Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01004988.1 Corchorus capsularis cultivar CVL-1 contig05006, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5018
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Found at i:3150 original size:325 final size:325
Alignment explanation
Indices: 2000--4660 Score: 2650
Period size: 325 Copynumber: 8.2 Consensus size: 325
1990 ACCCGAAAGA
* * * * * *
2000 TTTTTCCTCAATTT-TTGGCAAAAATACTCATAAAAATATATATAATTCAACG-CAAAAAGATTG
1 TTTTTTCTCAATTTCTT-GCCACAATACACAGAAAAA-ATATATAATTCAATGCCAAAAAGATTG
* * * * * * * * * * *
2063 AAGGACTTTT-AGCCCTTTTAATATCGTTTTTCATTTTTTTTTCTGAATTAATTTTTATTTAAAT
64 ACGGGCTTTTCA-CGCTTCTAATATCGTTTTCCTTTTTTTTTTCCGATTTAGTTTCTAATTAAAT
** * ** * * * * * * *
2127 CGAAACAAGATTCCGATGCACGTAAAAACAAATCCTTA-AATTCGATATGGCTGAGATTTGATTA
128 CGAAACAAGATTGAGATGCTCAAAAAAACAAATCATTATAA-CCAACATTGCTGAGATTTGGTTC
* * * * * * * **
2191 GACT-AATAAAAATATTTCAAGGAGT-TTCGGTGGCAAAAACCATGCAAAACAGAG-CGGTGGC-
192 GA-TGAATATAGATATTTCAAGCAGTCTT-TGAGCCAAAAATCATGCAAAATTGAGTCGG-GGCT
* ** * * ** * * * *
2252 CCTGAAAGCGTTTTTAG-TAAAAAACCGTGATAATTATTACACAATTTCGGCTAAAAACTG-ACC
254 CCGGAACCCCTTTTTAGCAAAAAAACCGTGATGGTTAGTACACGATTTTGGCTAAAAACTGAACT
*
2315 CAAA--A
319 CAAATTT
** * * * * * *
2320 AATTTTCACAATTTTTTTGTCACAACA-ACCAG-AAAAATATATAATTCAAAGCCAAAAAGATTA
1 TTTTTTCTCAA-TTTCTTGCCACAATACA-CAGAAAAAATATATAATTCAATGCCAAAAAGATTG
* * * * * *
2383 ACGGGTTTTTCACGCTTCTAATATCGTTTT--TTAATTTTTCTCCGAATTAATTTATAATTAAAT
64 ACGGGCTTTTCACGCTTCTAATATCGTTTTCCTT-TTTTTTTTCCGATTTAGTTTCTAATTAAAT
* * * ** * * * *
2446 CGAAACAAGATTCAAATGCTCATAAAAACAAATCCCTATATCC-A-GTGTGACTGACAATTGGTT
128 CGAAACAAGATTGAGATGCTCAAAAAAACAAATCATTATAACCAACAT-TG-CTGAGATTTGGTT
* * * * *
2509 CAATGAATATAGATATTTCAAGAAGTCTTTGCGCAAAAAATCATGCAAAATTGAGACGGGGCTCC
191 CGATGAATATAGATATTTCAAGCAGTCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGGCTCC
* *** * * ** * * * *
2574 CGAACGATTTTTTAGC-CAAAAACCGTAATGGTTTTTTTTTTCTCAATTTCGGCTAAAAACTG-A
256 GGAACCCCTTTTTAGCAAAAAAACCGTGATGG----TTAGTACACGATTTTGGCTAAAAACTGAA
* **
2637 CCCGAAAGGT
317 CTC-AAATTT
* *
2647 TTTTTTCTCAATTTTTTGCCAGAATTTAGAATACACAGAAAAAATATATAATTCAATGCCAAAAA
1 TTTTTTCTCAATTTCTTGCC-------ACAATACACAGAAAAAATATATAATTCAATGCCAAAAA
* *
2712 GATTGATGGGCTTTTCACGCTTCTAATGTCGTTTTCCCATTTTTTTTTTCCGATTTAGTTTCTAA
59 GATTGACGGGCTTTTCACGCTTCTAATATCGTTTT-CC-TTTTTTTTTTCCGATTTAGTTTCTAA
* *
2777 TTAAATCGAAACAAGATTGAAATGCTCAAAAAAACAAATCCTTATAACCAACATTGCTGAGATTT
122 TTAAATCGAAACAAGATTGAGATGCTCAAAAAAACAAATCATTATAACCAACATTGCTGAGATTT
* * * *
2842 AGTTCGATGAATATAGATATTTCAAGCAGTCTTTGAGCAAAAAATCATGCTAAATTGAGCCGGGG
187 GGTTCGATGAATATAGATATTTCAAGCAGTCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGG
* * * * *
2907 CTCCGGAACCCCTTTTT-TCAAAAAAATCGTGATGGTTAGTAAACAATTTTAGCTAAAAACTGAA
252 CTCCGGAACCCCTTTTTAGCAAAAAAACCGTGATGGTTAGTACACGATTTTGGCTAAAAACTGAA
2971 CT-AAATTTT
317 CTCAAA-TTT
*
2980 TTTTTTCTCAATTTCTTGCCACAATACACAGAAAATATATATAA-TCTAATGCCAAAAAGATTGA
1 TTTTTTCTCAATTTCTTGCCACAATACACAGAAAAAATATATAATTC-AATGCCAAAAAGATTGA
* ** * *
3044 TGGGCTTTGAATGCTTCTAATGTCGTTATTCCTTTTTTTTTTCCGATTTAGTTTCTAATTAAATC
65 CGGGCTTTTCACGCTTCTAATATCGTT-TTCCTTTTTTTTTTCCGATTTAGTTTCTAATTAAATC
* * *
3109 GAAACAAGATTGAGATACTCAAAAAAACAAATCCTTATAACCAACGTTGCTGAGATTTGGTTCGA
129 GAAACAAGATTGAGATGCTCAAAAAAACAAATCATTATAACCAACATTGCTGAGATTTGGTTCGA
*
3174 TGAATATAGATATTTCAAGCAATCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGA
194 TGAATATAGATATTTCAAGCAGTCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGA
*
3239 ACCCCTTTTTAGCAAAAAAACCATGATGGTTAGTACACGATTTTGGCTAAAAACTGAA-TCAAAT
259 ACCCCTTTTTAGCAAAAAAACCGTGATGGTTAGTACACGATTTTGGCTAAAAACTGAACTCAAAT
3303 TT
324 TT
* * * *
3305 TTTTTTCTCAATTTCTTGCCACAAGACACAGAAAATATATATAATCCAATACCAAAAAGATTGAC
1 TTTTTTCTCAATTTCTTGCCACAATACACAGAAAAAATATATAATTCAATGCCAAAAAGATTGAC
** * * *
3370 GGGC-TTTCACGCTTCTAATATCGTTTTTGTTTTCTATTTTTTTCCGAATTAATTTGTAATTAAA
66 GGGCTTTTCACGCTTCTAATATCG-TTTT-CCTT-T-TTTTTTTCCGATTTAGTTTCTAATTAAA
* * * * * *
3434 TCGAAAAAAGATTCAGATGCTCATAAAAACAAATCATTATATCC-A-A-TG-AGACAGATTTGTT
127 TCGAAACAAGATTGAGATGCTCAAAAAAACAAATCATTATAACCAACATTGCTG--AGATTTGGT
* *
3495 TCGATGAATATAGATATTTCAAGAAGTCTTTGAGCCAAAAATCATGCAAAATTGAG-CTGGGCTC
190 TCGATGAATATAGATATTTCAAGCAGTCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGGCTC
* *** * ** * *
3559 CGAAACGTGTTTTTTAGGAAAAAAACCGTGATGGTTAGTATGCGATTTCGGCTAAAAACT-AACC
255 CGGAAC-CCCTTTTTAGCAAAAAAACCGTGATGGTTAGTACACGATTTTGGCTAAAAACTGAACT
*
3623 CGAAA-AT
319 C-AAATTT
* *
3630 TTTTTTCTTAATTTTTTGCCACAATACAC--AAAAAATATATAATTCAATGCCAAAAAGATTGAC
1 TTTTTTCTCAATTTCTTGCCACAATACACAGAAAAAATATATAATTCAATGCCAAAAAGATTGAC
* * *
3693 AGGCATTTCAAGCTTCTAATATCGTTTTTCCTTTTTTTTTT-CGATTTAGTTTCTAATTAAATCG
66 GGGCTTTTCACGCTTCTAATATCG-TTTTCCTTTTTTTTTTCCGATTTAGTTTCTAATTAAATCG
* *
3757 AAACAAGATTGAGATACTCAAAAAAATAAATCATTATAACCAACATTGCTGAGATTTGGTTCGAT
130 AAACAAGATTGAGATGCTCAAAAAAACAAATCATTATAACCAACATTGCTGAGATTTGGTTCGAT
* * *
3822 GAATAAAGATATTTCAAGCAGTCTTTGAGCCAAAAATCATTCAAAATTGAGTCGGGACTCCGGAA
195 GAATATAGATATTTCAAGCAGTCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAA
* * *
3887 CCCGTTTTTAGCAAAAAAACCGAGATGGTTAGTACACGGTTTTGGCTAAAAACTG-ACTCGAAAT
260 CCCCTTTTTAGCAAAAAAACCGTGATGGTTAGTACACGATTTTGGCTAAAAACTGAACTC-AAA-
3951 TTTT
323 -TTT
* *
3955 TTTTTTCTAAAATTT-TTGCCACAATACACTGAAAAAATATATAATTCAATGCCAAAAAGATTGA
1 TTTTTTCT-CAATTTCTTGCCACAATACACAGAAAAAATATATAATTCAATGCCAAAAAGATTGA
* * ** *
4019 TGGGCTTTTCACGCTTCTAATGTCGTTTTCCCATTTTTTTCCCGATTTAGTTTCTAATTAAATCG
65 CGGGCTTTTCACGCTTCTAATATCGTTTTCCTTTTTTTTTTCCGATTTAGTTTCTAATTAAATCG
* * *
4084 AAACAAGATTGAGATGCTCAAAAAAACAAAACCTTGTAACCAACATTGCTGAGATTTGGTTCGAT
130 AAACAAGATTGAGATGCTCAAAAAAACAAATCATTATAACCAACATTGCTGAGATTTGGTTCGAT
*
4149 GAATATAGATATTTCAAGCAGTCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGACTCCGGAA
195 GAATATAGATATTTCAAGCAGTCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAA
*
4214 CCCCTTTTTAGCAAAAAAATCGTGATGGTTAGTACACGATTTTGGCTAAAAACTGAA-TCAAATG
260 CCCCTTTTTAGCAAAAAAACCGTGATGGTTAGTACACGATTTTGGCTAAAAACTGAACTCAAAT-
4278 TT
324 TT
* *
4280 TTTTTTCTCAATTTCTTGCCACAATACACA-AAAAATATATATAATCCAATACCAAAAAGATTGA
1 TTTTTTCTCAATTTCTTGCCACAATACACAGAAAAA-ATATATAATTCAATGCCAAAAAGATTGA
* * * * * * *
4344 CGGGCTTTTCACGCTTTTAATATCGTTTT-TTTTCCATTTTTTTACGAATTAATTTTTTATTAAA
65 CGGGCTTTTCACGCTTCTAATATCGTTTTCCTTT---TTTTTTTCCGATTTAGTTTCTAATTAAA
* * * * * * *
4408 TTGAAA-AATGATTCAGATGCTCATAAAAACAAATCATTATATCC-A-A-TG-AGACAAATTTGT
127 TCGAAACAA-GATTGAGATGCTCAAAAAAACAAATCATTATAACCAACATTGCTG--AGATTTGG
* * * *
4468 TTCGATAAATATAGATATTTCAAGAAGTCTTTGAGTCAAAAATCATGCAAAATTGAG-CTGGGCT
189 TTCGATGAATATAGATATTTCAAGCAGTCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGGCT
* *** ** * *
4532 CCGAAACGTGTTTTTTAGGC--AAAAACCGTGATGGTTAGTATGCGATTTCGGCCAAAAACT-AA
254 CCGGAAC-CCCTTTTTA-GCAAAAAAACCGTGATGGTTAGTACACGATTTTGGCTAAAAACTGAA
* *
4594 CCCGAAA-AT
317 CTC-AAATTT
* * * *
4603 TTGTTTCTTAATTTTTTGCCACAATACACATAAAAAATATATAATTCAATGCCAAAAA
1 TTTTTTCTCAATTTCTTGCCACAATACACAGAAAAAATATATAATTCAATGCCAAAAA
4661 AAACCGTGAT
Statistics
Matches: 1992, Mismatches: 267, Indels: 161
0.82 0.11 0.07
Matches are distributed among these distances:
317 1 0.00
318 4 0.00
319 124 0.06
320 129 0.06
321 19 0.01
322 116 0.06
323 101 0.05
324 151 0.08
325 545 0.27
326 149 0.07
327 381 0.19
328 1 0.00
332 3 0.00
333 47 0.02
334 59 0.03
336 1 0.00
337 155 0.08
338 5 0.00
339 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (325 bp):
TTTTTTCTCAATTTCTTGCCACAATACACAGAAAAAATATATAATTCAATGCCAAAAAGATTGAC
GGGCTTTTCACGCTTCTAATATCGTTTTCCTTTTTTTTTTCCGATTTAGTTTCTAATTAAATCGA
AACAAGATTGAGATGCTCAAAAAAACAAATCATTATAACCAACATTGCTGAGATTTGGTTCGATG
AATATAGATATTTCAAGCAGTCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAAC
CCCTTTTTAGCAAAAAAACCGTGATGGTTAGTACACGATTTTGGCTAAAAACTGAACTCAAATTT
Found at i:4217 original size:974 final size:973
Alignment explanation
Indices: 2349--4660 Score: 3459
Period size: 974 Copynumber: 2.4 Consensus size: 973
2339 TCACAACAAC
* * *
2349 CAGAAAA-ATATATAATTCAA-AGCCAAAAAGATTAACGGGTTTTTCACGCTTCTAATATCG--T
1 CAGAAAATATATATAATCCAATA-CCAAAAAGATTGACGGG-CTTTCACGCTTCTAATATCGTTT
* * *
2410 TTTTT-AATTTTTCTCCGAATTAATTTATAATTAAATCGAAACAAGATTCAAATGCTCATAAAAA
64 TTTTTCAATTTTTTTCCGAATTAATTTATAATTAAATCGAAAAAAGATTCAGATGCTCATAAAAA
** * * * *
2474 CAAATCCCTATATCCAGTGTGACTGACAA-TTGGTTCAATGAATATAGATATTTCAAGAAGTCTT
129 CAAATCATTATATCCAATGAGAC--A-AATTTGTTTCGATGAATATAGATATTTCAAGAAGTCTT
* * * * * *
2538 TGCGCAAAAAATCATGCAAAATTGAGACGGGGCTCCCG-AACG-ATTTTTTAGCCAAAAACCGTA
191 TGAGCCAAAAATCATGCAAAATTGAG-CTGGGCT-CCGAAACGTGTTTTTTAGGCAAAAACCGTG
** * * * * * *
2601 ATGGTTTTTTTTTTCTCAATTTCGGCTAAAAACTGACCCGAAAGGTTTTTTTCTCAATTTTTTGC
254 ATGG---TTAGTAT-GCGATTTCGGCTAAAAACTAACCCGAAA-ATTTTTTTCTTAATTTTTTGC
* ** * *
2666 CAGAATTTAGAATACACAGAAAAAATATATAATTCAATGCCAAAAAGATTGATGGGCTTTTCACG
314 C-------ACAATACACA-AAAAAATATATAATTCAATGCCAAAAAGATTGACAGGCATTTCAAG
*
2731 CTTCTAATGTCGTTTTCCCATTTTTTTTTTCCGATTTAGTTTCTAATTAAATCGAAACAAGATTG
371 CTTCTAATATCGTTTTCCCATTTTTTTTTTCCGATTTAGTTTCTAATTAAATCGAAACAAGATTG
* * *
2796 AAATGCTCAAAAAAACAAATCCTTATAACCAACATTGCTGAGATTTAGTTCGATGAATATAGATA
436 AAATACTCAAAAAAACAAATCATTATAACCAACATTGCTGAGATTTAGTTCGATGAATAAAGATA
* * *
2861 TTTCAAGCAGTCTTTGAGCAAAAAATCATGCTAAATTGAGCCGGGGCTCCGGAACCCCTTTTTTC
501 TTTCAAGCAGTCTTTGAGCAAAAAATCATGCAAAATTGAGCCGGGACTCCGGAACCCCTTTTTGC
* * *
2926 AAAAAAATCGTGATGGTTAGTAAACAATTTTAGCTAAAAACTGAACTAAATTTTTTTTTTCTCAA
566 AAAAAAACCGAGATGGTTAGTAAACAATTTTAGCTAAAAACTGAACTAAATTTTTTTTTTCTAAA
* *
2991 TTTCTTGCCACAATACACAGAAAATATATATAATCTAATGCCAAAAAGATTGATGGGCTTTGAAT
631 TTTCTTGCCACAATACACAGAAAAAATATATAATCTAATGCCAAAAAGATTGATGGGCTTTGAAC
** *
3056 GCTTCTAATGTCGTTATTCCTTTTTTTTTTCCGATTTAGTTTCTAATTAAATCGAAACAAGATTG
696 GCTTCTAATGTCGTTATTCCCATTTTTTTCCCGATTTAGTTTCTAATTAAATCGAAACAAGATTG
* *
3121 AGATACTCAAAAAAACAAATCCTTATAACCAACGTTGCTGAGATTTGGTTCGATGAATATAGATA
761 AGATACTCAAAAAAACAAAACCTTATAACCAACATTGCTGAGATTTGGTTCGATGAATATAGATA
*
3186 TTTCAAGCAATCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACCCCTTTTTAG
826 TTTCAAGCAATCTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGACTCCGGAACCCCTTTTTAG
3251 CAAAAAAACCATGATGGTTAGTACACGATTTTGGCTAAAAACTGAATCAAAT-TTTTTTTTCTCA
891 CAAAAAAACCATGATGGTTAGTACACGATTTTGGCTAAAAACTGAATCAAATGTTTTTTTTCTCA
3315 ATTTCTTGCCACAAGACA
956 ATTTCTTGCCACAAGACA
3333 CAGAAAATATATATAATCCAATACCAAAAAGATTGACGGGCTTTCACGCTTCTAATATCGTTTTT
1 CAGAAAATATATATAATCCAATACCAAAAAGATTGACGGGCTTTCACGCTTCTAATATCG-TTTT
* *
3398 GTTTTCTATTTTTTTCCGAATTAATTTGTAATTAAATCGAAAAAAGATTCAGATGCTCATAAAAA
65 -TTTTCAATTTTTTTCCGAATTAATTTATAATTAAATCGAAAAAAGATTCAGATGCTCATAAAAA
*
3463 CAAATCATTATATCCAATGAGACAGATTTGTTTCGATGAATATAGATATTTCAAGAAGTCTTTGA
129 CAAATCATTATATCCAATGAGACAAATTTGTTTCGATGAATATAGATATTTCAAGAAGTCTTTGA
*
3528 GCCAAAAATCATGCAAAATTGAGCTGGGCTCCGAAACGTGTTTTTTAGGAAAAAAACCGTGATGG
194 GCCAAAAATCATGCAAAATTGAGCTGGGCTCCGAAACGTGTTTTTTAGG-CAAAAACCGTGATGG
3593 TTAGTATGCGATTTCGGCTAAAAACTAACCCGAAAATTTTTTTCTTAATTTTTTGCCACAATACA
258 TTAGTATGCGATTTCGGCTAAAAACTAACCCGAAAATTTTTTTCTTAATTTTTTGCCACAATACA
*
3658 C-AAAAAATATATAATTCAATGCCAAAAAGATTGACAGGCATTTCAAGCTTCTAATATCGTTTTT
323 CAAAAAAATATATAATTCAATGCCAAAAAGATTGACAGGCATTTCAAGCTTCTAATATCGTTTTC
* *
3722 CC-TTTTTTTTTT-CGATTTAGTTTCTAATTAAATCGAAACAAGATTGAGATACTCAAAAAAATA
388 CCATTTTTTTTTTCCGATTTAGTTTCTAATTAAATCGAAACAAGATTGAAATACTCAAAAAAACA
*
3785 AATCATTATAACCAACATTGCTGAGATTTGGTTCGATGAATAAAGATATTTCAAGCAGTCTTTGA
453 AATCATTATAACCAACATTGCTGAGATTTAGTTCGATGAATAAAGATATTTCAAGCAGTCTTTGA
* * * *
3850 GCCAAAAATCATTCAAAATTGAGTCGGGACTCCGGAACCCGTTTTTAGCAAAAAAACCGAGATGG
518 GCAAAAAATCATGCAAAATTGAGCCGGGACTCCGGAACCCCTTTTT-GCAAAAAAACCGAGATGG
* ** *
3915 TTAGTACACGGTTTTGGCTAAAAACTG-ACTCGAAATTTTTTTTTTTCTAAAATTT-TTGCCACA
582 TTAGTAAACAATTTTAGCTAAAAACTGAACT--AAA-TTTTTTTTTTCT-AAATTTCTTGCCACA
* **
3978 ATACACTGAAAAAATATATAAT-TCAATGCCAAAAAGATTGATGGGCTTTTCACGCTTCTAATGT
643 ATACACAGAAAAAATATATAATCT-AATGCCAAAAAGATTGATGGGCTTTGAACGCTTCTAATGT
*
4042 CGTT-TTCCCATTTTTTTCCCGATTTAGTTTCTAATTAAATCGAAACAAGATTGAGATGCTCAAA
707 CGTTATTCCCATTTTTTTCCCGATTTAGTTTCTAATTAAATCGAAACAAGATTGAGATACTCAAA
* *
4106 AAAACAAAACCTTGTAACCAACATTGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGCAGT
772 AAAACAAAACCTTATAACCAACATTGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGCAAT
* *
4171 CTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGACTCCGGAACCCCTTTTTAGCAAAAAAATCG
837 CTTTGAGCCAAAAATCATGCAAAATTGAGTCGGGACTCCGGAACCCCTTTTTAGCAAAAAAACCA
4236 TGATGGTTAGTACACGATTTTGGCTAAAAACTGAATCAAATGTTTTTTTTCTCAATTTCTTGCCA
902 TGATGGTTAGTACACGATTTTGGCTAAAAACTGAATCAAATGTTTTTTTTCTCAATTTCTTGCCA
*
4301 CAATACA
967 CAAGACA
* *
4308 CAAAAAATATATATAATCCAATACCAAAAAGATTGACGGGCTTTTCACGCTTTTAATATCGTTTT
1 CAGAAAATATATATAATCCAATACCAAAAAGATTGACGGGC-TTTCACGCTTCTAATATCGTTTT
* * * * * *
4373 TTTTCCATTTTTTTACGAATTAATTTTTTATTAAATTGAAAAATGATTCAGATGCTCATAAAAAC
65 TTTTCAATTTTTTTCCGAATTAATTTATAATTAAATCGAAAAAAGATTCAGATGCTCATAAAAAC
*
4438 AAATCATTATATCCAATGAGACAAATTTGTTTCGATAAATATAGATATTTCAAGAAGTCTTTGAG
130 AAATCATTATATCCAATGAGACAAATTTGTTTCGATGAATATAGATATTTCAAGAAGTCTTTGAG
*
4503 TCAAAAATCATGCAAAATTGAGCTGGGCTCCGAAACGTGTTTTTTAGGCAAAAACCGTGATGGTT
195 CCAAAAATCATGCAAAATTGAGCTGGGCTCCGAAACGTGTTTTTTAGGCAAAAACCGTGATGGTT
* *
4568 AGTATGCGATTTCGGCCAAAAACTAACCCGAAAATTTGTTTCTTAATTTTTTGCCACAATACACA
260 AGTATGCGATTTCGGCTAAAAACTAACCCGAAAATTTTTTTCTTAATTTTTTGCCACAATACACA
4633 TAAAAAATATATAATTCAATGCCAAAAA
325 -AAAAAATATATAATTCAATGCCAAAAA
4661 AAACCGTGAT
Statistics
Matches: 1219, Mismatches: 88, Indels: 51
0.90 0.06 0.04
Matches are distributed among these distances:
972 153 0.13
973 126 0.10
974 452 0.37
975 181 0.15
976 31 0.03
983 20 0.02
984 51 0.04
985 35 0.03
986 12 0.01
987 68 0.06
988 17 0.01
989 73 0.06
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (973 bp):
CAGAAAATATATATAATCCAATACCAAAAAGATTGACGGGCTTTCACGCTTCTAATATCGTTTTT
TTTCAATTTTTTTCCGAATTAATTTATAATTAAATCGAAAAAAGATTCAGATGCTCATAAAAACA
AATCATTATATCCAATGAGACAAATTTGTTTCGATGAATATAGATATTTCAAGAAGTCTTTGAGC
CAAAAATCATGCAAAATTGAGCTGGGCTCCGAAACGTGTTTTTTAGGCAAAAACCGTGATGGTTA
GTATGCGATTTCGGCTAAAAACTAACCCGAAAATTTTTTTCTTAATTTTTTGCCACAATACACAA
AAAAATATATAATTCAATGCCAAAAAGATTGACAGGCATTTCAAGCTTCTAATATCGTTTTCCCA
TTTTTTTTTTCCGATTTAGTTTCTAATTAAATCGAAACAAGATTGAAATACTCAAAAAAACAAAT
CATTATAACCAACATTGCTGAGATTTAGTTCGATGAATAAAGATATTTCAAGCAGTCTTTGAGCA
AAAAATCATGCAAAATTGAGCCGGGACTCCGGAACCCCTTTTTGCAAAAAAACCGAGATGGTTAG
TAAACAATTTTAGCTAAAAACTGAACTAAATTTTTTTTTTCTAAATTTCTTGCCACAATACACAG
AAAAAATATATAATCTAATGCCAAAAAGATTGATGGGCTTTGAACGCTTCTAATGTCGTTATTCC
CATTTTTTTCCCGATTTAGTTTCTAATTAAATCGAAACAAGATTGAGATACTCAAAAAAACAAAA
CCTTATAACCAACATTGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGCAATCTTTGAGCC
AAAAATCATGCAAAATTGAGTCGGGACTCCGGAACCCCTTTTTAGCAAAAAAACCATGATGGTTA
GTACACGATTTTGGCTAAAAACTGAATCAAATGTTTTTTTTCTCAATTTCTTGCCACAAGACA
Found at i:4738 original size:107 final size:107
Alignment explanation
Indices: 4552--4767 Score: 333
Period size: 107 Copynumber: 2.0 Consensus size: 107
4542 TTTTTTAGGC
* * * *
4552 AAAAACCGTGATGGTTAGTATGCGATTTCGGCCAAAAACTAACCCGAAAATTTGTTTCTTAATTT
1 AAAAACCGTGATGGTTAGTATACGATTTCGACCAAAAACTAACCCGAAAATTTGTTTCTCAAATT
*
4617 TTTGCCACAATACACATAAAAAATATATAATTCAATGCCAAA
66 TTTGCCACAATACACAGAAAAAATATATAATTCAATGCCAAA
* * * * *
4659 AAAAACCGTGATGGTTAGTATACGATTTTGACTAAAAACTGACCCGAAATTTTTTTTCTCAAATT
1 AAAAACCGTGATGGTTAGTATACGATTTCGACCAAAAACTAACCCGAAAATTTGTTTCTCAAATT
*
4724 TTTGCCACAATACACAGAAAAAATATATAATTCTATGCCAAA
66 TTTGCCACAATACACAGAAAAAATATATAATTCAATGCCAAA
4766 AA
1 AA
4768 GATTGATGGG
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 98 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (107 bp):
AAAAACCGTGATGGTTAGTATACGATTTCGACCAAAAACTAACCCGAAAATTTGTTTCTCAAATT
TTTGCCACAATACACAGAAAAAATATATAATTCAATGCCAAA
Done.