period size: 39 Copynumber: 3.0 Consensus size: 38
1052332 AATTGTATTA
*
1052342 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGC-CGGATACATTT
1052381 CCAGCACGAAGCCTGCGGGACTTTAGGCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTA-GCCGGATACATTT
* *
1052420 CCAGCACGAAGCCTGTGGGACTTTATCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTA-GCCGGATACATTT
1052459 C
1 C
1052460 TAGTGTCTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
39 72 0.97
40 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (38 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCGGATACATTT
Found at i:1057379 original size:2 final size:2
Alignment explanation
Indices: 1057372--1057405 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1057362 TCTTTTGTTT
1057372 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1057406 ATAACATGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1078769 original size:22 final size:23
Alignment explanation
Indices: 1078719--1078770 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1078709 ATGTTTTTAC
*
1078719 TTTTATTTTACTTTAGGACTACT
1 TTTTATTTTACTTTAAGACTACT
*
1078742 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTTTACTTTAAGAC-TACT
1078764 TTTTATT
1 TTTTATT
1078771 AGGATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (23 bp):
TTTTATTTTACTTTAAGACTACT
Found at i:1082581 original size:44 final size:42
Alignment explanation
Indices: 1082531--1082681 Score: 146
Period size: 44 Copynumber: 3.5 Consensus size: 42
1082521 TATGTGTTTT
1082531 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TT-TGATTTA
* * *
1082575 CGTGTAATACTATGTCTGGGACATTGGCATCGTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-ATTTGATTTA
* * * *
1082617 CGTATAAGACC-CTATCTGGGACAGTGGCATCGATATTTGA-CTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCG--ATTTGATTTA
* *
1082660 CATGTAAGACCACGTTTGGGAC
1 CGTGTAAGACCACGTCTGGGAC
1082682 GTTCGTATTG
Statistics
Matches: 88, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
42 26 0.30
43 29 0.33
44 32 0.36
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATTTGATTTA
Found at i:1082668 original size:43 final size:42
Alignment explanation
Indices: 1082589--1082670 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
1082579 TAATACTATG
* * * *
1082589 TCTGGGACATTGGCATCGTATTTGATTTCGTATAAGACCCTA
1 TCTGGGACAGTGGCATCGTATTTGACTACATATAAGACCCTA
*
1082631 TCTGGGACAGTGGCATCGATATTTGACTACATGTAAGACC
1 TCTGGGACAGTGGCATCG-TATTTGACTACATATAAGACC
1082671 ACGTTTGGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 17 0.50
43 17 0.50
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
TCTGGGACAGTGGCATCGTATTTGACTACATATAAGACCCTA
Found at i:1090480 original size:16 final size:16
Alignment explanation
Indices: 1090443--1090474 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1090433 TATGCTTAAG
1090443 TATATGTTTTGATTAT
1 TATATGTTTTGATTAT
1090459 TATATGTTTTGATTAT
1 TATATGTTTTGATTAT
1090475 GTTATGCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (16 bp):
TATATGTTTTGATTAT
Found at i:1100994 original size:2 final size:2
Alignment explanation
Indices: 1100989--1101014 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1100979 GATATATATA
1100989 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
1101015 CAGATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1110782 original size:25 final size:26
Alignment explanation
Indices: 1110739--1110812 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 26
1110729 ATGAGATATA
* *
1110739 AACAGTAAGCTCCTTCGAGCTGAA-T
1 AACAGTAAGCTCATACGAGCTGAAGT
*
1110764 AACAGTAAGCTCATACGAG-TTAAGT
1 AACAGTAAGCTCATACGAGCTGAAGT
* *
1110789 ATCAGTAAGCTCATAAGAGCTGAA
1 AACAGTAAGCTCATACGAGCTGAA
1110813 ATCGTTAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 3 0.07
25 35 0.85
26 3 0.07
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (26 bp):
AACAGTAAGCTCATACGAGCTGAAGT
Found at i:1110954 original size:20 final size:19
Alignment explanation
Indices: 1110929--1110966 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1110919 TGGAAATTAC
1110929 TCAATTCACAAACATATAAT
1 TCAATTCA-AAACATATAAT
*
1110949 TCAATTTAAAACATATAA
1 TCAATTCAAAACATATAA
1110967 ATGTACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (19 bp):
TCAATTCAAAACATATAAT
Found at i:1114674 original size:7 final size:7
Alignment explanation
Indices: 1114662--1114716 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
1114652 ACCCAAACTG
1114662 TAAGGTT
1 TAAGGTT
1114669 TAAGGTT
1 TAAGGTT
* *
1114676 TGAGATT
1 TAAGGTT
*
1114683 TAAAGTT
1 TAAGGTT
1114690 TAAGGTT
1 TAAGGTT
*
1114697 TAGGGTT
1 TAAGGTT
*
1114704 TGA-GTT
1 TAAGGTT
1114710 TAAGGTT
1 TAAGGTT
1114717 CGAGATTTTA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (7 bp):
TAAGGTT
Found at i:1114690 original size:14 final size:14
Alignment explanation
Indices: 1114667--1114730 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 14
1114657 AACTGTAAGG
1114667 TTTAAGGTTTGAGA
1 TTTAAGGTTTGAGA
* * *
1114681 TTTAAAGTTTAAGG
1 TTTAAGGTTTGAGA
*
1114695 TTTAGGGTTTGAG-
1 TTTAAGGTTTGAGA
*
1114708 TTTAAGGTTCGAGA
1 TTTAAGGTTTGAGA
*
1114722 TTTTAGGTT
1 TTTAAGGTT
1114731 CAAGGTTCAT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
13 11 0.28
14 29 0.73
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.45
Consensus pattern (14 bp):
TTTAAGGTTTGAGA
Found at i:1115474 original size:48 final size:44
Alignment explanation
Indices: 1115382--1115477 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 44
1115372 AAGTGAAAAT
*
1115382 TATTAAATTATTTTTATTTATATTAATTATTTAAAATATATAAA
1 TATTAAATTATTTATATTTATATTAATTATTTAAAATATATAAA
* * * *
1115426 TATTAAATTAATTTATATTTTGTATATAATTATATTACATTATTTAAA
1 TATTAAATT-ATTTATA-TTTATAT-TAATTAT-TTAAAATATATAAA
1115474 TATT
1 TATT
1115478 TTATGTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
44 9 0.21
45 6 0.14
46 6 0.14
47 7 0.16
48 15 0.35
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (44 bp):
TATTAAATTATTTATATTTATATTAATTATTTAAAATATATAAA
Found at i:1115491 original size:33 final size:33
Alignment explanation
Indices: 1115417--1115515 Score: 107
Period size: 33 Copynumber: 3.1 Consensus size: 33
1115407 ATTATTTAAA
1115417 ATATATAA--ATATTAAATTAATTT--ATATTTT
1 ATATATAATTATATTAAATT-ATTTAAATATTTT
* *
1115447 GTATATAATTATATTACATTATTTAAATATTTT
1 ATATATAATTATATTAAATTATTTAAATATTTT
* * * *
1115480 ATGTATTATTATGTTAAATTATTTAAATATTAT
1 ATATATAATTATATTAAATTATTTAAATATTTT
1115513 ATA
1 ATA
1115516 ACTTAATTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
30 7 0.12
31 4 0.07
32 9 0.16
33 36 0.64
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (33 bp):
ATATATAATTATATTAAATTATTTAAATATTTT
Found at i:1117871 original size:25 final size:25
Alignment explanation
Indices: 1117843--1117902 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
1117833 AGGTGACTGG
*
1117843 ATGCATAGATCCTAAATACTGCTGC
1 ATGCATAGATCCTAAATACTGCTAC
**
1117868 ATGCATAGATCCTAAATGGTGCTAC
1 ATGCATAGATCCTAAATACTGCTAC
1117893 ATGCATAGAT
1 ATGCATAGAT
1117903 AGTGTTACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (25 bp):
ATGCATAGATCCTAAATACTGCTAC
Found at i:1124035 original size:2 final size:2
Alignment explanation
Indices: 1124028--1124057 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1124018 CAAATTACAC
1124028 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
1124058 GCTTCTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1124344 original size:4 final size:4
Alignment explanation
Indices: 1124335--1124359 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1124325 GTAAATATAA
1124335 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
1124360 CAGTTAATGA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:1125895 original size:23 final size:21
Alignment explanation
Indices: 1125861--1125918 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
1125851 TTATCCAAAC
* *
1125861 AAAAAATATAAATAATAATCCTA
1 AAAAAATTTAAATAAAAAT--TA
*
1125884 AAAAAATTTAAAACAAAAATTA
1 AAAAAATTT-AAATAAAAATTA
1125906 AAAAAATTTAAAT
1 AAAAAATTTAAAT
1125919 CTAACTGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 3 0.10
22 11 0.37
23 8 0.27
24 8 0.27
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAATTTAAATAAAAATTA
Found at i:1127008 original size:38 final size:37
Alignment explanation
Indices: 1126949--1127032 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
1126939 ATATAATAAT
* **
1126949 AATTTTAATGGATTTATGATAATGACT-ATTATTT-TA
1 AATTTTAATAGATTTATGATAACCA-TAATTATTTATA
1126985 AATTTTAATAGATAATTATGATAACCATAATTATTTATA
1 AATTTTAATAGAT--TTATGATAACCATAATTATTTATA
1127024 AATTTTAAT
1 AATTTTAAT
1127033 TACCCACCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 12 0.29
37 1 0.02
38 17 0.41
39 11 0.27
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.48
Consensus pattern (37 bp):
AATTTTAATAGATTTATGATAACCATAATTATTTATA
Found at i:1128248 original size:17 final size:16
Alignment explanation
Indices: 1128210--1128248 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
1128200 AATTTTAACA
1128210 AAAATATATTTAAATT
1 AAAATATATTTAAATT
**
1128226 TGAATATTATTTAAATT
1 AAAATA-TATTTAAATT
1128243 AAAATA
1 AAAATA
1128249 AATGGTGAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AAAATATATTTAAATT
Found at i:1131909 original size:23 final size:23
Alignment explanation
Indices: 1131881--1131959 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
1131871 AGCTGAACAA
1131881 TAAGCTCATAAGAGTTGAAACGG
1 TAAGCTCATAAGAGTTGAAACGG
* *
1131904 TAAGCTCCA-ATGAGTTGAAAACAG
1 TAAGCT-CATAAGAGTTG-AAACGG
* *
1131928 TAAGCTCTTACGAGTTGATACATCGG
1 TAAGCTCATAAGAGTTGA-A-A-CGG
1131954 TAAGCT
1 TAAGCT
1131960 TATACGAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
23 15 0.33
24 21 0.47
25 1 0.02
26 8 0.18
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.25
Consensus pattern (23 bp):
TAAGCTCATAAGAGTTGAAACGG
Found at i:1131942 original size:24 final size:24
Alignment explanation
Indices: 1131876--1131945 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
1131866 TATCGAGCTG
*
1131876 AACAATAAGCTCATAAGAGTTG-A
1 AACAGTAAGCTCATAAGAGTTGAA
* *
1131899 AACGGTAAGCTCCA-ATGAGTTGAA
1 AACAGTAAGCT-CATAAGAGTTGAA
* *
1131923 AACAGTAAGCTCTTACGAGTTGA
1 AACAGTAAGCTCATAAGAGTTGA
1131946 TACATCGGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 17 0.45
24 21 0.55
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (24 bp):
AACAGTAAGCTCATAAGAGTTGAA
Found at i:1142204 original size:33 final size:33
Alignment explanation
Indices: 1142153--1142232 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
1142143 TCACAAGTAT
*
1142153 TCATCACATGTTAGTCATTTTACAAATACATGAAA
1 TCATC-CAT-TTATTCATTTTACAAATACATGAAA
1142188 TCATCCATTTATTCATTTTACAAATACATGAAA
1 TCATCCATTTATTCATTTTACAAATACATGAAA
1142221 TCATCCATTTAT
1 TCATCCATTTAT
1142233 ACAATACTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
33 36 0.82
34 3 0.07
35 5 0.11
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.39
Consensus pattern (33 bp):
TCATCCATTTATTCATTTTACAAATACATGAAA
Found at i:1145800 original size:2 final size:2
Alignment explanation
Indices: 1145765--1145790 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1145755 CACTATCGCA
1145765 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
1145791 GGCGTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1148343 original size:14 final size:14
Alignment explanation
Indices: 1148320--1148352 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
1148310 CTAGGTGATG
1148320 AAAT-TTGAAAGAA
1 AAATGTTGAAAGAA
1148333 AAATGTTGAAAGAA
1 AAATGTTGAAAGAA
1148347 AAATGT
1 AAATGT
1148353 CTTTTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (14 bp):
AAATGTTGAAAGAA
Found at i:1151458 original size:10 final size:10
Alignment explanation
Indices: 1151443--1151467 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1151433 AGACATAAAC
1151443 AAATAGACCA
1 AAATAGACCA
1151453 AAATAGACCA
1 AAATAGACCA
1151463 AAATA
1 AAATA
1151468 TGCCATCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (10 bp):
AAATAGACCA
Found at i:1152737 original size:21 final size:20
Alignment explanation
Indices: 1152713--1152751 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1152703 AAACTTGTAT
1152713 ATCTATCAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
*
1152734 ATCTATCAAGAAACTTCA
1 ATCTATCAACAAACTTCA
1152752 AAATACACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:1157997 original size:47 final size:46
Alignment explanation
Indices: 1157887--1158108 Score: 161
Period size: 46 Copynumber: 4.8 Consensus size: 46
1157877 GTTATTGTGG
* * **
1157887 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-C-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCATCGA-GACAAGA
*
1157933 GCCT-GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACAAGT
1 G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACAAGA
*
1157981 GCTAGTGTAAGACATGTCCT-GGACATGCATCGGCCTCGAGACATA-A
1 GCTAGTGTAAGACATGT-CTGGGACATGCATCGGCATCGAGACA-AGA
* * * ** *
1158027 GCCAGTGTAAGACATGTCTAGGACA-ACATCGGC-TACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGACAAGA
* * * *
1158072 GTTAGTGTAAGACCATATCTAGGATATGACATCGGCA
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCA
1158109 CCCTACCCTA
Statistics
Matches: 145, Mismatches: 16, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
44 2 0.01
45 25 0.17
46 57 0.39
47 33 0.23
48 27 0.19
49 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAAGA
Found at i:1158051 original size:46 final size:47
Alignment explanation
Indices: 1157890--1158059 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 47
1157880 ATTGTGGGCT
* * * **
1157890 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACAT-AGAGCC
* * * * *
1157936 TGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACA-AGTGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACATAGAGCC
1157984 AGTGTAAGACATGTCCT-GGACATGCATCGGCCTCGAGACATA-AGCC
1 AGTGTAAGACATGT-CTAGGACATGCATCGGCCTCGAGACATAGAGCC
*
1158030 AGTGTAAGACATGTCTAGGACA-ACATCGGC
1 AGTGTAAGACATGTCTAGGACATGCATCGGC
1158060 TACGAGATGA
Statistics
Matches: 104, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
45 9 0.09
46 45 0.43
47 26 0.25
48 22 0.21
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (47 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACATAGAGCC
Found at i:1159276 original size:21 final size:22
Alignment explanation
Indices: 1159237--1159277 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1159227 TCGAATTGGT
*
1159237 CACATGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
1159259 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
1159278 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:1161681 original size:2 final size:2
Alignment explanation
Indices: 1161674--1161711 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1161664 CAAGACATAA
1161674 AT AT AT 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
1161712 GATTCAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1165740 original size:27 final size:27
Alignment explanation
Indices: 1165699--1165811 Score: 158
Period size: 27 Copynumber: 4.2 Consensus size: 27
1165689 GAGGAAGCGT
1165699 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* *
1165726 TCTGGTGGCTTTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
1165754 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
1165781 TCTGGTGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
1165807 TCTGG
1 TCTGG
1165812 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 16 0.20
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:1165805 original size:54 final size:54
Alignment explanation
Indices: 1165697--1165811 Score: 171
Period size: 55 Copynumber: 2.1 Consensus size: 54
1165687 TGGAGGAAGC
* *
1165697 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTTTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
*
1165751 GTTTCTGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 G-TTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTGCCACAAATATCT
1165805 GTTCTGG
1 GTTCTGG
1165812 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
53 6 0.11
54 17 0.30
55 33 0.59
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
Found at i:1166401 original size:56 final size:56
Alignment explanation
Indices: 1166339--1166450 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
1166329 TTTAAAAGAG
1166339 ATTACCTGATTTCAAAATATCATGAAACAAGACAAAGCTTCCGAAATGAAAATGTT
1 ATTACCTGATTTCAAAATATCATGAAACAAGACAAAGCTTCCGAAATGAAAATGTT
1166395 ATTACCTGATTTCAAAATATCATGAAACAAGACAAAGCTTCCGAAATGAAAATGTT
1 ATTACCTGATTTCAAAATATCATGAAACAAGACAAAGCTTCCGAAATGAAAATGTT
1166451 TTCAAAAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (56 bp):
ATTACCTGATTTCAAAATATCATGAAACAAGACAAAGCTTCCGAAATGAAAATGTT
Found at i:1168405 original size:25 final size:25
Alignment explanation
Indices: 1168377--1168432 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
1168367 TAAAGTGTTA
* *
1168377 CAATGAAACACTTCAGGAAGTATTT
1 CAATGAAACACTCCAGGAAATATTT
*
1168402 CAATGAAACTCTCCAGGAAATATTT
1 CAATGAAACACTCCAGGAAATATTT
*
1168427 CGATGA
1 CAATGA
1168433 TCGTATCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (25 bp):
CAATGAAACACTCCAGGAAATATTT
Found at i:1173732 original size:40 final size:39
Alignment explanation
Indices: 1173626--1173754 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
1173616 TGCTGGAAAT
* * * *
1173626 TATATCCGGGTTAAGACCCGAAGGCAAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
1173666 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
1173706 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
1173746 TATATCCGG
1 TATATCCGG
1173755 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 3 0.04
40 72 0.94
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:1183341 original size:25 final size:25
Alignment explanation
Indices: 1183313--1183410 Score: 83
Period size: 25 Copynumber: 3.9 Consensus size: 25
1183303 CCCGATGCCT
*
1183313 TGCCACCA-AGGCTTCCCAAATAATA
1 TGCCA-CATAGGCTTCTCAAATAATA
* * * *
1183338 TGCCACATAGACTTTTCAAGTAACA
1 TGCCACATAGGCTTCTCAAATAATA
* *
1183363 AGCCAC-TAAGGCTTCTGAAATAATA
1 TGCCACAT-AGGCTTCTCAAATAATA
* *
1183388 TGCCACATAGGCTTTTCAGATAA
1 TGCCACATAGGCTTCTCAAATAA
1183411 CTATCCATAA
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
24 3 0.05
25 51 0.93
26 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (25 bp):
TGCCACATAGGCTTCTCAAATAATA
Found at i:1188250 original size:6 final size:6
Alignment explanation
Indices: 1188239--1188263 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1188229 GAGGTAACTA
1188239 TCTTTC TCTTTC TCTTTC TCTTTC T
1 TCTTTC TCTTTC TCTTTC TCTTTC T
1188264 ATTATTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTTTC
Found at i:1192546 original size:27 final size:27
Alignment explanation
Indices: 1192324--1192546 Score: 293
Period size: 27 Copynumber: 8.3 Consensus size: 27
1192314 CGACTTGTAA
*
1192324 AATTACCATTTTACCCTCAATTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
* *
1192351 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
*
1192378 AATTACCGTTTTACCCTCAGTTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
** * *
1192405 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
* * *
1192432 AATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
** * *
1192459 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCAATTTACAG
*
1192486 AATTACCGTTTTACCCTCAGTTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
*
1192513 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCGTTTTACCCTCAATTTACAG
1192540 AATTACC
1 AATTACC
1192547 AAAATACCCT
Statistics
Matches: 168, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 168 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCAATTTACAG
Found at i:1192554 original size:27 final size:27
Alignment explanation
Indices: 1192335--1192636 Score: 93
Period size: 27 Copynumber: 11.2 Consensus size: 27
1192325 ATTACCATTT
*****
1192335 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
1192362 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ***
1192389 TACCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * *****
1192416 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * * ***
1192443 TCCCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ****
1192470 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
1192497 TACCCTCAGTTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
*
1192524 TACCTTCAATTTACAGAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** * * *
1192551 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
* ** * *
1192578 TACCC-CTAGTTTGTAAAATTACTAAAA
1 TACCCTC-AATTTACAGAATTACCAAAA
*** *
1192605 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
1192632 TACCC
1 TACCC
1192637 CTGTATGGTA
Statistics
Matches: 226, Mismatches: 47, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
27 226 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCAAAA
Found at i:1192563 original size:54 final size:54
Alignment explanation
Indices: 1192324--1192546 Score: 347
Period size: 54 Copynumber: 4.1 Consensus size: 54
1192314 CGACTTGTAA
* * *
1192324 AATTACCATTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAG
*
1192378 AATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTATCCTCGATTTACAG
1 AATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAG
* * *
1192432 AATTACTGTTTTCCCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAG
** * *
1192486 AATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCTTCAATTTACAG
1 AATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAG
1192540 AATTACC
1 AATTACC
1192547 AAAATACCCT
Statistics
Matches: 154, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 154 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAG
Found at i:1192582 original size:81 final size:81
Alignment explanation
Indices: 1192324--1192574 Score: 306
Period size: 81 Copynumber: 3.1 Consensus size: 81
1192314 CGACTTGTAA
* * *
1192324 AATTACCATTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCAATTTACAGAATTACCATTT
* *
1192389 TACCCTCAGTTTACAG
66 TACCCTCGGTTTATAG
* * * * *
1192405 AATTACTATTTTATCCTC-GATTTACAGAATTACTGTTTTCCCCTCAGTTTACAGAATTACTATT
1 AATTACCATTTTACCCTCAG-TTTACAGAATTACTGTTTTACCCTCAATTTACAGAATTACCATT
*
1192469 TTACCCTCGATTTATAG
65 TTACCCTCGGTTTATAG
* * * ***
1192486 AATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCTTCAATTTACAGAATTACCAAAA
1 AATTACCATTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCAATTTACAGAATTACCATTT
* *
1192551 TACCCTTGGTTTATAA
66 TACCCTCGGTTTATAG
*
1192567 AATCACCA
1 AATTACCA
1192575 AAATACCCCT
Statistics
Matches: 141, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
81 140 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (81 bp):
AATTACCATTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCAATTTACAGAATTACCATTT
TACCCTCGGTTTATAG
Found at i:1192648 original size:54 final size:54
Alignment explanation
Indices: 1192540--1192650 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
1192530 CAATTTACAG
* *
1192540 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTACAAAATCACCAAAATACCCCTAGTTGGTAA
* *
1192594 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCT-GTATGGTAA
1 AATTACCAAAATACCCTTGGTTTACAAAATCACCAAAATACCCCTAGT-TGGTAA
1192648 AAT
1 AAT
1192651 GACGAATATG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 2 0.04
54 50 0.96
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGGTTTACAAAATCACCAAAATACCCCTAGTTGGTAA
Found at i:1192650 original size:27 final size:27
Alignment explanation
Indices: 1192540--1192639 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
1192530 CAATTTACAG
*
1192540 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTATAA
* * *
1192567 AATCACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTATAA
* * *
1192594 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGGTTTATAA
1192621 AATTACCAAAATACCCCTG
1 AATTACCAAAATACCCCTG
1192640 TATGGTAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTATAA
Found at i:1192665 original size:54 final size:54
Alignment explanation
Indices: 1192547--1192665 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 54
1192537 CAGAATTACC
* * * *
1192547 AAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACT
1 AAAATACCCTTGGTTTACAAAATCACCAAAATACCCCTAGTTGGTAAAATGACG
*
1192601 AAAATACCCTTGGTTTACAAAATTACCAAAATACCCCT-GTATGGTAAAATGACG
1 AAAATACCCTTGGTTTACAAAATCACCAAAATACCCCTAGT-TGGTAAAATGACG
* *
1192655 AATATGCCCTT
1 AAAATACCCTT
1192666 ATGTTCCGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 2 0.04
54 55 0.96
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
AAAATACCCTTGGTTTACAAAATCACCAAAATACCCCTAGTTGGTAAAATGACG
Found at i:1198677 original size:55 final size:55
Alignment explanation
Indices: 1198618--1198740 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 55
1198608 TTAATTTGGT
* * * * *
1198618 AGGTTCGACCATGGGTGTTAGACACGGGCGTGTCGCACGCCCGTGCTGTTTTATC
1 AGGTTCGACCACGGGTCTTACACACGGGCATGTCGCACGCCCGTGCTGTTTTAGC
* * * * * * *
1198673 AGGTTCGCCCACGGTTCTTCCACACGGGCATGTCGTATGCCCGTGTTGTTTTGGC
1 AGGTTCGACCACGGGTCTTACACACGGGCATGTCGCACGCCCGTGCTGTTTTAGC
*
1198728 AGGCTCGACCACG
1 AGGTTCGACCACG
1198741 ACCATATCGC
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.14, C:0.28, G:0.31, T:0.27
Consensus pattern (55 bp):
AGGTTCGACCACGGGTCTTACACACGGGCATGTCGCACGCCCGTGCTGTTTTAGC
Found at i:1225736 original size:20 final size:20
Alignment explanation
Indices: 1225711--1225748 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1225701 GTTTATTCGC
*
1225711 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
1225731 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
1225749 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:1227408 original size:28 final size:28
Alignment explanation
Indices: 1227376--1227444 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
1227366 GCGTAGATCA
1227376 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
1227404 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
1227432 CGATA-TACCCCTA
1 CGAAATTACCCCTA
1227445 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:1231008 original size:49 final size:49
Alignment explanation
Indices: 1230952--1231176 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
1230942 CTGGAACGCA
* * *
1230952 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* *
1231001 TAGTAGCCTGCACTTACTACTACACACATGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * ** * *
1231050 TAGTAGCCTGTACTTAGTACTACACACGTGGCCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
1231100 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
1231151 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
1231177 TGCAACCTCA
Statistics
Matches: 150, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 73 0.49
50 41 0.27
51 35 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:1231122 original size:99 final size:101
Alignment explanation
Indices: 1230950--1231176 Score: 289
Period size: 99 Copynumber: 2.3 Consensus size: 101
1230940 ATCTGGAACG
* * * * ** * *
1230950 CATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGGCCTAACCATCTGATACACGTAGTAGCCTGCAC
1231014 TTACTACTACACACATGA-C-CAATTATCCGGTACA
66 TTACTACTACACACATGATCACAATTATCCGGTACA
* *
1231048 CGTAGTAGCCTGTACTTAGTACTACACACGTGGCCTAACCATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGGCCTAACCATCTGATACACGTAGTAGCCTGCAC
* * * * * *
1231113 TTAGTACTACACACGTGATCACAGTTTTCGGGTACG
66 TTACTACTACACACATGATCACAATTATCCGGTACA
1231149 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
1231177 TGCAACCTCA
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 29 0.27
99 41 0.38
100 1 0.01
101 37 0.34
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGGCCTAACCATCTGATACACGTAGTAGCCTGCAC
TTACTACTACACACATGATCACAATTATCCGGTACA
Found at i:1231127 original size:28 final size:28
Alignment explanation
Indices: 1231045--1231128 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
1231035 ATTATCCGGT
*
1231045 ACACGTAGTAGCCTGTACTTAGTACTAC
1 ACACGTAGTAGCCTGAACTTAGTACTAC
* *
1231073 ACACGT-G--GCCT-AAC-CA-T-CTGAT
1 ACACGTAGTAGCCTGAACTTAGTACT-AC
*
1231095 ACACGTAGTAGCCTGCACTTAGTACTAC
1 ACACGTAGTAGCCTGAACTTAGTACTAC
1231123 ACACGT
1 ACACGT
1231129 GATCACAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 2 0.05
25 8 0.19
26 2 0.05
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (28 bp):
ACACGTAGTAGCCTGAACTTAGTACTAC
Found at i:1233351 original size:30 final size:30
Alignment explanation
Indices: 1233307--1233375 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
1233297 TAAAGATAAC
* *
1233307 AAGAAAACC-GAATAAAGAAATCCAAGA-TA
1 AAGAAACCCAGAATAAA-AAAACCAAGAGTA
* *
1233336 GAGAAACCCAGAATAAAAAAACCTAGAGTA
1 AAGAAACCCAGAATAAAAAAACCAAGAGTA
1233366 AAGAAACCCA
1 AAGAAACCCA
1233376 AGATACGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAAAAACCAAGAGTA
Found at i:1236323 original size:81 final size:81
Alignment explanation
Indices: 1236191--1236442 Score: 272
Period size: 81 Copynumber: 3.1 Consensus size: 81
1236181 TTAGTTTACC
* * * * * * *
1236191 AAATTACCAAAATACCCTTAGTTTATAAAATCACCAAAATACCACTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
*
1236256 ATACCCTTGGTTTATA
66 ATACCCTTGATTTATA
1236272 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
* * *
1236337 ATACCCCTGATTTGTG
66 ATACCCTTGATTTATA
** * *** ** * *
1236353 AAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTACCAA
* *
1236417 AGTACCCTTGATTTACA
65 AATACCCTTGATTTATA
*
1236434 GAATTACCA
1 AAATTACCA
1236443 TTTTACCCTC
Statistics
Matches: 141, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
80 5 0.04
81 136 0.96
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCTTGATTTATA
Found at i:1236343 original size:27 final size:27
Alignment explanation
Indices: 1236191--1236369 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
1236181 TTAGTTTACC
* * *
1236191 AAATTACCAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
1236218 AAATCACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
1236245 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
1236272 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
1236299 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
1236326 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
1236353 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
1236370 TCGACCTGTA
Statistics
Matches: 131, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:1236422 original size:27 final size:27
Alignment explanation
Indices: 1236191--1236477 Score: 213
Period size: 27 Copynumber: 10.6 Consensus size: 27
1236181 TTAGTTTACC
* *
1236191 AAATTACCAAAATACCCT-TAGTTTATA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
1236218 AAATCACCAAAATACCACT-GGTTTGTA
1 AAATTACCAAAATACC-CTCGATTTGTA
* * * *
1236245 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
1236272 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
1236299 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
1236326 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
1236353 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
1236380 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
1236407 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** * **
1236434 GAATTACCATTTTACCCTCAATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
1236461 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
1236478 CTGTAGGGTA
Statistics
Matches: 213, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.01
27 207 0.97
28 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:1236492 original size:27 final size:27
Alignment explanation
Indices: 1236462--1236790 Score: 432
Period size: 27 Copynumber: 12.3 Consensus size: 27
1236452 CAATTTACAA
1236462 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
1236489 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
1236516 AATTATCGGAATA-CCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
1236542 AATTACCGGAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
1236569 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
1236596 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
1236623 AATTACCGAAATATCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
1236650 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
1236677 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
1236704 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
1236731 AATTACTAAAATTA-CCCTATAGGGTGG
1 AATTACCGAAA-TACCCCTGTAGGGTAG
* *
1236758 AATTACC-AAGATA-CCTTGTAGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
1236784 AATTACC
1 AATTACC
1236791 ATTTTGCCCC
Statistics
Matches: 266, Mismatches: 33, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
26 44 0.17
27 220 0.83
28 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:1237269 original size:22 final size:22
Alignment explanation
Indices: 1237217--1237281 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
1237207 TTAAAGCCTT
* *
1237217 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
1237239 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
1237261 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
1237282 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:1237470 original size:27 final size:27
Alignment explanation
Indices: 1237440--1237541 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
1237430 ATTCTGTTAA
* *
1237440 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
1237467 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
1237494 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
1237521 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
1237542 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:1237716 original size:6 final size:6
Alignment explanation
Indices: 1237678--1237754 Score: 52
Period size: 6 Copynumber: 12.3 Consensus size: 6
1237668 TTGCATTCAC
* * *
1237678 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
1237729 ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
1237755 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
5 4 0.07
6 38 0.68
7 12 0.21
8 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:1237719 original size:25 final size:25
Alignment explanation
Indices: 1237689--1237771 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 25
1237679 TTCTGATTTT
1237689 TGATTCTGTTACCTGATACTGATTC
1 TGATTCTGTTACCTGATACTGATTC
* *
1237714 TGATTCTGTCACCTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTC
* *
1237739 TGATTCTAGTT--CTGATAATGTTTC
1 TGATTCT-GTTACCTGATACTGATTC
*
1237763 TTATTCTGT
1 TGATTCTGT
1237772 AATGGGTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.04
24 16 0.32
25 30 0.60
26 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (25 bp):
TGATTCTGTTACCTGATACTGATTC
Found at i:1239607 original size:50 final size:49
Alignment explanation
Indices: 1239443--1239667 Score: 288
Period size: 49 Copynumber: 4.5 Consensus size: 49
1239433 CTGGTACGCA
* * * *
1239443 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACATG
1239492 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACATG
* ** * *
1239541 TAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACATG
* * * ***
1239591 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACATG
1239642 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
1239668 TGCAACCTCA
Statistics
Matches: 154, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 77 0.50
50 42 0.27
51 34 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACATG
Found at i:1239616 original size:99 final size:100
Alignment explanation
Indices: 1239430--1239667 Score: 300
Period size: 99 Copynumber: 2.4 Consensus size: 100
1239420 TAGCCAAAGC
* * * * ** *
1239430 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
1239495 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTGCACTTAGTACTACACACGTGATCACAAT
** * * * *
1239528 TATCCGGTACATGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACATGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
*
1239593 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
1239629 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
1239668 TGCAACCTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 38 0.32
99 42 0.36
100 1 0.01
101 36 0.31
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:1240832 original size:13 final size:13
Alignment explanation
Indices: 1240814--1240848 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
1240804 AAAAATTGGC
1240814 TTTTAATTTTGTA
1 TTTTAATTTTGTA
1240827 TTTTAATTTTGTA
1 TTTTAATTTTGTA
1240840 TTTTAATTT
1 TTTTAATTT
1240849 ATTTTACCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTTAATTTTGTA
Found at i:1242494 original size:55 final size:55
Alignment explanation
Indices: 1242429--1242535 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
1242419 ACCATGGGTG
** * *
1242429 TTCCACACGGGCGTGTTGCACGCCCGTGTTGTTTTGGCAGGCTCGCCCACGGTTA
1 TTCCACACGGGCGTGTCACACGCCCGTGTTGTTTTGACAGGCTCGACCACGGTTA
*
1242484 TTCCACACGGGCGTGTCACATGCCCGTGTTGTTTTGACAGGCTCGACCACGG
1 TTCCACACGGGCGTGTCACACGCCCGTGTTGTTTTGACAGGCTCGACCACGG
1242536 CCATGTCACG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.13, C:0.31, G:0.30, T:0.26
Consensus pattern (55 bp):
TTCCACACGGGCGTGTCACACGCCCGTGTTGTTTTGACAGGCTCGACCACGGTTA
Found at i:1243665 original size:17 final size:17
Alignment explanation
Indices: 1243643--1243676 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1243633 GTAAATCTCC
*
1243643 TTGGGTATTTTAGTTTG
1 TTGGGTAGTTTAGTTTG
*
1243660 TTGGGTAGTTTATTTTG
1 TTGGGTAGTTTAGTTTG
1243677 GAGAATGGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.59
Consensus pattern (17 bp):
TTGGGTAGTTTAGTTTG
Found at i:1248809 original size:24 final size:24
Alignment explanation
Indices: 1248734--1248813 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
1248724 ATGTTCTCAC
*
1248734 GAGCTGGAAATCAGTAAGCTAATAT
1 GAGCT-GAAATCAGTAAGCTCATAT
* **
1248759 GAACTGAGAATTGGTAAGCTC-TCAT
1 GAGCTGA-AATCAGTAAGCTCAT-AT
*
1248784 GAGCTGAAATCAATAAGCTCATAT
1 GAGCTGAAATCAGTAAGCTCATAT
1248808 GAGCTG
1 GAGCTG
1248814 TGGTGTGTCC
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
24 21 0.48
25 23 0.52
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (24 bp):
GAGCTGAAATCAGTAAGCTCATAT
Found at i:1251513 original size:27 final size:27
Alignment explanation
Indices: 1251482--1251540 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
1251472 TACAGAGCAT
1251482 AAGGGCATAATCG-TCATTTTACCATAC
1 AAGGGCATAA-CGATCATTTTACCATAC
* * *
1251509 AAGGGTATTACGATCATTTTACCCTAC
1 AAGGGCATAACGATCATTTTACCATAC
1251536 AAGGG
1 AAGGG
1251541 TATTATGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (27 bp):
AAGGGCATAACGATCATTTTACCATAC
Found at i:1251837 original size:20 final size:20
Alignment explanation
Indices: 1251812--1251849 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1251802 TGGGCCCACA
**
1251812 TGGCCCATTTCGGCCCAACG
1 TGGCCCATAACGGCCCAACG
1251832 TGGCCCATAACGGCCCAA
1 TGGCCCATAACGGCCCAA
1251850 GTCCATGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.39, G:0.24, T:0.16
Consensus pattern (20 bp):
TGGCCCATAACGGCCCAACG
Found at i:1259885 original size:20 final size:20
Alignment explanation
Indices: 1259860--1259897 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1259850 GACTAAACCG
1259860 AAAACTTTAG-AAATTTTTAC
1 AAAAC-TTAGAAAATTTTTAC
1259880 AAAACTTAGAAAATTTTT
1 AAAACTTAGAAAATTTTT
1259898 CCATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
AAAACTTAGAAAATTTTTAC
Found at i:1268346 original size:48 final size:48
Alignment explanation
Indices: 1268193--1268474 Score: 212
Period size: 48 Copynumber: 5.9 Consensus size: 48
1268183 TTGGGTGATT
* * * *
1268193 TGTGTGCCAGCGTAAGACCATGTCTGGGACATGGCGTCAGCCA-CAATA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CATTAATA
* * * * * * * *
1268241 TGAGAGCCAGTGTAAAATCATGTTTGGAACATGGCATCGGGGA-T-GT-
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTAATA
* *
1268287 TGTGAAAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCATTAATA
1 TGTG--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTAATA
* * * * *
1268337 TGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCACCAGCATTGAGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTAATA
* * * * * * ** *
1268385 CGAGAGCTAGTGTAAGACCATGTCTAGGACATGGTATCAGCCTCGACA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTAATA
* * * *
1268433 TGTGAGCCGGTGTAAGATCATGTTTGGAACATGGCATCAGCA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
1268475 ATTCACCCTC
Statistics
Matches: 184, Mismatches: 44, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
46 3 0.02
47 3 0.02
48 172 0.93
49 2 0.01
50 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTAATA
Found at i:1268436 original size:96 final size:96
Alignment explanation
Indices: 1268204--1268474 Score: 253
Period size: 96 Copynumber: 2.8 Consensus size: 96
1268194 GTGTGCCAGC
* * * * * * *
1268204 GTAAGACCATGTCTGGGACATGGCGTCAGCCA-CAATATGAGAGCCAGTGTAAAATCATGTTTGG
1 GTAAGACCATGTCTAGGACATGGCATCAG-CATCAACATGTGAGCCAGTGTAAGACCATGTCTGG
** * *
1268268 AACATGGCATCGGGGATGTTGTGA--A-AGCTAGT
65 AACATGGCA-CCAGCA--TTGAGACGAGAGCTAGT
* * * * * * *
1268300 GTAAGACCATGTTTGGGACATGGCATCAGCATTAATATGTGTGCTAGTGTAAGACCATGTCTGGG
1 GTAAGACCATGTCTAGGACATGGCATCAGCATCAACATGTGAGCCAGTGTAAGACCATGTCTGGA
1268365 ACATGGCACCAGCATTGAGACGAGAGCTAGT
66 ACATGGCACCAGCATTGAGACGAGAGCTAGT
* * * * * *
1268396 GTAAGACCATGTCTAGGACATGGTATCAGCCTCGACATGTGAGCCGGTGTAAGATCATGTTTGGA
1 GTAAGACCATGTCTAGGACATGGCATCAGCATCAACATGTGAGCCAGTGTAAGACCATGTCTGGA
*
1268461 ACATGGCATCAGCA
66 ACATGGCACCAGCA
1268475 ATTCACCCTC
Statistics
Matches: 143, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
93 5 0.03
95 6 0.04
96 132 0.92
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (96 bp):
GTAAGACCATGTCTAGGACATGGCATCAGCATCAACATGTGAGCCAGTGTAAGACCATGTCTGGA
ACATGGCACCAGCATTGAGACGAGAGCTAGT
Found at i:1270109 original size:25 final size:24
Alignment explanation
Indices: 1270061--1270109 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
1270051 ATTTGTTTTA
*
1270061 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATGATTTTAAAT
1270085 ATATTTGATTTATTAT-ATTTTAAAT
1 ATATTTG-TTT-TTATGATTTTAAAT
1270110 TTTTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 11 0.50
26 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATGATTTTAAAT
Found at i:1273102 original size:16 final size:16
Alignment explanation
Indices: 1273081--1273111 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1273071 CCTTTATTTA
1273081 ATAATACAAAATCATT
1 ATAATACAAAATCATT
*
1273097 ATAATACAAAGTCAT
1 ATAATACAAAATCAT
1273112 AGCCGTCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAATACAAAATCATT
Done.